Lactobacillus johnsonii (DSM 10533, ATCC 33200, NCFB 2241)

Name: Lactobacillus johnsonii (DSM 10533, ATCC 33200, NCFB 2241)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 6560

Type strain

Culture col. no. DSM 10533 ATCC 33200 NCFB 2241 CCUG 30725 JCM 2012 7 more

NCBI tax ID(s) 525330 33959

Special Collections DSMZ CCUG JCM KCTC CIP

History DSMZ <- NCFB <- J.L. Johnson, VPI 7960 JCM <-- ATCC 33200 <-- VPI 7960 <-- D. W. Lambe, Jr.. KCTC <- CCUG <- JCM <- ATCC 33200 <- VPI 7960 <- DW Lambe, Jr. CIP <- 1992, F. Gasser, Inst. Pasteur, Paris, France, Lactobacillus acidophilus, group B2 <- J.L. Johnson, Blacksburg, USA : strain VPI 7960 <- D.W. Lambe, USA

Links

Lactobacillus johnsonii DSM 10533 is an anaerobe, Gram-positive bacterium that was isolated from human blood.

Gram-positive anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 3189

LMG 9436,ATCC 33200,CCM 4384,CIP 103620,DSM 10533,JCM 2012,NCFB 2241,NBIMCC 9067,CCUG 30725,NCIMB 702241,NCDO2241,KCTC 3801,KCTC 5085,BCRC 17474,CCRC 17474,CGMCC 1.3348,VTT E-97851

@ref 20215

Last LPSN update 2026-05-29 08:26:26

Domain Bacteria

Phylum Bacillota

Class Bacilli

Order Lactobacillales

Family Lactobacillaceae

Genus Lactobacillus

Species Lactobacillus johnsonii

Full scientific name Lactobacillus johnsonii Fujisawa et al. 1992

BacDive ID	Other strains from **Lactobacillus johnsonii** (14)	Type strain
6561	L. johnsonii D3, DSM 20553, JCM 2122, LMG 18184
131033	L. johnsonii MIII-1B.7-2, DSM 100219
135326	L. johnsonii Omniflora, CIP 103654
135886	L. johnsonii A20, CIP 103781, NCDO 20, VPI 11694
136237	L. johnsonii CIP 103652, ATCC 332, CCUG 44520, JCM 1017, ...
136238	L. johnsonii CCUG 44519, IFO 13952, LMG 9437, JCM 8794, ...
137649	L. johnsonii 63E, 55 098 301, CIP 103782, CIP 71.34, NCDO ...
146549	L. johnsonii CCUG 31413, JCM 8793, LMG 18206
159210	L. johnsonii WCA-380-WT-3D, DSM 106897
160341	L. johnsonii Cla-CZ-4, DSM 108981
160897	L. johnsonii JCM 1022, KCTC 3141, LMG 18175
165303	L. johnsonii JCM 5812, BCRC 14037, LMG 18193
165960	L. johnsonii JCM 8791, LMG 18204
165961	L. johnsonii JCM 8792, LMG 18205

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
67771	positive
120360	positive	rod-shaped
125438			94
125438	positive		93.88

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
3968	MRS MEDIUM (DSMZ Medium 11)	Medium recipe at MediaDive	Name: MRS MEDIUM (DSMZ Medium 11) Composition: Glucose 20.0 g/l Casein peptone 10.0 g/l Meat extract 10.0 g/l Na-acetate 5.0 g/l Yeast extract 5.0 g/l (NH4)3 citrate 2.0 g/l K2HPO4 2.0 g/l Tween 80 1.0 g/l MgSO4 x 7 H2O 0.2 g/l MnSO4 x H2O 0.05 g/l Distilled water
34023	MEDIUM 40- for Lactobacillus and Leuconostoc		Distilled water make up to (1000.000 ml);Man Rogosa Sharp agar (68.000 g)
120360	CIP Medium 40	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
3968	positive	growth	37
34023	positive	growth	37
50246	positive	growth	37
67770	positive	growth	37
67771	positive	growth	37
120360	positive	growth	37-45
120360	negative	growth	15

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
50246	anaerobe
67771	anaerobe
120360	facultative anaerobe
125439	obligate aerobe	97.256

Spore formation

@ref	Spore formation	Confidence
125438		91.94

Murein

@ref	Murein short key	Type
3968	A11.31	A4alpha L-Lys-D-Asp

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68371	27613 ChEBI	amygdalin	-	builds acid from	from API 50CH acid
68371	18305 ChEBI	arbutin	-	builds acid from	from API 50CH acid
68371	17057 ChEBI	cellobiose	-	builds acid from	from API 50CH acid
68371	17108 ChEBI	D-arabinose	-	builds acid from	from API 50CH acid
68371	18333 ChEBI	D-arabitol	-	builds acid from	from API 50CH acid
68371	15824 ChEBI	D-fructose	+	builds acid from	from API 50CH acid
68371	28847 ChEBI	D-fucose	-	builds acid from	from API 50CH acid
68371	17634 ChEBI	D-glucose	+	builds acid from	from API 50CH acid
68371	62318 ChEBI	D-lyxose	-	builds acid from	from API 50CH acid
68371	16899 ChEBI	D-mannitol	-	builds acid from	from API 50CH acid
68371	16988 ChEBI	D-ribose	-	builds acid from	from API 50CH acid
68371	17924 ChEBI	D-sorbitol	-	builds acid from	from API 50CH acid
68371	65327 ChEBI	D-xylose	-	builds acid from	from API 50CH acid
68371	17113 ChEBI	erythritol	-	builds acid from	from API 50CH acid
68371	4853 ChEBI	esculin	+	builds acid from	from API 50CH acid
68371	16813 ChEBI	galactitol	-	builds acid from	from API 50CH acid
68371	24265 ChEBI	gluconate	-	builds acid from	from API 50CH acid
68371	17754 ChEBI	glycerol	-	builds acid from	from API 50CH acid
68371	28087 ChEBI	glycogen	-	builds acid from	from API 50CH acid
68371	15443 ChEBI	inulin	-	builds acid from	from API 50CH acid
68371	30849 ChEBI	L-arabinose	-	builds acid from	from API 50CH acid
68371	18403 ChEBI	L-arabitol	-	builds acid from	from API 50CH acid
68371	18287 ChEBI	L-fucose	-	builds acid from	from API 50CH acid
68371	62345 ChEBI	L-rhamnose	-	builds acid from	from API 50CH acid
68371	17266 ChEBI	L-sorbose	-	builds acid from	from API 50CH acid
68371	65328 ChEBI	L-xylose	-	builds acid from	from API 50CH acid
68371	6731 ChEBI	melezitose	-	builds acid from	from API 50CH acid
68371	28053 ChEBI	melibiose	-	builds acid from	from API 50CH acid
68371	320061 ChEBI	methyl alpha-D-glucopyranoside	-	builds acid from	from API 50CH acid
68371	43943 ChEBI	methyl alpha-D-mannoside	-	builds acid from	from API 50CH acid
68371	74863 ChEBI	methyl beta-D-xylopyranoside	-	builds acid from	from API 50CH acid
68371	17268 ChEBI	myo-inositol	-	builds acid from	from API 50CH acid
68371	59640 ChEBI	N-acetylglucosamine	+	builds acid from	from API 50CH acid
120360	17632 ChEBI	nitrate	-	reduction
120360	16301 ChEBI	nitrite	-	reduction
68371	0 ChEBI	Potassium 2-ketogluconate	-	builds acid from	from API 50CH acid
68371	0 ChEBI	Potassium 5-ketogluconate	-	builds acid from	from API 50CH acid
68371	16634 ChEBI	raffinose	+	builds acid from	from API 50CH acid
68371	15963 ChEBI	ribitol	-	builds acid from	from API 50CH acid
68371	17814 ChEBI	salicin	-	builds acid from	from API 50CH acid
68371	17992 ChEBI	sucrose	+	builds acid from	from API 50CH acid
68371	27082 ChEBI	trehalose	-	builds acid from	from API 50CH acid
68371	32528 ChEBI	turanose	-	builds acid from	from API 50CH acid
68371	17151 ChEBI	xylitol	-	builds acid from	from API 50CH acid

Antibiotic resistance

@ref	Metabolite	Is sensitive	Is resistant
120360	0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test
120360	15688 ChEBI	acetoin	-

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
120360	alcohol dehydrogenase	-	1.1.1.1
68382	alkaline phosphatase	+	3.1.3.1	from API zym
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	-	3.2.1.22	from API zym
68382	alpha-glucosidase	+	3.2.1.20	from API zym
68382	alpha-mannosidase	-	3.2.1.24	from API zym
68382	beta-galactosidase	+	3.2.1.23	from API zym
68382	beta-glucosidase	+	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
120360	catalase	-	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
68382	esterase (C 4)	-		from API zym
68382	esterase lipase (C 8)	-		from API zym
68382	leucine arylamidase	-	3.4.11.1	from API zym
68382	lipase (C 14)	-		from API zym
120360	lysine decarboxylase	-	4.1.1.18
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
120360	ornithine decarboxylase	-	4.1.1.17
120360	oxidase	-
68382	trypsin	-	3.4.21.4	from API zym
68382	valine arylamidase	-		from API zym

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
120360	-	+	-	-	-	-	-	-	-	-	+	+	-	+	-	+	+	-	-	-

API 50CHac

@ref	ControlQ	GLY	ERY	DARA	LARA	RIB	DXYL	LXYL	ADO	MDX	GAL	GLU	FRU	MNE	SBE	RHA	DUL	INO	MAN	SOR	MDM	MDG	NAG	AMY	ARB	ESC	SAL	CEL	MAL	LAC	MEL	SAC	TRE	INU	MLZ	RAF	AMD	GLYG	XLT	GEN	TUR	LYX	TAG	DFUC	LFUC	DARL	LARL	GNT	2KG	5KG
3968	-	-	-	-	-	-	-	-	-	-	+	+	+	+	-	-	-	-	-	-	-	-	+	-	-	+	-	-	+	+	-	+	-	-	-	+	-	-	-	+	-	-	-	-	-	-	-	-	-	-
3968	-	-	-	-	-	-	-	-	-	-	+/-	+	+	+/-	-	-	-	-	-	-	-	-	+	-	-	+	-	-	+	+	-	+	-	-	-	+	+	-	-	+	-	-	+/-	-	-	-	-	-	-	-
3968	-	-	-	-	-	-	-	-	-	-	+	+	+	-	-	-	-	-	-	-	-	-	+	-	-	+	-	-	+	-	-	+	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-
3968	-	-	-	-	-	-	-	-	-	-	+/-	+	+	+	-	-	-	-	-	-	-	-	+	-	-	+	-	-	+	-	-	+	-	-	-	+	+/-	-	-	+/-	-	-	-	-	-	-	-	-	-	-
120360	not determinedn.d.	-	-	-	-	-	-	-	-	-	-	+	+	+	-	-	-	-	-	-	-	-	+	-	-	+	-	-	-	-	-	+	-	-	-	+	-	-	-	+	-	-	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Human	-
#Host Body Product	#Fluids	#Blood

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent	Isolation date
3968	human blood	Homo sapiens		Belgium	BEL	Europe
67771	From human blood	Homo sapiens		Belgium	BEL	Europe
50246	Human blood	Homo sapiens
67770	Human blood	Homo sapiens
120360	Human, Blood	Homo sapiens	Atlanta, Georgia	United States of America	USA	North America	1970

Taxonmaps

69479

Global distribution of 16S sequence LC071811 (>99% sequence identity) for Lactobacillus from Microbeatlas

Aquatic Samples	5652
Soil Samples	4782
Animal Samples	173268
Plant Samples	1535
Total Samples	185237

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
3968	1	Risk group (German classification) According to TRBA 466
120360	1	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67771	ASM143397v1 assembly for Lactobacillus johnsonii ATCC 33200	contig	GCA_001433975	525330.7	2657245008	525330	71.11
67770	ASM15935v1 assembly for Lactobacillus johnsonii ATCC 33200	scaffold	GCA_000159355	525330.3	643886046	525330	68.05

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Lactobacillus johnsonii 16S-23S rRNA intergenic spacer region	AF074860	215	33959
20218	Lactobacillus johnsonii 16S rRNA gene	AJ002515	1487	33959
20218	Lactobacillus johnsonii partial 16S rRNA gene, type strain CIP 103620T	HE573915	1543	33959
20218	Lactobacillus johnsonii strain DSM 10533 16S ribosomal RNA gene, partial sequence	EF468091	411	33959
20218	Lactobacillus johnsonii gene for 16S rRNA, partial sequence, strain: JCM 2012	AB289175	658	33959
67771	Lactobacillus johnsonii gene for 16S ribosomal RNA, partial sequence, strain: JCM 2012	LC071811	1470	33959
124043	Lactobacillus johnsonii strain ATCC 33200 16S ribosomal RNA gene, partial sequence.	MN587969	980	33959
124043	Lactobacillus johnsonii strain ATCC 33200 16S ribosomal RNA gene, partial sequence.	PQ764667	1487	33959

GC content

@ref	GC-content (mol%)	Method
3968	33.0	thermal denaturation, midpoint method (Tm)
67770	34.4	genome sequence analysis
67770	33	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM143397v1 assembly for Lactobacillus johnsonii ATCC 33200
BV-BRC: 525330.7

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	97.26	no
125439	gram_stain	BacteriaNetⓘ	positive	51.53	no
125439	motility	BacteriaNetⓘ	yes	49.79	no
125439	spore_formation	BacteriaNetⓘ	yes	42.22	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Lactobacillus johnsonii ATCC 33200
PATRIC: 525330.7

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	93.88	yes
125438	anaerobic	anaerobicⓘ	no	71.26	no
125438	spore-forming	spore-formingⓘ	no	91.94	no
125438	aerobic	aerobicⓘ	no	97.97	yes
125438	thermophilic	thermophileⓘ	no	97.00	yes
125438	flagellated	motile2+ⓘ	no	94.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Moderate intensity exercise may protect cardiac function by influencing spleen microbiome composition.	Xiao J, Chen X, Guo W, Li Y, Liu J.	iScience	10.1016/j.isci.2023.108635	2024
	Susceptibility of Lactobacillaceae Strains to Aminoglycoside Antibiotics in the Light of EFSA Guidelines.	Dec M, Herman-Ostrzyzek K, Zomer A, Urban-Chmiel R.	Life (Basel)	10.3390/life15050732	2025
	High quality draft genome of Lactobacillus kunkeei EFB6, isolated from a German European foulbrood outbreak of honeybees.	Djukic M, Poehlein A, Strauss J, Tann FJ, Leimbach A, Hoppert M, Daniel R.	Stand Genomic Sci	10.1186/1944-3277-10-16	2015
	The dynamics impact of phlorizin on gut microbiota and metabolites in an in vitro fermentation model.	Ge D, Zheng L, Liu L, Chen X, Zhou J, Ge H, Guo L, Hua H, Wang R, Zhang L.	Food Res Int	10.1016/j.foodres.2025.115930	2025
	Draft genome assembly of Lactobacillus johnsonii UMB3423 from a voided urine sample.	Stegman N, Steiling M, Jackson B, Sedano C, Putonti C.	Microbiol Resour Announc	10.1128/mra.00333-24	2024
Genetics	Whole-Genome Sequencing of Blood-Isolated Lactobacillus johnsonii in Thailand: Clinical Implications and Public Health Relevance.	Chukamnerd A, Surachat K, Chusri S, Chittrakarn S.	Am J Case Rep	10.12659/ajcr.947564	2025
	Intestinal Lactobacillus johnsonii protects against neuroangiostrongyliasis in BALB/c mice through modulation of immune response.	Lam LY, Liang TR, Wu WJ, Lam HYP.	PLoS Negl Trop Dis	10.1371/journal.pntd.0012977	2025
Metabolism	Lactobacillus johnsonii-derived extracellular vesicles restore mucosal immunity via taurine-linked Th17/Treg and IgA/IgG regulation in colitis.	Zhao H, Yue N, Mai Z, Zhang Y, Tian C, Kong C, Huang L, Shi R, Liang Y, Yao J, Nie Y, Li D, Nie B, Wang L.	J Nanobiotechnology	10.1186/s12951-025-03702-6	2025
	Insights From the Lactobacillus johnsonii Genome Suggest the Production of Metabolites With Antibiofilm Activity Against the Pathobiont Candida albicans.	Vazquez-Munoz R, Thompson A, Russell JT, Sobue T, Zhou Y, Dongari-Bagtzoglou A.	Front Microbiol	10.3389/fmicb.2022.853762	2022
	Bacteroides uniformis degrades beta-glucan to promote Lactobacillus johnsonii improving indole-3-lactic acid levels in alleviating colitis.	Zhang S, Nie Q, Sun Y, Zuo S, Chen C, Li S, Yang J, Hu J, Zhou X, Yu Y, Huang P, Lian L, Xie M, Nie S.	Microbiome	10.1186/s40168-024-01896-9	2024
	Identification of food and nutrient components as predictors of Lactobacillus colonization.	Thompson SC, Ford AL, Moothedan EJ, Stafford LS, Garrett TJ, Dahl WJ, Conesa A, Gonzalez CF, Lorca GL.	Front Nutr	10.3389/fnut.2023.1118679	2023
Genetics	Genome Sequence and Assessment of Safety and Potential Probiotic Traits of Lactobacillus johnsonii CNCM I-4884.	Boucard AS, Florent I, Polack B, Langella P, Bermudez-Humaran LG.	Microorganisms	10.3390/microorganisms10020273	2022
	Functional and genomic characterization of a novel probiotic Lactobacillus johnsonii KD1 against shrimp WSSV infection.	Dekham K, Jones SM, Jitrakorn S, Charoonnart P, Thadtapong N, Intuy R, Dubbs P, Siripattanapipong S, Saksmerprome V, Chaturongakul S.	Sci Rep	10.1038/s41598-023-47897-w	2023
	Probiotic characterization and comparison of broiler-derived lactobacillus strains based on technique for order preference by similarity to ideal solution analysis.	Xu YB, Li DL, Ding XQ, Wang YY, Liang S, Xie LY, Zhang YF, Fu AK, Yu WQ, Zhan XA.	Poult Sci	10.1016/j.psj.2023.102564	2023
	Powder diet exacerbates oropharyngeal candidiasis in a mouse model.	Vazquez-Munoz R, Thompson A, Sobue T, Dongari-Bagtzoglou A.	Appl Environ Microbiol	10.1128/aem.01713-23	2024
	Host-dependent alteration of the gut microbiota: the role of luminal microRNAs.	Cuinat C, Pan J, Comelli EM.	Microbiome Res Rep	10.20517/mrr.2024.46	2025
Metabolism	The aggregation-promoting factor in Lactobacillus delbrueckii ssp. bulgaricus: confirmation of the presence and expression of the apf gene and in silico analysis of the corresponding protein.	Yungareva T, Urshev Z.	World J Microbiol Biotechnol	10.1007/s11274-018-2480-1	2018
Metabolism	Nutrient Sensing in CD11c Cells Alters the Gut Microbiota to Regulate Food Intake and Body Mass.	Chagwedera DN, Ang QY, Bisanz JE, Leong YA, Ganeshan K, Cai J, Patterson AD, Turnbaugh PJ, Chawla A.	Cell Metab	10.1016/j.cmet.2019.05.002	2019
	Mucosal Bacteria Modulate Candida albicans Virulence in Oropharyngeal Candidiasis.	Bertolini M, Vazquez Munoz R, Archambault L, Shah S, Souza JGS, Costa RC, Thompson A, Zhou Y, Sobue T, Dongari-Bagtzoglou A.	mBio	10.1128/mbio.01937-21	2021
	Identifying single-strain growth patterns of human gut microbes in response to preterm human milk and formula.	Engevik MA, Stripe LK, Baatz JE, Wagner CL, Chetta KE.	Food Funct	10.1039/d2fo00447j	2022
	Characterizing the mucin-degrading capacity of the human gut microbiota.	Glover JS, Ticer TD, Engevik MA.	Sci Rep	10.1038/s41598-022-11819-z	2022
	Lactobacilli with probiotic potential in the prairie vole (Microtus ochrogaster).	Assefa S, Ahles K, Bigelow S, Curtis JT, Kohler GA.	Gut Pathog	10.1186/s13099-015-0082-0	2015
	Giardia spp. and the Gut Microbiota: Dangerous Liaisons.	Fekete E, Allain T, Siddiq A, Sosnowski O, Buret AG.	Front Microbiol	10.3389/fmicb.2020.618106	2020
Metabolism	Identification of a mouse Lactobacillus johnsonii strain with deconjugase activity against the FXR antagonist T-beta-MCA.	DiMarzio M, Rusconi B, Yennawar NH, Eppinger M, Patterson AD, Dudley EG.	PLoS One	10.1371/journal.pone.0183564	2017
Metabolism	A novel probiotic, Lactobacillus johnsonii 456, resists acid and can persist in the human gut beyond the initial ingestion period.	Davoren MJ, Liu J, Castellanos J, Rodriguez-Malave NI, Schiestl RH.	Gut Microbes	10.1080/19490976.2018.1547612	2019
Biotechnology	A Human Gut Commensal Ferments Cranberry Carbohydrates To Produce Formate.	Ozcan E, Sun J, Rowley DC, Sela DA.	Appl Environ Microbiol	10.1128/aem.01097-17	2017
	Lactobacillus animalis pZL8a: a potential probiotic isolated from pig feces for further research.	Jia D, Wang Y, Wang J, Liu J, Li H, Liu A, Wang J, Guan G, Luo J, Yin H, Li Y.	3 Biotech	10.1007/s13205-021-02681-3	2021
Pathogenicity	Identification and antibiotic susceptibility of lactobacilli isolated from turkeys.	Dec M, Nowaczek A, Stepien-Pysniak D, Wawrzykowski J, Urban-Chmiel R.	BMC Microbiol	10.1186/s12866-018-1269-6	2018
	Fecal miR-142a-3p from dextran sulfate sodium-challenge recovered mice prevents colitis by promoting the growth of Lactobacillus reuteri.	He L, Zhou X, Liu Y, Zhou L, Li F.	Mol Ther	10.1016/j.ymthe.2021.08.025	2022
	Linking human milk oligosaccharide metabolism and early life gut microbiota: bifidobacteria and beyond.	Lordan C, Roche AK, Delsing D, Nauta A, Groeneveld A, MacSharry J, Cotter PD, van Sinderen D.	Microbiol Mol Biol Rev	10.1128/mmbr.00094-23	2024
Genetics	Metagenomic and metatranscriptomic profiling of Lactobacillus casei Zhang in the human gut.	Wang J, Zhang J, Liu W, Zhang H, Sun Z.	NPJ Biofilms Microbiomes	10.1038/s41522-021-00227-2	2021
	Identification and characterization of novel surface proteins in Lactobacillus johnsonii and Lactobacillus gasseri.	Ventura M, Jankovic I, Walker DC, Pridmore RD, Zink R.	Appl Environ Microbiol	10.1128/aem.68.12.6172-6181.2002	2002
	Rational design of improved pharmabiotics.	Sleator RD, Hill C.	J Biomed Biotechnol	10.1155/2009/275287	2009
Phylogeny	A 16S rRNA Gene and Draft Genome Database for the Murine Oral Bacterial Community.	Joseph S, Aduse-Opoku J, Hashim A, Hanski E, Streich R, Knowles SCL, Pedersen AB, Wade WG, Curtis MA.	mSystems	10.1128/msystems.01222-20	2021
	Cranberry Proanthocyanidins and Dietary Oligosaccharides Synergistically Modulate Lactobacillus plantarum Physiology.	Ozcan E, Rozycki MR, Sela DA.	Microorganisms	10.3390/microorganisms9030656	2021
Pathogenicity	Fish oil enhances recovery of intestinal microbiota and epithelial integrity in chronic rejection of intestinal transplant.	Li Q, Zhang Q, Wang C, Tang C, Zhang Y, Li N, Li J.	PLoS One	10.1371/journal.pone.0020460	2011
	The application of genetics methods to differentiation of three Lactobacillus species of human origin.	Gosiewski T, Chmielarczyk A, Strus M, Brzychczy-Wloch M, Heczko PB.	Ann Microbiol	10.1007/s13213-011-0395-2	2012
Metabolism	Enzymology and structure of the GH13_31 glucan 1,6-alpha-glucosidase that confers isomaltooligosaccharide utilization in the probiotic Lactobacillus acidophilus NCFM.	Moller MS, Fredslund F, Majumder A, Nakai H, Poulsen JC, Lo Leggio L, Svensson B, Abou Hachem M.	J Bacteriol	10.1128/jb.00622-12	2012
Phylogeny	Detection and identification of Lactobacillus species in crops of broilers of different ages by using PCR-denaturing gradient gel electrophoresis and amplified ribosomal DNA restriction analysis.	Guan LL, Hagen KE, Tannock GW, Korver DR, Fasenko GM, Allison GE.	Appl Environ Microbiol	10.1128/aem.69.11.6750-6757.2003	2003
	Phylogenetic identification of bacterial MazF toxin protein motifs among probiotic strains and foodborne pathogens and potential implications of engineered probiotic intervention in food.	Yan X, Gurtler JB, Fratamico PM, Hu J, Juneja VK.	Cell Biosci	10.1186/2045-3701-2-39	2012
Metabolism	Unique Microbial Catabolic Pathway for the Human Core N-Glycan Constituent Fucosyl-alpha-1,6-N-Acetylglucosamine-Asparagine.	Becerra JE, Rodriguez-Diaz J, Gozalbo-Rovira R, Palomino-Schatzlein M, Zuniga M, Monedero V, Yebra MJ.	mBio	10.1128/mbio.02804-19	2020
Phylogeny	Comparison and utilization of repetitive-element PCR techniques for typing Lactobacillus isolates from the chicken gastrointestinal tract.	Stephenson DP, Moore RJ, Allison GE.	Appl Environ Microbiol	10.1128/aem.01150-09	2009
Metabolism	Cell surface-associated elongation factor Tu mediates the attachment of Lactobacillus johnsonii NCC533 (La1) to human intestinal cells and mucins.	Granato D, Bergonzelli GE, Pridmore RD, Marvin L, Rouvet M, Corthesy-Theulaz IE.	Infect Immun	10.1128/iai.72.4.2160-2169.2004	2004
	Microbial Reconstitution Reverses Maternal Diet-Induced Social and Synaptic Deficits in Offspring.	Buffington SA, Di Prisco GV, Auchtung TA, Ajami NJ, Petrosino JF, Costa-Mattioli M.	Cell	10.1016/j.cell.2016.06.001	2016
Pathogenicity	Influence of antimicrobial feed additives on broiler commensal posthatch gut microbiota development and performance.	Torok VA, Allison GE, Percy NJ, Ophel-Keller K, Hughes RJ.	Appl Environ Microbiol	10.1128/aem.02300-10	2011
Phylogeny	Characterization of intestinal microbiota and response to dietary virginiamycin supplementation in the broiler chicken.	Dumonceaux TJ, Hill JE, Hemmingsen SM, Van Kessel AG.	Appl Environ Microbiol	10.1128/aem.72.4.2815-2823.2006	2006
Pathogenicity	Bile-mediated aminoglycoside sensitivity in Lactobacillus species likely results from increased membrane permeability attributable to cholic acid.	Elkins CA, Mullis LB.	Appl Environ Microbiol	10.1128/aem.70.12.7200-7209.2004	2004
Metabolism	In silico prediction of horizontal gene transfer events in Lactobacillus bulgaricus and Streptococcus thermophilus reveals protocooperation in yogurt manufacturing.	Liu M, Siezen RJ, Nauta A.	Appl Environ Microbiol	10.1128/aem.02898-08	2009
Enzymology	Inhibition of Staphylococcus aureus by lysostaphin-expressing Lactobacillus plantarum WCFS1 in a modified genital tract secretion medium.	Liu H, Gao Y, Yu LR, Jones RC, Elkins CA, Hart ME.	Appl Environ Microbiol	10.1128/aem.06755-11	2011
Genetics	Similarity and differences in the Lactobacillus acidophilus group identified by polyphasic analysis and comparative genomics.	Berger B, Pridmore RD, Barretto C, Delmas-Julien F, Schreiber K, Arigoni F, Brussow H.	J Bacteriol	10.1128/jb.01393-06	2007
Enzymology	Abilities of the mCP Agar method and CRENAME alpha toxin-specific real-time PCR assay to detect Clostridium perfringens spores in drinking water.	Maheux AF, Berube E, Boudreau DK, Villeger R, Cantin P, Boissinot M, Bissonnette L, Bergeron MG.	Appl Environ Microbiol	10.1128/aem.02791-13	2013
Metabolism	Detection, characterization, and in vitro and in vivo expression of genes encoding S-proteins in Lactobacillus gallinarum strains isolated from chicken crops.	Hagen KE, Guan LL, Tannock GW, Korver DR, Allison GE.	Appl Environ Microbiol	10.1128/aem.71.11.6633-6643.2005	2005
	Morphological and Molecular Differentiation of Sporidiobolus johnsonii ATCC 20490 and Its Coenzyme Q10 Overproducing Mutant Strain UF16.	Ranadive P, Mehta A, Chavan Y, Marx A, George S.	Indian J Microbiol	10.1007/s12088-014-0466-8	2014
Metabolism	Catabolic flexibility of mammalian-associated lactobacilli.	O'Donnell MM, O'Toole PW, Ross RP.	Microb Cell Fact	10.1186/1475-2859-12-48	2013
	In vitro enrofloxacin binding in human fecal slurries.	Ahn Y, Linder SW, Veach BT, Steve Yan S, Haydee Fernandez A, Pineiro SA, Cerniglia CE.	Regul Toxicol Pharmacol	10.1016/j.yrtph.2011.11.013	2012
Metabolism	C-terminal WxL domain mediates cell wall binding in Enterococcus faecalis and other gram-positive bacteria.	Brinster S, Furlan S, Serror P.	J Bacteriol	10.1128/jb.00773-06	2007
Pathogenicity	In vitro model of colonization resistance by the enteric microbiota: effects of antimicrobial agents used in food-producing animals.	Wagner RD, Johnson SJ, Cerniglia CE.	Antimicrob Agents Chemother	10.1128/aac.00852-07	2008
Metabolism	Macedocin, a food-grade lantibiotic produced by Streptococcus macedonicus ACA-DC 198.	Georgalaki MD, Van Den Berghe E, Kritikos D, Devreese B, Van Beeumen J, Kalantzopoulos G, De Vuyst L, Tsakalidou E.	Appl Environ Microbiol	10.1128/aem.68.12.5891-5903.2002	2002
Phylogeny	Analysis, characterization, and loci of the tuf genes in lactobacillus and bifidobacterium species and their direct application for species identification.	Ventura M, Canchaya C, Meylan V, Klaenhammer TR, Zink R.	Appl Environ Microbiol	10.1128/aem.69.11.6908-6922.2003	2003
Metabolism	Oxalate-degrading activity in Bifidobacterium animalis subsp. lactis: impact of acidic conditions on the transcriptional levels of the oxalyl coenzyme A (CoA) decarboxylase and formyl-CoA transferase genes.	Turroni S, Bendazzoli C, Dipalo SC, Candela M, Vitali B, Gotti R, Brigidi P.	Appl Environ Microbiol	10.1128/aem.00844-10	2010
	Nicotinamide mononucleotide production by non-recombinant Limosilactobacillus reuteri and nicotinamide adenine dinucleotide synthesizing lactic acid bacteria.	Ozaki S, Honme Y, Morifuji M.	Microbiol Spectr	10.1128/spectrum.00333-25	2025
	Paraprobiotics and Postbiotics of Probiotic Lactobacilli, Their Positive Effects on the Host and Action Mechanisms: A Review.	Teame T, Wang A, Xie M, Zhang Z, Yang Y, Ding Q, Gao C, Olsen RE, Ran C, Zhou Z.	Front Nutr	10.3389/fnut.2020.570344	2020
	Antioxidative potential of Lactobacillus sp. in ameliorating D-galactose-induced aging.	Kumar H, Bhardwaj K, Valko M, Alomar SY, Alwasel SH, Cruz-Martins N, Dhanjal DS, Singh R, Kuca K, Verma R, Kumar D.	Appl Microbiol Biotechnol	10.1007/s00253-022-12041-7	2022
Metabolism	Identification of and hydrogen peroxide production by fecal and vaginal lactobacilli isolated from Japanese women and newborn infants.	Song YL, Kato N, Matsumiya Y, Liu CX, Kato H, Watanabe K.	J Clin Microbiol	10.1128/jcm.37.9.3062-3064.1999	1999
Phylogeny	Classification of Latilactobacillus sakei subspecies based on MALDI-TOF MS protein profiles using machine learning models.	Kim E, Yang S-M, Lee S-Y, Jung D-H, Kim H-Y.	Microbiol Spectr	10.1128/spectrum.03668-23	2024
	Comparison of Real-Time PCR and Droplet Digital PCR for the Quantitative Detection of Lactiplantibacillus plantarum subsp. plantarum	Choi CH, Kim E, Yang SM, Kim DS, Suh SM, Lee GY, Kim HY.	Foods	10.3390/foods11091331	2022
	Deciphering the anti-obesity mechanisms of pharmabiotic probiotics through advanced multiomics analysis.	Kim YR, Choi TR, Jo SH, Song WS, Kim T, Kim MG, Baek JH, Kwon SY, Choi BG, Seo SW, Jang CS, Yang YH, Kim YG.	iScience	10.1016/j.isci.2025.111890	2025
Phylogeny	Identification and Monitoring of Lactobacillus delbrueckii Subspecies Using Pangenomic-Based Novel Genetic Markers.	Kim E, Cho EJ, Yang SM, Kim HY.	J Microbiol Biotechnol	10.4014/jmb.2009.09034	2021
Genetics	Differentiation of Lacticaseibacillus zeae Using Pan-Genome Analysis and Real-Time PCR Method Targeting a Unique Gene.	Kim E, Yang SM, Kim HY.	Foods	10.3390/foods10092112	2021
	Synergistic protective effects of beta-glucan and Lactobacillus johnsonii NSP009 in ulcerative colitis.	Zhang S, Sun Y, Gao L, Zhang Z, Yu Y, Xu D, Nie S.	Food Funct	10.1039/d5fo02391b	2025
	Lactobacillus Johnsonii RS-7 Prevents Nrf2-Mediated Intestinal Oxidative Damage by Modulating Microbial Metabolites.	Zhao K, Li Z, Zhao J, Cao S, Zhai H, Liu J.	J Food Sci	10.1111/1750-3841.70701	2025
	Oral probiotic and postbiotic supplementation enhances the abundance of Lactobacillus acidophilus, Lactobacillus johnsonii, and Limosilactobacillus reuteri in both canine skin and gastrointestinal microbiota: insights from long-read 16S rRNA gene sequencing.	Mohammadi Dehcheshmeh M, Grant L, Ebrahimie E, Khabiri A, Hemmatzadeh F, Shipstone M, Trott DJ.	Vet Res Commun	10.1007/s11259-025-10962-y	2025
	Lactobacillus johnsonii 1735 Confers Dual-Targeted Protection against Antimicrobial-Resistant aEPEC: Suppressing NleA Virulence and Activating EGFR/AKT Signaling to Attenuate Intestinal Epithelial Stress.	Wei Y, Guo L, Chen K, Cui N, Zhang J, Cao Q, Wu Q.	J Agric Food Chem	10.1021/acs.jafc.5c03678	2025
	Mung bean (Vigna radiata L.) ethanol extract alleviates alcoholic liver injury with modulation of the gut microbiota and spermidine elevation.	Liu Y, Ruan Y, Zhao A, Bian Z, Bai J, Niu S, Wang S, Huang Z, Cao X, Shen C, Liu S, Guo J.	Food Funct	10.1039/d5fo02499d	2025
	Lactobacillus johnsonii Synthesizes Chenodeoxycholic Acid to Reduce Susceptibility to High-Fat Diet-Induced Colorectal Cancer.	Liu C, Lai P, Hu J, Yin S, Guo S, Liu D, Yu J, Liang D, Chen G, Xing M, Luo Z, He X, Gong J, Lan P, He Z.	Cancer Res	10.1158/0008-5472.can-25-0879	2025
	Characterisation of the cell envelope and adhesive properties of Lactobacillus johnsonii CRL1647, a probiotic from the honeybee gut.	Novicov-Fanciotti M, Dentice Maidana S, Elean M, Villena J, Audisio MC.	Benef Microbes	10.1163/18762891-bja00087	2025
	Lactobacillus johnsonii alleviates experimental colitis by restoring intestinal barrier function and reducing NET-mediated gut-liver inflammation.	Liu HY, Yuan P, Li S, Ogamune KJ, Shi X, Zhu C, Ennab W, Hu P, Ahmed AA, Zhang Y, Kim IH, Cai D.	Commun Biol	10.1038/s42003-025-08679-4	2025
	Sleep-promoting effects and mechanisms of Bacillus coagulans IDCC 1201: evidence from pentobarbital-induced sleep and electroencephalography analysis in mice.	Kim H, Bang WY, Kim D, Cho S, Lee DY, Park HM, Lee HB, Yun EJ, Moon JS.	Food Funct	10.1039/d5fo02926k	2025
	Toxoplasma gondii disrupts intestinal microbiota and host metabolism in a rat model.	Zhao JX, Zheng WB, Xie SC, Ma H, Chen XT, Gao YQ, Tang LY, Yang MT, Nan FL, Jiang J, Elsheikha HM, Zhang XX.	PLoS Negl Trop Dis	10.1371/journal.pntd.0013768	2025
Pathogenicity	Alginate Oligosaccharide Alleviates Salmonella Typhimurium-Induced Liver Injury by Regulating Oxidative Stress, Apoptosis, and Inflammatory Signaling Pathway.	Liu Y, Zhang X, Ge Y, Liu H, Chen Y, Yang Y, Yang Y, Wu Z.	Probiotics Antimicrob Proteins	10.1007/s12602-025-10650-y	2025
Enzymology	Lactobacillus johnsonii-derived extracellular vesicles carrying GAPDH protect against ulcerative colitis through modulating macrophage polarization.	Tao S, Song M, Fan J, Zhu F, Lv T, Wei H.	J Adv Res	10.1016/j.jare.2025.06.035	2025
	Lactiplantibacillus plantarum fermented hemp (Cannabis sativa) seeds modulate the gut microbiota and metabolic pathways to alleviate autoimmune inflammation in collagen-induced arthritis mice.	Shan L, Chelliah R, Park S, Lee Y, Vijayalakshmi S, Oh D.	Food Funct	10.1039/d5fo00818b	2025
	Lactobacillus johnsonii JJB3 Ameliorates Oxidative Stress-Induced Intestinal Injury and Mitochondrial Damage by Promoting BNIP3L-Mediated Mitophagy.	Liu X, Xin J, Sun N, Qin Y, Huang H, Chen B, Duan L, Zhou Y, Wang D, Jing B, Zeng Y, Zeng D, Pan K, Wei L, Lin Y, Ni X.	Probiotics Antimicrob Proteins	10.1007/s12602-025-10600-8	2025
	Gut microbiota Lactobacillus johnsonii alleviates hyperuricemia by modulating intestinal urate and gut microbiota-derived butyrate.	Han R, Wang Z, Li Y, Ke L, Li X, Li C, Tian Z, Liu X.	Chin Med J (Engl)	10.1097/cm9.0000000000003603	2025
	Gut microbiota dysbiosis amplifies thiram hepatotoxicity via a mitochondrial-autophagy-apoptosis nexus orchestrated by the gut-liver axis.	Hou J, Wu P, Cai J, Xia B, Lei Y, Huang C, Li Y, Tareen MI, Tang Z, Zhang H.	Cell Signal	10.1016/j.cellsig.2025.112104	2025
	Lactobacillus johnsonii-derived leucic acid promotes fatty acid absorption and deposition by targeting CD36.	Li Y, Zhang Z, Han Q, Liu G, Yin Y, Yin J.	Sci China Life Sci	10.1007/s11427-024-2794-4	2025
	Ketogenic Diet Modulates Gut Microbiota-Brain Metabolite Axis in a Sex- and Genotype-Specific Manner in APOE4 Mice.	Ivanich K, Yackzan A, Flemister A, Chang YH, Xing X, Chen A, Yanckello LM, Sun M, Aware C, Govindarajan M, Kramer S, Ericsson A, Lin AL.	J Neurochem	10.1111/jnc.70216	2025
Genetics	Effect of acupuncture at Back-Shu points on gut microbiota in insomnia model rats based on metagenomic sequencing technology.	Qi S, Qian J, Li Y, Li Y, Li W, Gao X.	Front Microbiol	10.3389/fmicb.2025.1541958	2025
	Maternal Lactobacillus johnsonii supplementation attenuates hyperoxia-induced lung injury in neonatal mice through microbiota regulation.	Yang YSH, Chou HC, Chen CM.	Pediatr Neonatol	10.1016/j.pedneo.2024.09.005	2025
	Small intestine-residing probiotics suppress neurotoxic bile acid production via extracellular vesicle-mediated inhibition of Clostridium scindens.	Chin WL, Lee BH, Hsu QY, Hou CY, Pai MC, Lin CW, Hsu WH.	Food Res Int	10.1016/j.foodres.2025.116049	2025
	Lactobacillus johnsonii GLJ001 prevents DSS-induced colitis in mice by inhibiting M1 macrophage polarization via gut microbiota-SCFAs axis.	Cai Y, Huang Y, Wang Y, Lin C, Qiu L, Wei H.	Int Immunopharmacol	10.1016/j.intimp.2024.113671	2025
	Dietary Lactobacillus johnsonii-derived extracellular vesicles ameliorate acute colitis by regulating gut microbiota and maintaining intestinal barrier homeostasis.	Li Z, Li M, Fang X, Yu D, Hu X.	Food Funct	10.1039/d4fo04194a	2024
	Unlocking the gut-lung axis: Feixin decoction as a novel modulator in hypoxic pulmonary hypertension.	Wang FY, Yi J, Zhou LL, Tan JL, Cao XY, Zhang C, Wan JJ, Song L, Dai AG.	Phytomedicine	10.1016/j.phymed.2025.157118	2025
Metabolism	Investigation of the mechanism by which Tegillarca granosa polysaccharide regulates non-alcoholic fatty liver disease in mice by modulating Lactobacillus Johnsonii.	Zhang H, Yang X, Chen J, Jiang Q, Yao S, Chen L, Xiang X.	Int J Biol Macromol	10.1016/j.ijbiomac.2024.137259	2024
	Probiotic potential of LAB strains from native Kashmir Flavorella chickens of northwestern Himalayas: A focus on safety and gut health.	Bhat HM, Nazir R, Kashoo ZA, Bhat SA.	Res Vet Sci	10.1016/j.rvsc.2025.105698	2025
Phylogeny	Functional and Compositional Changes in Ileal Microbiota in Piglets During the Nursing Period Revealed by 16s rRNA Gene and Metagenomics.	Yang B, Shen P, Xu Z, Yang J, Song B, Jiang H, Chai J, Zhao J, Deng F, Li Y.	Animals (Basel)	10.3390/ani15213102	2025
	Butyrolactone-I from marine fungi alleviates intestinal barrier damage caused by DSS through regulating lactobacillus johnsonii and its metabolites in the intestine of mice.	Chen S, Niu X, Zhang Y, Wen J, Bao M, Li Y, Gao Y, Wang X, Liu X, Yong Y, Yu Z, Ma X, Eun JB, Shim JH, Abd El-Aty AM, Ju X.	J Nutr Biochem	10.1016/j.jnutbio.2024.109786	2025
	Effect of loop-grafting on the activity, stability and regioselectivity of Priestia megaterium levansucrase using two inulosucrases as loop donors.	Ortiz-Soto ME, Schmid K, Weber C, Gross M, Seibel J.	Int J Biol Macromol	10.1016/j.ijbiomac.2025.141584	2025
	Small intestine-residing probiotics suppress neurotoxic bile acid production via extracellular vesicle-mediated inhibition of Clostridium scindens	Chin WL, Lee BH, Hsu QY, Hou CY, Pai MC, Lin CW, Hsu WH.	Food Research International.		2025
	Heat-inactivated Lactobacillus casei strain GKC1 Mitigates osteoporosis development in vivo via enhanced osteogenesis.	Yang LC, Li TJ, Hu YF, Tsai YS, Wang CS, Lin SW, Chen YL, Chen CC.	Biochem Biophys Res Commun	10.1016/j.bbrc.2025.151317	2025
	Curcumin ameliorates hepatic steatosis and insulin resistance through the JNK2/FOXO1/Bcl6 axis and regulate the intestinal flora structure.	Yang J, Song B, Zhang F, Liu B, Yan J, Wang Y, Sun J, Zhao C, Li D, Cao H.	J Physiol Biochem	10.1007/s13105-025-01101-x	2025
Phylogeny	Full-length 16S rRNA gene amplicon analysis of gut microbiota in pigs fed with different diets in growing and finishing stages.	Wang HS, Shih SY, Huang YL, Chang CC, Tsai H.	Anim Biotechnol	10.1080/10495398.2024.2414299	2024
	Cutaneous UVB Irradiation Alters Gut Microbiota Independently of Skin Inflammation in SKH-1 Hairless Mice.	Lee E, Sim WJ, Lim TG.	J Microbiol Biotechnol	10.4014/jmb.2507.07020	2025
Metabolism	Sanye tablet regulates gut microbiota and bile acid metabolism to attenuate hepatic steatosis.	Qi Y, Du S, Li W, Qiu X, Zhou F, Bai L, Zhang B, Mi Z, Qian W, Li L, Zhao X, Li Y.	J Ethnopharmacol	10.1016/j.jep.2025.119514	2025
	Yeast Extract Peptides Alleviate Depression in Chronic Restraint Stress Rats by Alleviating Hippocampal Neuronal Apoptosis and Dysbiosis of the Gut Microbiota.	Zou Z, Xiao N, Chen Z, Lin X, Li Y, Li P, Cheng Q, Du B.	Mol Nutr Food Res	10.1002/mnfr.202300467	2024
Pathogenicity	Fucoidan ameliorates rotenone-induced Parkinsonism in mice by regulating the microbiota-gut-brain axis.	Yang X, Zhang X, Ma Y, Li S, Wang Q, Hong JS, Yu G, Qi B, Wang J, Liu C, Shang Q, Wu X, Zhao J.	Int J Biol Macromol	10.1016/j.ijbiomac.2024.137373	2024
	Low-Protein-Fed Chickens Benefit from Probiotic L. salivarius and L. johnsonii on Performance and Microbiota.	Dong X, Dou X, Tang H, Huang Y, Wu G, Dong W, Wang H, Jiao H, Mei Y, Ren M.	Animals (Basel)	10.3390/ani15223346	2025
Phylogeny	Multi-omics analysis reveals gut microbial and metabolic signatures in metabolic dysfunction-associated steatotic liver disease.	Maimaitiyiming M, Maihemuti S, Aierken T, Abulimiti G, Aibaidula T, Guan Y, Simayi A, Aimaiti M, Wang X, Abuduaini A, Aishan Y.	Front Microbiol	10.3389/fmicb.2025.1666110	2025
	Probiotic Lactobacillus johnsonii Reduces Intestinal Inflammation and Rebalances Splenic Treg/Th17 Responses in Dextran Sulfate Sodium-Induced Colitis.	Liu HY, Li S, Ogamune KJ, Yuan P, Shi X, Ennab W, Ahmed AA, Kim IH, Hu P, Cai D.	Antioxidants (Basel)	10.3390/antiox14040433	2025
	The phenotypic and genotypic antibiotic susceptibility of vaginal Lactobacillus with potential probiotic properties isolated from healthy women in northern Iran.	Zare H, Izadi Amoli R, Zaboli F, Rezapour M, Kaboosi H.	Iran J Microbiol	10.18502/ijm.v16i2.15356	2024
Metabolism	Microbial metabolite enhances immunotherapy efficacy by modulating T cell stemness in pan-cancer.	Jia D, Wang Q, Qi Y, Jiang Y, He J, Lin Y, Sun Y, Xu J, Chen W, Fan L, Yan R, Zhang W, Ren G, Xu C, Ge Q, Wang L, Liu W, Xu F, Wu P, Wang Y, Chen S, Wang L.	Cell	10.1016/j.cell.2024.02.022	2024
	Laurolitsine ameliorates insulin resistance, ovarian dysfunction and gut microbiota dysbiosis in DHEA plus HFD-induced PCOS mice.	Zhang Y, Chen M, Zhou Z, Guo Y, Zheng L, Yu Y, Liu J, Zhou Y, Lu H, Yao S, Zhang X, Ma N, Lu W.	Front Endocrinol (Lausanne)	10.3389/fendo.2025.1517934	2025
	Schisandrol B alleviates depression-like behavior in mice by regulating bile acid homeostasis in the brain-liver-gut axis via the pregnane X receptor.	Wang P, Ouyang H, Bi G, Liang F, Hu S, Wu C, Jiang X, Zhou W, Li D, Zhang S, Yang X, Zhao M, Fang JH, Wang H, Jia W, Zhu ZJ, Bi H.	Phytomedicine	10.1016/j.phymed.2024.156340	2025
	In Situ Cross-Linked Porous Starch Microencapsulation Enhances the Colonization of Lactobacillus In Vivo.	Zhang X, Liang Y, Bai H, Huang Q, Liu D, Ma G, Liu X.	Foods	10.3390/foods14122031	2025
	Lactobacillus johnsonii JERA01 activates macrophages and increases Th-1 T cell population in mouse small intestine.	Ahn SY, Joo HG, Ko EJ.	PLoS One	10.1371/journal.pone.0320946	2025
	Lactobacillus rhamnosus Ameliorates Dyslipidemia and Liver Steatosis in a Rat Model Fed High-Fat Diet.	Liao YT, Huang J, Lin BR, Liang JT, Huang KW.	Gastroenterol Res Pract	10.1155/grp/5540686	2025
	Selection and transmission of the gut microbiome alone can shift mammalian behavior.	Suzuki TA, Tanja AS, Waters JL, Jakob D, Vu DL, Ballinger MA, Di Rienzi SC, Chang H, de Araujo IE, Tyakht AV, Ley RE.	Nat Commun	10.1038/s41467-025-65368-w	2025
	Unveiling the potential of Lactobacillus johnsonii in digestive diseases: a comprehensive review.	Zhou J, Ma S, Huang Z, Yao Q, Yu Z, Chen J, Yao L, Zhu L, Chen X.	Front Microbiol	10.3389/fmicb.2025.1508382	2025
	Propionic Acid Driven by the Lactobacillus johnsonii Culture Supernatant Alleviates Colitis by Inhibiting M1 Macrophage Polarization by Modulating the MAPK Pathway in Mice.	Wu Z, He J, Zhang Z, Li J, Zou H, Tan X, Wang Y, Yao Y, Xiong W.	J Agric Food Chem	10.1021/acs.jafc.3c00278	2023
	Chronic Stress Dampens Lactobacillus Johnsonii-Mediated Tumor Suppression to Enhance Colorectal Cancer Progression.	Cao Q, Zhao M, Su Y, Liu S, Lin Y, Da H, Yue C, Liu Y, Jing D, Zhao Q, Liu N, Du J, Zuo Z, Fu Y, Chen A, Birnbaumer L, Yang Y, Dai B, Gao X.	Cancer Res	10.1158/0008-5472.can-22-3705	2024
Pathogenicity	Unveiling the microbial shift: the impact of group B Streptococcus on vaginal microbiota and inflammation in late pregnancy.	Yu W, Sun M, Li R, Xin Y, Zheng K.	BMC Microbiol	10.1186/s12866-025-04387-5	2025
	Lactobacillus johnsonii JERA01 upregulates the production of Th1 cytokines and modulates dendritic cells-mediated immune response.	Kim SY, Joo HG.	Korean J Physiol Pharmacol	10.4196/kjpp.24.205	2025
Pathogenicity	Chlorogenic acid ameliorates intestinal inflammation via miRNA-microbe axis in db/db mice.	Yan Y, Li Q, Yang F, Shen L, Guo K, Zhou X.	FASEB J	10.1096/fj.202400382r	2024
	Identification and characterization of a putative novel bacteriocin from Bacillus velezensis G02 and its effects on the intestinal microflora in mice.	Yu M, Ma H, Peng J, Ding Y, Lin Q, Guo F, Ma Y.	BMC Microbiol	10.1186/s12866-025-04357-x	2025
Pathogenicity	TLR1-Regulated Ferroptosis Gene Decreases the Occurrence of Restless Legs Syndrome.	Chen Q, Men X.	Brain Behav	10.1002/brb3.71038	2025
	Fingerprinting and characterization of the polysaccharides from Polygonatum odoratum and the in vitro fermented effects on Lactobacillus johnsonii.	Liu JR, Chen BX, Huang JQ, Li X, Cui TY, Lv B, Fu ZF, Zhao X, Yang WZ, Gao XM.	J Pharm Biomed Anal	10.1016/j.jpba.2023.115911	2024
	Impact of the Gut Microbiota-Metabolite Axis on Intestinal Fatty Acid Absorption in Huainan Pigs.	Wang J, Zhu L, Wang Y, Ma Q, Yan X, Li M, Xing B.	Microorganisms	10.3390/microorganisms13071609	2025
	Multiomics analysis revealed the mechanism of the anti-diabetic effect of Salecan	Yuan L, Zhao J, Liu Y, Zhao J, Olnood CG, Xu YJ, Liu Y.	Carbohydrate polymers.		2024
	The PKA-SREBP1c Pathway Plays a Key Role in the Protective Effects of Lactobacillus johnsonii JNU3402 Against Diet-Induced Fatty Liver in Mice.	Hong E, Kang H, Yang G, Oh S, Kim E.	Mol Nutr Food Res	10.1002/mnfr.202200496	2023
	Fasting mimicking diet extends lifespan and improves intestinal and cognitive health.	Wang Q, Xu J, Luo M, Jiang Y, Gu Y, Wang Q, He J, Sun Y, Lin Y, Feng L, Chen S, Hou T.	Food Funct	10.1039/d4fo00483c	2024
Genetics	CRISPR-Cas systems and diversity of targeting phages in Lactobacillus johnsonii strains; insights from genome mining approach.	Nami Y, Rostampour M, Panahi B.	Infect Genet Evol	10.1016/j.meegid.2023.105500	2023
	Skim Milk Culture of Lactobacillus johnsonii SBT0309 Increases Intestinal Alkaline Phosphatase Activity and Inhibits Lipopolysaccharide-Induced Interleukin-8 Production in Intestinal Epithelial Cells.	Kawano M, Arai T, Kabuki T.	Cells	10.3390/cells14050358	2025
	Neuroprotective effects of probiotics on anxiety- and depression-like disorders in stressed mice by modulating tryptophan metabolism and the gut microbiota.	Jia L, Xiao L, Fu Y, Shao Z, Jing Z, Yuan J, Xie Y, Guo J, Wang Y, Geng W.	Food Funct	10.1039/d3fo03897a	2024
	Intermittent MDMA Attenuates Ovariectomy-induced Bone Loss via a Gut Microbiota-Bone Axis.	Wan X, Eguchi A, Murayama R, Mori C, Hashimoto K.	Clin Psychopharmacol Neurosci	10.9758/cpn.25.1309	2025
	The Antidepressant- and Anxiolytic-Like Effects of the Phosphodiesterase Type-5 Inhibitor Tadalafil are Associated with the Modulation of the Gut-Brain Axis During CNS Autoimmunity.	Duarte-Silva E, Oria AC, Mendonca IP, Paiva IHR, Leuthier Dos Santos K, Sales AJ, de Souza JRB, Maes M, Meuth SG, Peixoto CA.	J Neuroimmune Pharmacol	10.1007/s11481-024-10148-4	2024
	Lactobacillus johnsonii HL79 modulates the microbiota-gut-brain axis to protect cognitive function in mice chronically exposed to high altitude.	Zhao Z, Zhang X, Sun N, Duan L, Xin J, Li H, Ni X, Wang H, Ma H, Bai Y.	Front Microbiol	10.3389/fmicb.2025.1561400	2025
	Membrane vesicles from Lactobacillus johnsonii delay osteoarthritis progression via modulating macrophage glutamine synthetase/mTORC1 axis.	Liu R, Zhou Y, Chen H, Xu H, Zuo M, Chen B, Wang H.	Biomed Pharmacother	10.1016/j.biopha.2023.115204	2023
	Rhoifolin Attenuates DSS-Induced Colitis in Mice by Modulating Gut Microbiota and Restoring Th17/Treg Balance.	Xu H, Wang ZH, Zhong SL, Chen T, Liu SZ, Zhang SL, Xie XX, Liu T, Yang W.	J Inflamm Res	10.2147/jir.s515002	2025
	Dynamic changes of gut microbiota in mouse models of metabolic dysfunction-associated steatohepatitis and its transition to hepatocellular carcinoma.	Wang YL, Liu C, Yang YY, Zhang L, Guo X, Niu C, Zhang NP, Ding J, Wu J.	FASEB J	10.1096/fj.202400573rr	2024
	Daily fluctuation of Lactobacillus species and their antibiotic resistome in the colon of growing pigs.	Xu J, Wang H, Xu R, Li Q, Li L, Su Y, Liu J, Zhu W.	Sci Total Environ	10.1016/j.scitotenv.2024.170821	2024
Genetics	Genomic analysis and functional properties of Lactobacillus johnsonii GJ231 isolated from healthy beagles.	Zhao M, Li Y, Zhang Y, Li G.	Front Microbiol	10.3389/fmicb.2024.1437036	2024
	Role of microbiota in the outcome of immune checkpoint inhibition therapy of cancer.	Rijkers GT, Langcauon Y, van Leersum P, Popovic L, van Overveld FJ.	Explor Target Antitumor Ther	10.37349/etat.2025.1002348	2025
	Lactobacillus johnsonii CPN23 vis-à-vis Lactobacillus acidophilus NCDC15 Improves Gut Health, Intestinal Morphometry, and Histology in Weaned Wistar Rats.	Kumar S, Pattanaik AK, Jadhav SE, Jangir BL.	Probiotics Antimicrob Proteins	10.1007/s12602-023-10063-9	2024
Biotechnology	Exploring Microbial Contributions to Nutraceutical Production: From Natural to Designed Foods.	Thakur B, Kaur S, Rani N, Kaur R, Upadhyay SK, Tripathi M.	Mol Biotechnol	10.1007/s12033-023-00937-2	2025
	Lactobacillus murinus Reduces Susceptibility to Secondary MRSA Infection in IAV-Infected Mice Through Promoting a T Cell-Independent IgA Response.	Chen Q, Lin Y, Wang K, Li J, Li P, Song H.	Microorganisms	10.3390/microorganisms13071709	2025
Pathogenicity	Protective effects of engineered Lactobacillus johnsonii expressing bovine granulocyte-macrophage colony-stimulating factor on bovine postpartum endometritis.	Guo J, Cao X, Li Z, Wang C, Zhong C, Wang S, Fan Z, Zhao J, Wang J, Fang Y, Liu H, Ding H, Ma X, Lu W.	Front Vet Sci	10.3389/fvets.2024.1418091	2024
Metabolism	Multiomics analysis revealed the mechanism of the anti-diabetic effect of Salecan.	Yuan L, Zhao J, Liu Y, Zhao J, Olnood CG, Xu YJ, Liu Y.	Carbohydr Polym	10.1016/j.carbpol.2023.121694	2024
Pathogenicity	Lactobacillus johnsonii alleviates experimental colitis by restoring intestinal barrier function and reducing NET-mediated gut-liver inflammation	Liu H, Yuan P, Li S, Ogamune K, Shi X, Zhu C, Ennab W, Hu P, Ahmed A, Zhang Y, Kim I, Cai D.	Commun Biol		2025
	Discovery of intestinal microorganisms that affect the improvement of muscle strength.	Ahn JS, Kim HM, Han EJ, Hong ST, Chung HJ.	Sci Rep	10.1038/s41598-025-15222-2	2025
	Isolation and structural elucidation of prebiotic oligosaccharides from Ziziphi Spinosae Semen.	Song J, Liu Y, Yin X, Nan Y, Shi Y, Chen X, Liang H, Zhang J, Ma B.	Carbohydr Res	10.1016/j.carres.2023.108948	2023
	Probiotic Sheep Milk: Physicochemical Properties of Fermented Milk and Viability of Bacteria Under Simulated Gastrointestinal Conditions.	Pawlos M, Szajnar K, Znamirowska-Piotrowska A.	Nutrients	10.3390/nu17213340	2025
	Fermented Milk Supplemented with Sodium Butyrate and Inulin: Physicochemical Characterization and Probiotic Viability Under In Vitro Simulated Gastrointestinal Digestion.	Szajnar K, Pawlos M, Kowalczyk M, Drobniak J, Znamirowska-Piotrowska A.	Nutrients	10.3390/nu17132249	2025
Genetics	Genomic and transcriptomic insights into vertebrate host-specific Lactobacillus johnsonii adaptation in the gastrointestinal tract.	Ravi K, Falkowski NR, Huffnagle GB.	mSphere	10.1128/msphere.00052-25	2025
	Lactobacillus induced by irbesartan on spontaneously hypertensive rat contribute to its antihypertensive effect.	Xiong Y, He Y, Chen Z, Wu T, Xiong Y, Peng Y, Yang X, Liu Y, Zhou J, Zhou H, Zhang W, Shu Y, Li X, Li Q.	J Hypertens	10.1097/hjh.0000000000003613	2024
	Gut Microbiota Dysbiosis and Dietary Interventions in Non-Hodgkin B-Cell Lymphomas: Implications for Treatment Response.	Caserta S, Alvaro ME, Penna G, Fazio M, Stagno F, Allegra A.	Biomedicines	10.3390/biomedicines13092141	2025
	Poly-beta-hydroxybutyrate alleviated diarrhea and colitis via Lactobacillus johnsonii biofilm-mediated maturation of sulfomucin.	Ma N, Guo P, Chen J, Qi Z, Liu C, Shen J, Sun Y, Chen X, Chen GQ, Ma X.	Sci China Life Sci	10.1007/s11427-022-2213-6	2023
	Integration of 16 S rRNA gene sequencing, metabonomics and metagenome analysis to investigate the mechanism of Sparganium stoloniferum-Curcuma phaeocaulis in treating of endometriosis in rats.	Zheng W, Zhou H, Fu Z, Feng L, Wen D, Liang X, Cao L.	J Pharm Biomed Anal	10.1016/j.jpba.2024.115970	2024
	Changes in Gut Microbiota According to Disease Severity in a Lupus Mouse Model.	Han EJ, Ahn JS, Choi YJ, Kim DH, Chung HJ.	Int J Mol Sci	10.3390/ijms26031006	2025
	The influence of Lactobacillus johnsonii on tumor growth and lymph node metastasis in papillary thyroid carcinoma.	Xie M, Yang T, Liu Q, Ning Z, Feng L, Min X.	Commun Biol	10.1038/s42003-025-07856-9	2025
	Microplastics - Back to Reality: Impact of Pristine and Aged Microplastics in Soil on Earthworm Eisenia fetida under Environmentally Relevant Conditions.	Jiang X, Cao J, Ye Z, Klobucar G, Li M.	Environ Sci Technol	10.1021/acs.est.3c04097	2023
	Deoxycholic Acid Mitigates Necrotic Enteritis Through Selective Inhibition of Pathobionts and Enrichment of Specific Lactic Acid Bacteria.	Whitmore MA, Guo J, Kim DM, Liu J, Tobin I, Zhang G.	Pathogens	10.3390/pathogens14070688	2025
	Antimicrobial activity of yak beta-defensin 116 against Staphylococcus aureus and its role in gut homeostasis.	Li B, Zhang L, Wang L, Wei Y, Guan J, Mei Q, Hao N.	Int J Biol Macromol	10.1016/j.ijbiomac.2023.126761	2023
	A Mechanistic Study of Lactobacillus helveticus HY7801 and Its Extracellular Vesicles in Premenstrual Syndrome: Role of Gut Microbiota and Hormonal Modulation.	Kim H, Gwon H, Jeong JW, Kim JY, Shim JJ, Lee JH.	J Microbiol Biotechnol	10.4014/jmb.2507.07014	2025
	The Acetic Acid Produced by Lactobacillus Species Regulates Immune Function to Alleviate PEDV Infection in Piglets.	Sun MJ, Xing JH, Yan QS, Zou BS, Wang YJ, Niu TM, Yu T, Huang HB, Zhang D, Zhang SM, Sun WS, Zou RN, Wang CF, Shi CW.	Probiotics Antimicrob Proteins	10.1007/s12602-024-10243-1	2025
	Human umbilical cord mesenchymal stem cells alleviated TNBS-induced colitis in mice by restoring the balance of intestinal microbes and immunoregulation.	Fu Y, Zhang C, Xie H, Wu Z, Tao Y, Wang Z, Gu M, Wei P, Lin S, Li R, He Y, Sheng J, Xu J, Wang J, Pan Y.	Life Sci	10.1016/j.lfs.2023.122189	2023
	Lactobacillus johnsonii enhances the gut barrier integrity via the interaction between GAPDH and the mouse tight junction protein JAM-2.	Bai Y, Lyu M, Fukunaga M, Watanabe S, Iwatani S, Miyanaga K, Yamamoto N.	Food Funct	10.1039/d2fo00886f	2022
Pathogenicity	Hepatoenteric Protective Effect of Melanin from Inonotus hispidus on Acute Alcoholic Liver Injury in Mice.	Yuan Y, Wu F, Zhang F, Li X, Wu X, Fu J.	Mol Nutr Food Res	10.1002/mnfr.202200562	2023
	Sheep-Derived Lactobacillus johnsonii M5 Enhances Immunity and Antioxidant Capacity, Alleviates Diarrhea, and Improves Intestinal Health in Early-Weaned Lambs.	Wang Z, Zhao Y, Fan D, Zhang J, Diao Q, Cui K.	Microorganisms	10.3390/microorganisms13020404	2025
	Lactobacillus johnsonii CCFM1376 improves hypercholesterolemia in mice by regulating the composition of bile acids.	Chen K, Dang D, Li H, Ross RP, Stanton C, Chen W, Yang B.	Microbiome Res Rep	10.20517/mrr.2024.38	2025
	High-fat diet increases circulating palmitic acid produced by gut Bacteroides thetaiotaomicron to promote thrombosis.	Huang X, Tang X, He Q, Tadese DA, Cao K, Gao J, Xu Q, Cheng R, Lu Q, Chen Y, Yang M, Du Y, Mwangi J, Ni H, Lai R.	Cell Rep Med	10.1016/j.xcrm.2025.102260	2025
	Stigmasterol: Remodeling gut microbiota and suppressing tumor growth through Treg and CD8+ T cells in hepatocellular carcinoma.	Huo R, Yang WJ, Liu Y, Liu T, Li T, Wang CY, Pan BS, Wang BL, Guo W.	Phytomedicine	10.1016/j.phymed.2023.155225	2024
	The metabolic benefits of substituting sucrose for maple syrup are associated with a shift in carbohydrate digestion and gut microbiota composition in high-fat high-sucrose diet-fed mice.	Morissette A, Andre DM, Agrinier AL, Varin TV, Pilon G, Flamand N, Houde VP, Marette A.	Am J Physiol Endocrinol Metab	10.1152/ajpendo.00065.2023	2023
	Characterization and probiotic potential of thermotolerant lactic acid bacteria from silage for ensiling crop residues.	Srivastava R, Chamadia B, Behare PV, Chauhan K, Kumar S, Mondal G, Tyagi N.	AMB Express	10.1186/s13568-025-01941-2	2025
Pathogenicity	Gut microbiota composition and dietary interventions modulate abdominal fat deposition in poultry: Mechanisms and applications.	Gibril BAA, Tu X, Chai X, Xu J.	Poult Sci	10.1016/j.psj.2025.105754	2025
	Lactobacillus Johnsonii YH1136 alleviates schizophrenia-like behavior in mice: a gut-microbiota-brain axis hypothesis study.	Zheng L, Xin J, Ye H, Sun N, Gan B, Gong X, Bao S, Xiang M, Wang H, Ni X, Li H, Zhang T.	BMC Microbiol	10.1186/s12866-025-03893-w	2025
Genetics	Complete genome sequence of probiotic Lactobacillus johnsonii 7409N31 isolated from a healthy Hanwoo calf.	Oh YJ, Lee J, Lim SK, Kwon MS, Lee S, Choi SP, Yu D, Oh YS, Park J, Choi HJ.	J Anim Sci Technol	10.5187/jast.2022.e98	2023
	Amelioration of Metabolic Syndrome by Co-Administration of Lactobacillus johnsonii CRL1231 and Wheat Bran in Mice via Gut Microbiota and Metabolites Modulation.	Russo M, Marquez A, Andrada E, Torres S, Santacruz A, Medina R, Gauffin-Cano P.	Metabolites	10.3390/metabo15070466	2025
	Lactobacillus species ameliorate membranous nephropathy through inhibiting the aryl hydrocarbon receptor pathway via tryptophan-produced indole metabolites.	Miao H, Wang YN, Yu XY, Zou L, Guo Y, Su W, Liu F, Cao G, Zhao YY.	Br J Pharmacol	10.1111/bph.16219	2024
Genetics	Early antimicrobial regimen shapes gut microbiota and health trajectories in pigs: a longitudinal study from weaning to finishing.	Correa F, Luise D, Palladino G, Estelle J, Turroni S, Scicchitano D, Babbi G, Rampelli S, Candela M, Martelli PL, Stefanelli C, Perez-Calvo E, Trevisi P.	Anim Microbiome	10.1186/s42523-025-00477-x	2025
	Changes in Gut Microbiome According to Probiotic Intake in Rectal Cancer Patients Undergoing Diverting Stoma Repair: Study Protocol.	Park HM, Lee J, Lee SY, Kim CH, Kim HR.	J Clin Med	10.3390/jcm14207190	2025
Pathogenicity	Long-term Pu-erh tea alleviates inflammatory bowel disease via the regulation of intestinal microbiota and maintaining the intestinal mucosal barrier.	Feng BY, Chen PL, Yan L, Huang WF, Li CF, Yi LT, Xu GH.	Food Sci Biotechnol	10.1007/s10068-024-01696-9	2025
Pathogenicity	A specifically designed multi-biotic reduces uremic toxin generation and improves kidney function.	Beau A, Natividad J, Benoit B, Delerive P, Duboux S, Feng Y, Jammes M, Barnel C, Sequino G, Pinteur C, Glorieux G, Fouque D, Vidal H, Koppe L.	Gut Microbes	10.1080/19490976.2025.2531202	2025
	Ligilactobacillus Murinus and Lactobacillus Johnsonii Suppress Macrophage Pyroptosis in Atherosclerosis through Butyrate-GPR109A-GSDMD Axis.	Hua R, Ding N, Hua Y, Wang X, Xu Y, Qiao X, Shi X, Bai T, Xiong Y, Zhuo X, Fan C, Zhou J, Wu Y, Liu J, Yuan Z, Li T.	Adv Sci (Weinh)	10.1002/advs.202501707	2025
Pathogenicity	Lactobacillus reuteri FN041 Alleviates Radiation Enteritis by Regulating M2 Macrophages Polarization Based on Gut Microbiota and Its Metabolites.	Jiang S, Yao S, Lu C, Zhou Y, Gao T, Liu S, Zhong F.	Food Sci Nutr	10.1002/fsn3.70871	2025
	Stressing Out Cancer: Chronic Stress Induces Dysbiosis and Enhances Colon Cancer Growth.	McCollum SE, Shah YM.	Cancer Res	10.1158/0008-5472.can-23-3871	2024
	Lactobacillus johnsonii Improves Intestinal Barrier Function and Reduces Post-Weaning Diarrhea in Piglets: Involvement of the Endocannabinoid System.	Yin Z, Wang K, Liu Y, Li Y, He F, Yin J, Tang W.	Animals (Basel)	10.3390/ani14030493	2024
	Lactobacillus johnsonii HL79 mitigate plateau environment-induced hippocampal dysfunction in mice.	Gan B, Zhang X, Xin J, Duan L, Sun N, Chen Y, Zeng J, Lian Y, Li H, Wang H, Ni X, Ma H.	AMB Express	10.1186/s13568-025-01898-2	2025
	Topiramate alters the gut microbiome to aid in its anti-seizure effect.	Thai K, Taylor MW, Fernandes T, Akinade EA, Campbell SL.	Front Microbiol	10.3389/fmicb.2023.1242856	2023
Pathogenicity	Sleep deprivation in obesogenic setting alters lipidome and microbiome toward suboptimal inflammation in acute heart failure.	Halade GV, Mat Y, Gowda SGB, Jain S, Hui SP, Yadav H, Kain V.	FASEB J	10.1096/fj.202300184r	2023
Phylogeny	The efficacy and mechanism of Angelica sinensis (Oliv.) Diels root aqueous extract based on RNA sequencing and 16S rDNA sequencing in alleviating polycystic ovary syndrome.	Gao Y, Mo S, Cao H, Zhi Y, Ma X, Huang Z, Li B, Wu J, Zhang K, Jin L.	Phytomedicine	10.1016/j.phymed.2023.155013	2023
	Polysaccharides from Lyophyllum decastes reduce obesity by altering gut microbiota and increasing energy expenditure	Wang T, Han J, Dai H, Sun J, Ren J, Wang W, Qiao S, Liu C, Sun L, Liu S, Li D, Wei S, Liu H.	Carbohydrate polymers.		2022
	Postbiotics From Lactobacillus Johnsonii Activates Gut Innate Immunity to Mitigate Alcohol-Associated Liver Disease.	Yin R, Wang T, Sun J, Dai H, Zhang Y, Liu N, Liu H.	Adv Sci (Weinh)	10.1002/advs.202405781	2025
Phylogeny	Chinese herbal medicine, Tongxieyaofang, alleviates diarrhea via gut microbiota remodeling: evidence from network pharmacology and full-length 16S rRNA gene sequencing.	Shao H, Wang L, Zhang H.	Front Cell Infect Microbiol	10.3389/fcimb.2024.1502373	2024
	Lactobacillus johnsonii is a dominant Lactobacillus in the murine oral mucosa and has chitinase activity that compromises fungal cell wall integrity.	Vazquez-Munoz R, Thompson A, Sobue T, Dongari-Bagtzoglou A.	mBio	10.1128/mbio.02416-24	2024
Pathogenicity	Lactic acid bacteria strains reduce in vitro mercury toxicity on the intestinal mucosa.	Rodriguez-Viso P, Domene A, Velez D, Devesa V, Zuniga M, Monedero V.	Food Chem Toxicol	10.1016/j.fct.2023.113631	2023
	Sishen Pill inhibits intestinal inflammation in diarrhea mice via regulating kidney-intestinal bacteria-metabolic pathway.	Li X, Qiao B, Wu Y, Deng N, Yuan J, Tan Z.	Front Pharmacol	10.3389/fphar.2024.1360589	2024
Metabolism	Gut Microbiota and Tryptophan Metabolism as Therapeutic Targets for Spinal Cord Injury: Insights From Probiotic Treatment.	Dong J, Xu C, Jin S, Xie T, Xu Z, Hao D, Dong L.	J Inflamm Res	10.2147/jir.s513900	2025
	Polysaccharides from Lyophyllum decastes reduce obesity by altering gut microbiota and increasing energy expenditure.	Wang T, Han J, Dai H, Sun J, Ren J, Wang W, Qiao S, Liu C, Sun L, Liu S, Li D, Wei S, Liu H.	Carbohydr Polym	10.1016/j.carbpol.2022.119862	2022
	Insights into population adaptation and biodiversity of lactic acid bacteria in challenged date palm leaves silaging, using MALDI-TOF MS.	Jawaid MZ, Ashfaq MY, Al-Ghouti M, Zouari N.	Curr Res Microb Sci	10.1016/j.crmicr.2024.100235	2024
	Immune repertoire profiling and T cell dysregulation in Peripheral Blood Mononuclear Cells of Type 2 diabetic patients.	Bi Z, Wang F, Wang S, Fang Z.	PLoS One	10.1371/journal.pone.0332736	2025
Phylogeny	Preventive effect of Lactobacillus johnsonii YH1136 against uric acid accumulation and renal damages.	Zhang X, Jiang J, Xin J, Sun N, Zhao Z, Gan B, Jiang Y, Gong X, Li H, Ma H, Ni X, Chen Y, Bai Y, Wang H.	Front Microbiol	10.3389/fmicb.2024.1364857	2024
Metabolism	Cholesterol-lowering effect of bile salt hydrolase from a Lactobacillus johnsonii strain mediated by FXR pathway regulation.	Zhu H, Zhao F, Zhang W, Xia W, Chen Y, Liu Y, Fan Z, Zhang Y, Yang Y.	Food Funct	10.1039/d1fo03143k	2022
	Pre-harvest biocontrol of Listeria and Escherichia coli O157 on lettuce and spinach by lactic acid bacteria.	Yin HB, Chen CH, Gu G, Nou X, Patel J.	Int J Food Microbiol	10.1016/j.ijfoodmicro.2022.110051	2023
Phylogeny	Identifying fecal microbiota signatures of colorectal cancer in a Vietnamese cohort.	Nhung PTT, Le HTT, Nguyen QH, Huyen DT, Quyen DV, Song LH, Van Thuan T, Tran TTT.	Front Microbiol	10.3389/fmicb.2024.1388740	2024
	Dietary Supplementation of Lactobacillus johnsonii RS-7 Improved Antioxidant and Immune Function of Weaned Piglets.	Zhao K, Yin H, Yan H, Tang W, Diao H, Wang Q, Qi R, Liu J.	Animals (Basel)	10.3390/ani13101595	2023
	Lactobacillus johnsonii BFE6154 Ameliorates Diet-Induced Hypercholesterolemia.	Yoon H, Lee Y, Park H, Kang HJ, Ji Y, Holzapfel WH.	Probiotics Antimicrob Proteins	10.1007/s12602-021-09859-4	2023
	Maternal probiotic mixture supplementation optimizes the gut microbiota structure of offspring piglets through the gut-breast axis.	Hu T, Song Z, Yang L, Chen K, Wu Y, Xie F, Wang J, Yang G, Zhu Y.	Anim Nutr	10.1016/j.aninu.2024.04.025	2024
	Temporal dynamics of the resistome in gilts raised in an organic operation in which semen used for artificial insemination is the primary source of antimicrobial exposure.	Brito LFC, Althouse GC, Pitta DW, Indugu N, Sarmiento MP, Balamurugan NS.	Sci Rep	10.1038/s41598-025-25776-w	2025
Metabolism	Interactions between gut microbiota and parkinson's disease: the role of tryptophan metabolism.	Fan X, Xiao Z, Chen Y, Yang H, Diao M, Hu W, Wang S.	Cell Commun Signal	10.1186/s12964-025-02393-8	2025
	Incorporation of unfermented or fermented de-oiled rice bran meal into a rabbit's diet impacts growth performance, nutrient digestibility, cecal microbiota composition, and intestinal barrier function.	Zeid S, Daniel S, Jinghong L, Hang S.	Anim Biosci	10.5713/ab.24.0890	2025
	Semen Trigonellae alleviates LPS-induced depressive behavior via enhancing the abundance of Ligilactobacillus spp.	Chang W, Guo J, Yang Y, Zou L, Fu Y, Li M, Li L, Li C, Wang X, Zhao X, Wu C.	Food Sci Nutr	10.1002/fsn3.4475	2024
Pathogenicity	Lactobacillus johnsonii 3-1 and Lactobacillus crispatus 7-4 promote the growth performance and ileum development and participate in lipid metabolism of broilers.	Ding C, Wu H, Cao X, Ma X, Gao X, Gao Z, Liu S, Fan W, Liu B, Song S.	Food Funct	10.1039/d1fo03209g	2021
	Lactobacillus johnsonii Attenuates Citrobacter rodentium-Induced Colitis by Regulating Inflammatory Responses and Endoplasmic Reticulum Stress in Mice.	Zhang Y, Mu T, Yang Y, Zhang J, Ren F, Wu Z.	J Nutr	10.1093/jn/nxab250	2021
Metabolism	Ginseng Polysaccharides Inhibit Aspergillus sydowii-Driven Lung Adenocarcinoma via Modulating Gut Microbiota-Bile Acid Metabolism Axis.	He J, Shu X, Pan H, Wang M, Song Y, Zhou F, Lian L, Chen L, Ma G, Zhao Y, Li R, Liu L.	Cancers (Basel)	10.3390/cancers17193134	2025
	Lactobacillus amylovorus extracellular vesicles mitigate mammary gland ferroptosis via the gut-mammary gland axis.	Zhang Q, Chen D, Ding H, Li Q, Yuan S, Li H, Guan W, Zhang S.	NPJ Biofilms Microbiomes	10.1038/s41522-025-00752-4	2025
	Sensoproteomic Characterization of Lactobacillus Johnsonii-Fermented Pea Protein-Based Beverage: A Promising Strategy for Enhancing Umami and Kokumi Sensations while Mitigating Bitterness.	Spaccasassi A, Ye L, Rincon C, Borner RA, Bogicevic B, Glabasnia A, Hofmann T, Dawid C.	J Agric Food Chem	10.1021/acs.jafc.4c02317	2024
	Probiotic Milk Enriched with Protein Isolates: Physicochemical, Organoleptic, and Microbiological Properties.	Pawlos M, Szajnar K, Kowalczyk M, Znamirowska-Piotrowska A.	Foods	10.3390/foods13193160	2024
	In Vitro Assessment of Lactobacillus crispatus UBLCp01, Lactobacillus gasseri UBLG36, and Lactobacillus johnsonii UBLJ01 as a Potential Vaginal Probiotic Candidate.	Ahire JJ, Sahoo S, Kashikar MS, Heerekar A, Lakshmi SG, Madempudi RS.	Probiotics Antimicrob Proteins	10.1007/s12602-021-09838-9	2023
	A Literature Review on the Impact of the Gut Microbiome on Cancer Treatment Efficacy, Disease Evolution and Toxicity: The Implications for Hematological Malignancies.	Dumitru IG, Todor SB, Ichim C, Helgiu C, Helgiu A.	J Clin Med	10.3390/jcm14092982	2025
	Multi-omics analysis reveals the mechanism of Lactobacillus plantarum in alleviating metabolic disorders in type 2 diabetic mice through the gut-liver axis.	Zhang C, Gao Y, Huang Y, Qin Y, Li Y, Chen Q, Wu T, Zhang Y, Zhang Y, Deng D, Huang B, Chen M, Han M.	mSystems	10.1128/msystems.00965-25	2025
	Effects of Varied Sulfamethazine Dosage and Exposure Durations on Offspring Mice.	Wang H, Dang D, Zhu L, Pan M, Zhu J, Lu W, Lu S, Zhao J.	Microorganisms	10.3390/microorganisms12020381	2024
	Mendelian randomization study revealed a gut microbiota-immune system-kidney junction axis in chronic kidney disease.	Tan J, Xiong Z, Yu S, Lu W, Yu L.	Sci Rep	10.1038/s41598-025-05941-x	2025
	Characterization of Vaginal Lactobacilli with Potential Probiotic Properties Isolated from Healthy Women in Northern Iran.	Zare H, Izadi Amoli R, Rezapour M, Zaboli F, Kaboosi H.	Indian J Microbiol	10.1007/s12088-023-01186-2	2024
	Study of the gut microbiome in Egyptian patients with type 1 diabetes mellitus.	Allakany AI, Elbanna AA, Rohoma KH, Ahmed SM, Ibrahim AE, Fawzy MA, Header DA.	Prz Gastroenterol	10.5114/pg.2023.126055	2023
	Benefits and risks of hair, skin, and nail supplements in older adults.	Shing V, Aragon Sierra A, Shah AA.	Int J Womens Dermatol	10.1097/jw9.0000000000000236	2025
	Restoration of Lactobacillus johnsonii and Enterococcus faecalis Caused the Elimination of Tritrichomonas sp. in a Model of Antibiotic-Induced Dysbiosis.	Makusheva Y, Goncharova E, Bets V, Korel A, Arzhanova E, Litvinova E.	Int J Mol Sci	10.3390/ijms25105090	2024
	Gut microbiota and metabolism in systemic lupus erythematosus: from dysbiosis to targeted interventions.	Zhu JH, Wu LP, Deng L, Zang SG, Li XB, Chen X, Yu JX.	Eur J Med Res	10.1186/s40001-025-03264-1	2025
	Pediococcus acidilactici GR-5 alleviates hyperuricemia by degrading purine nucleosides and improving gut microbiota metabolism.	Ji J, An ZY, Khan A, Peng L, Kulshreshtha S, Salama ES, Yun H, Liu P, Jin WL, Li X.	NPJ Sci Food	10.1038/s41538-025-00556-y	2025
Genetics	Antibiotic resistance genes and bacterial community distribution patterns in pig farms.	Guo H, Wang C, Ju L, Pan L, Su Z, Sui Z.	Folia Microbiol (Praha)	10.1007/s12223-022-00988-z	2022
	Bile promotes Lactobacillus johnsonii N6.2 extracellular vesicle production with conserved immunomodulatory properties.	Beliakoff RE, Gonzalez CF, Lorca GL.	Sci Rep	10.1038/s41598-024-62843-0	2024
	LGG/LAC-MMT combination mitigates AFB₁-induced liver and intestinal injury in mice based on intestinal microbiota modulation.	Cheng J, Gao Y, Lv H, Li J, Sun X, An T, Liu H, Wang J, Zhang H, Wang H, Zou S, Fan Z, Chen Y.	Front Vet Sci	10.3389/fvets.2025.1654294	2025
Phylogeny	Gut microbiota in diarrheic and healthy calves: comparative analysis of 16S rRNA gene full-length sequences.	Do KH, Ryu DH, Ahn HJ, Kim MG, Choe SJ, Lee SH, Lee SM, Seo KW.	BMC Vet Res	10.1186/s12917-025-05094-z	2025
	Compound Probiotics Improve Body Growth Performance by Enhancing Intestinal Development of Broilers with Subclinical Necrotic Enteritis.	Sun N, Xue Y, Wei S, Wu B, Wang H, Zeng D, Zhao Y, Khalique A, Pan K, Zeng Y, Shu G, Jing B, Ni X.	Probiotics Antimicrob Proteins	10.1007/s12602-021-09867-4	2023
Pathogenicity	Joint Microbiota Suggests Articular Dysbiosis in Experimental Murine Spondyloarthritis and Histological Detection of Bacteria in Human SpA Joints.	Gonzalez-Chavez SA, Alvarado-Jaquez MF, Salas-Leiva JS, Mohl JE, Chaparro-Barrera E, Prieto-Carrasco R, Loya-Rivera M, Pacheco-Silva C, Pacheco-Tena C.	Int J Inflam	10.1155/ijin/9982583	2025
Metabolism	Intestinal mucosal flora of the intestine-kidney remediation process of diarrhea with deficiency kidney-yang syndrome in Sishen Pill treatment: Association with interactions between Lactobacillus johnsonii, Ca²⁺-Mg²⁺-ATP-ase, and Na⁺-K⁺-ATP-ase.	Zhu J, Li X, Deng N, Zhou K, Qiao B, Li D, Tan Z.	Heliyon	10.1016/j.heliyon.2023.e16166	2023
	Effect of extracted phycocyanin by-products as a synbiotic supplement on the production performance and intestinal morphology of broilers.	Hamprakorn K, Maneewan B, Jantasin W, Lani MN, Moonmanee T, Panatuk J.	Vet World	10.14202/vetworld.2025.52-59	2025
	Gut-Immune Interplay: Decoding the Microbiome's Impact on Immunity and Diseases.	Khazi AI, Ahmad A.	J Pharm Bioallied Sci	10.4103/jpbs.jpbs_1377_25	2025
Genetics	Safety assessment of five candidate probiotic lactobacilli using comparative genome analysis.	Altavas PJDR, Amoranto MBC, Kim SH, Kang DK, Balolong MP, Dalmacio LMM.	Access Microbiol	10.1099/acmi.0.000715.v4	2024
	Fasting-mimicking diet remodels gut microbiota and suppresses colorectal cancer progression.	Luo M, Wang Q, Sun Y, Jiang Y, Wang Q, Gu Y, Hu Z, Chen Q, Xu J, Chen S, Hou T, Feng L.	NPJ Biofilms Microbiomes	10.1038/s41522-024-00520-w	2024
	Lactobacillus johnsonii activates porcine monocyte derived dendritic cells maturation to modulate Th cellular immune response.	Zheng D, Wang Z, Sui L, Xu Y, Wang L, Qiao X, Cui W, Jiang Y, Zhou H, Tang L, Li Y.	Cytokine	10.1016/j.cyto.2021.155581	2021
	A novel biomarker Ins60/ApoA for predicting diabetic kidney disease in newly diagnosed type 2 diabetes: a pilot study.	Sun J, Ma M, Zhang H, Hu H, Liu Y, Zhang W, Pan B, Wan X.	Front Med (Lausanne)	10.3389/fmed.2025.1569730	2025
	Distribution of tyrosol fatty acid esters in the gastrointestinal tracts of mice and their hydrolysis characteristics by gut microbiota.	Wang X, Chen K, Wang S, Wang Q, Hu Y, Yin F, Liu X, Zhou D.	Food Funct	10.1039/d1fo04029d	2022
	Draft Genome Sequences of Two Lactobacillus johnsonii and Three Ligilactobacillus salivarius Strains Isolated from Intestinal Microbiomes of Chickens.	Reed A, Olszewska MA, Mann A, Novoa Rama E, Thippareddi H, Singh M, den Bakker HC.	Microbiol Resour Announc	10.1128/mra.00925-21	2022
	Isolation and in vitro investigation on lactic acid bacteria for potential probiotic properties from cat feces.	Wang J, Yang X, Peng Y, Zhang J, Huang Y, Zhong Z, Liu H, Fu H, Zhou Z, Peng G.	Front Vet Sci	10.3389/fvets.2024.1495745	2024
	Metabolomic Profiling and Anti-Helicobacter pylori Activity of Caulerpa lentillifera (Sea Grape) Extract.	Thacharoen C, Inkaewwong T, Jumpathong W, Kaewsapsak P, Rattanapot T, Pisithkul T.	Mar Drugs	10.3390/md23070282	2025
Phylogeny	Preventive effects of Lactobacillus johnsonii on the renal injury of mice induced by high fluoride exposure: Insights from colonic microbiota and co-occurrence network analysis.	Xin J, Sun N, Wang H, Ma H, Wu B, Li L, Wang Y, Huang H, Zeng D, Bai X, Chen A, Gong S, Ni X, Bai Y.	Ecotoxicol Environ Saf	10.1016/j.ecoenv.2021.113006	2021
Metabolism	Lactobacillus johnsonii Attenuates Liver Steatosis and Bile Acid Dysregulation in Parenteral Nutrition-Fed Rats.	Xu J, Zhou Y, Cheng S, Zhao Y, Yan J, Wang Y, Cai W, Jiang L.	Metabolites	10.3390/metabo13101043	2023
	Metagenomic analysis of rats with diarrhea treated with mixed probiotics: response to consecutive and alternate-hour supplementation.	Wang A, Cui X, Shi C.	Transl Pediatr	10.21037/tp-24-129	2024
	Characterizing the microbiome of "sterile" organs in experimental mice and evidence of translocation of bacteria from the gut to other internal organs.	Xu M, Guan S, Zhong C, Ma M, Tao L, Huang G.	Imeta	10.1002/imt2.70081	2025
	The effects of dietary fat on gut microbial composition and function in a mouse model of ovarian cancer.	AlHilli MM, Sangwan N, Myers A, Tewari S, Lindner DJ, Cresci GAM, Reizes O.	J Ovarian Res	10.1186/s13048-025-01731-1	2025
	Beneficial Effect of Heat-Killed Lactic Acid Bacterium Lactobacillus johnsonii No. 1088 on Temporal Gastroesophageal Reflux-Related Symptoms in Healthy Volunteers: A Randomized, Placebo-Controlled, Double-Blind, Parallel-Group Study.	Komatsu Y, Miura H, Iwama Y, Urita Y.	Nutrients	10.3390/nu16081230	2024
	The development of intestinal lactic acid bacteria in piglets as determined by high-throughput sequencing.	Feng L, Zhu C, Xia P, Wang H, Su Y, Zhu W.	Anim Biotechnol	10.1080/10495398.2021.2002883	2023
Metabolism	Effects of dietary metabolizable energy level on hepatic lipid metabolism and cecal microbiota in aged laying hens.	Li A, Hu H, Huang Y, Yang F, Mi Q, Jin L, Liu H, Zhang Q, Pan H.	Poult Sci	10.1016/j.psj.2024.103855	2024
	Lactobacillus johnsonii Generates Cyclo(pro-trp) and Promotes Intestinal Ca²⁺ Absorption to Alleviate CKD-SHPT.	Zeng X, Sun L, Xie H, Gong S, Lu C, Xu Z, Guan H, Han B, Wang W, Zhang Z, Zhou J, Wang S, Chen Y, Xiao W.	Adv Sci (Weinh)	10.1002/advs.202414678	2025
	Exploring the regulatory mechanism of intestinal flora based on PD-1 receptor/ligand targeted cancer immunotherapy.	Gao X, Jiang J.	Front Immunol	10.3389/fimmu.2024.1359029	2024
	An exploratory in silico analysis of bacteriocin gene clusters in the urobiome.	Jones J, Murphy CP, Sleator RD, Culligan EP.	Microbiome Res Rep	10.20517/mrr.2023.78	2024
Genetics	Reutericyclin, a specialized metabolite of Limosilactobacillus reuteri, mitigates risperidone-induced weight gain in mice.	Aboulalazm FA, Kazen AB, deLeon O, Muller S, Saravia FL, Lozada-Fernandez V, Hadiono MA, Keyes RF, Smith BC, Kellogg SL, Grobe JL, Kindel TL, Kirby JR.	Gut Microbes	10.1080/19490976.2025.2477819	2025
Pathogenicity	Lactobacillus johnsonii LJO02 (DSM 33828) Cell-Free Supernatant and Vitamin D Improve Wound Healing and Reduce Interleukin-6 Production in Staphylococcus aureus-Infected Human Keratinocytes.	Zanetta P, Ballacchino C, Squarzanti DF, Amoruso A, Pane M, Azzimonti B.	Pharmaceutics	10.3390/pharmaceutics16010018	2023
Genetics	Characterization of Probiotic Properties and Whole-Genome Analysis of Lactobacillus johnsonii N5 and N7 Isolated from Swine.	Wang K, Wang Y, Gu L, Yu J, Liu Q, Zhang R, Liang G, Chen H, Gu F, Liu H, Jiao X, Zhang Y.	Microorganisms	10.3390/microorganisms12040672	2024
	Impacts of different dietary soybean meal levels on jejunal immunity of nursery pigs at different days post-weaning.	Choi H, Deng Z, Kim SW.	J Anim Sci Biotechnol	10.1186/s40104-025-01271-0	2025
	Study of the Effect of Synbiotic Diet on Haematological and Oxidative Indexes Changes in Male Dogs.	Armian AM, Pourjafar H, Gharamaleki MN.	Vet Med Sci	10.1002/vms3.70290	2025
Pathogenicity	Probiotic Lactobacillus johnsonii BS15 Prevents Memory Dysfunction Induced by Chronic High-Fluorine Intake through Modulating Intestinal Environment and Improving Gut Development.	Sun N, Ni X, Wang H, Xin J, Zhao Y, Pan K, Jing B, Zeng D.	Probiotics Antimicrob Proteins	10.1007/s12602-020-09644-9	2020
	Unlocking the therapeutic potential of Huoxiang Zhengqi San in cold and high humidity-induced diarrhea: Insights into intestinal microbiota modulation and digestive enzyme activity.	Wu Y, Deng N, Liu J, Cai Y, Yi X, Tan Z.	Heliyon	10.1016/j.heliyon.2024.e32789	2024
Phylogeny	Dextrose Prolotherapy's Impact on the Urinary Microbiome in Interstitial Cystitis/Bladder Pain Syndrome.	Chen LK, Chang SJ, Chen CL, Yan JH, Cherng JH, Fan GY, Meng E, Hsu YC.	Int J Med Sci	10.7150/ijms.104028	2025
	Advances in understanding the role of gut microbiota in fat deposition and lipid metabolism.	Zhong Y, Lei Y, Jiang S, Chen D, Wang X, Wang K, Liao T, Liao R, Gan M, Niu L, Zhao Y, Chen L, Zhou X, Wang Y, Zhu L, Shen L.	J Anim Sci Biotechnol	10.1186/s40104-025-01284-9	2025
	Co-infection with Proteus mirabilis and extraintestinal pathogenic Escherichia coli aggravated liver injury in chickens by disrupting the jejunal barrier.	Cen JQ, Yang Z, Liu XL, Wang NL, Wu SY, Min L, Zhang N, Zhou Y, Wang J, Yu Z.	Poult Sci	10.1016/j.psj.2025.105369	2025
	Intravaginal injection of Lactobacillus johnsonii may modulates oviductal microbiota and mucosal barrier function of laying hens.	Nii T, Shinkoda T, Isobe N, Yoshimura Y.	Poult Sci	10.1016/j.psj.2023.102699	2023
Pathogenicity	Parabacteroides goldsteinii Alleviates Intestinal Inflammation in Dextran Sulfate Sodium-Treated Pigs.	Deng X, Guo T, He Y, Gao S, Su J, Pan H, Li A.	Animals (Basel)	10.3390/ani15091231	2025
	Alterations in intestinal microbiota and enzyme activities under cold-humid stress: implications for diarrhea in cold-dampness trapped spleen syndrome.	Wu Y, Deng N, Liu J, Jiang P, Tan Z.	Front Microbiol	10.3389/fmicb.2023.1288430	2023
	The role of microbial indole metabolites in tumor.	Jia D, Kuang Z, Wang L.	Gut Microbes	10.1080/19490976.2024.2409209	2024
	Probiotic Lactobacilli Administration Induces Changes in the Fecal Microbiota of Preweaned Dairy Calves.	Fernandez-Ciganda S, Fraga M, Zunino P.	Probiotics Antimicrob Proteins	10.1007/s12602-021-09834-z	2022
	Effects of Treatment with Lactobacilli on Necrotic Enteritis in Broiler Chickens.	Shojadoost B, Alizadeh M, Boodhoo N, Astill J, Karimi SH, Shoja Doost J, Taha-Abdelaziz K, Kulkarni R, Sharif S.	Probiotics Antimicrob Proteins	10.1007/s12602-021-09901-5	2022
	Synergistic antimicrobial and probiotic activity of lactic acid bacteria isolated from Tarkhineh against Candida albicans.	Kiani A, Nami Y, Barghi A, Salehian M, Goudarzi F, Haghshenas B.	Sci Rep	10.1038/s41598-025-07549-7	2025
	The Effects of Lactobacillus johnsonii on Diseases and Its Potential Applications.	Zhang Z, Zhao L, Wu J, Pan Y, Zhao G, Li Z, Zhang L.	Microorganisms	10.3390/microorganisms11102580	2023
	Effects of oral administration of native lactic acid bacteria with probiotic potential on productive parameters and meat quality of fattening guinea pigs (Cavia porcellus)	Goicochea-Vargas J, Salvatierra-Alor M, Acosta-Pachorro F, Rondon-Jorge W, Cajacuri-Aquino J, Herrera-Briceno A, Morales-Parra E, Mialhe E, Silva M, Ratto M.	Open Vet J		2025
	Lactobacillus johnsonii-activated chicken bone marrow-derived dendritic cells exhibit maturation and increased expression of cytokines and chemokines in vitro.	Huang X, Ma S, Wang L, Zhou H, Jiang Y, Cui W, Qiao X, Xu Y, Li Y, Tang L.	Cytokine	10.1016/j.cyto.2020.155269	2020
	Lactobacillus johnsonii N6.2 phospholipids induce immature-like dendritic cells with a migratory-regulatory-like transcriptional signature.	Cuaycal AE, Teixeira LD, Lorca GL, Gonzalez CF.	Gut Microbes	10.1080/19490976.2023.2252447	2023
	Dissecting the Genetic Correlations and Causal Effects of Gut Microbiota on Pan-Cancer Phenotype: Driven by Common Dietary Preferences.	Zhou Y, Feng Y, Wang Y, Wang Y, Liu X, Sun T, Xu J.	Food Sci Nutr	10.1002/fsn3.70708	2025
	Effect of Probiotics on Uric Acid Levels: Meta-Analysis with Subgroup Analysis and Meta-Regression	Othman R, Sassi M, Hammamia S, Dziri C, Zanina Y, Salem K, Jamoussi H.	Nutrients		2025
	Korean red ginseng extract prevents bone loss in an oral model of glucocorticoid induced osteoporosis in mice.	Chargo NJ, Kang HJ, Das S, Jin Y, Rockwell C, Cho JY, McCabe LR, Parameswaran N.	Front Pharmacol	10.3389/fphar.2024.1268134	2024
Metabolism	Probiotic alleviate fluoride-induced memory impairment by reconstructing gut microbiota in mice.	Xin J, Wang H, Sun N, Bughio S, Zeng D, Li L, Wang Y, Khalique A, Zeng Y, Pan K, Jing B, Ma H, Bai Y, Ni X.	Ecotoxicol Environ Saf	10.1016/j.ecoenv.2021.112108	2021
	Gut microbiota therapy for chronic kidney disease.	Liu C, Wang J, Lei L, Li L, Yuan X.	Front Immunol	10.3389/fimmu.2025.1660226	2025
	Diet-microbiome interactions promote enteric nervous system resilience following spinal cord injury.	Hamilton AM, Blackmer-Raynolds L, Li Y, Kelly SD, Kebede N, Williams AE, Chang J, Garraway SM, Srinivasan S, Sampson TR.	NPJ Biofilms Microbiomes	10.1038/s41522-024-00556-y	2024
Genetics	Co-cultivation of Lactobacillus acidophilus and Bacillus subtilis mediates the gut-muscle axis affecting pork quality and flavor.	Lin Z, Zhou X, Lu T, An W, Chen S, Li S, Miao H, Han X.	J Anim Sci Biotechnol	10.1186/s40104-025-01229-2	2025
	Ligilactobacillus salivarius regulating translocation of core bacteria to enrich mouse intrinsic microbiota of heart and liver in defense of heat stress.	Yang J, Shang P, Liu Z, Wang J, Zhang B, Zhang H.	Front Immunol	10.3389/fimmu.2025.1540548	2025
	Ultrasonic assisted extraction, characterization and gut microbiota-dependent anti-obesity effect of polysaccharide from Pericarpium Citri Reticulatae 'Chachiensis'.	Li Y, Li Z, Chen B, Hou Y, Wen Y, Gan L, Jin J, Li C, Wu P, Li D, Chen WH, Wu R.	Ultrason Sonochem	10.1016/j.ultsonch.2023.106383	2023
	Microbial Fermentation Enhances the Effect of Black Tea on Hyperlipidemia by Mediating Bile Acid Metabolism and Remodeling Intestinal Microbes.	Sun L, Wen L, Li Q, Chen R, Wen S, Lai X, Lai Z, Cao J, Zhang Z, Hao M, Cao F, Sun S.	Nutrients	10.3390/nu16070998	2024
	Assessment of probiotic adhesion and inhibitory effect on Escherichia coli and Salmonella adhesion.	Wang Y, Jia D, Wang JH, Li HH, Liu JL, Liu AH, Wang JM, Guan GQ, Luo JX, Yin H, Li YQ.	Arch Microbiol	10.1007/s00203-021-02593-z	2021
Pathogenicity	Lactobacillus johnsonii 6084 alleviated sepsis-induced organ injury by modulating gut microbiota.	Han S, Zheng H, Han F, Zhang X, Zhang G, Ma S, Liu K, Qin W, Wu G.	Food Sci Nutr	10.1002/fsn3.2989	2022
	Targeting Lactobacillus johnsonii to reverse chronic kidney disease.	Miao H, Liu F, Wang YN, Yu XY, Zhuang S, Guo Y, Vaziri ND, Ma SX, Su W, Shang YQ, Gao M, Zhang JH, Zhang L, Zhao YY, Cao G.	Signal Transduct Target Ther	10.1038/s41392-024-01913-1	2024
	Overview of the Efficacy of Using Probiotics for Neurosurgical and Potential Neurosurgical Patients.	Fijan S, Smigoc T.	Microorganisms	10.3390/microorganisms12071361	2024
Genetics	The Scent Gland Microbiomes of Wild Tamarins Provide New Insight Into Microbial Contributions to Olfactory Communication.	Carboni S, Poirier AC, Peralta-Aguilar AP, Watsa M, Erkenswick G, Melin AD.	Ecol Evol	10.1002/ece3.72335	2025
Genetics	The CRISPR-Cas system in Lactiplantibacillus plantarum strains: identification and characterization using a genome mining approach.	Rostampour M, Panahi B, Masoumi Jahandizi R.	Front Microbiol	10.3389/fmicb.2024.1394756	2024
Phylogeny	Seasonal Variations in the Structure and Function of the Gut Flora in Adult Male Rhesus Macaques Reared in Outdoor Colonies.	Lv L, Zhang F, Zhou H, Xiao W, Hu Y, Wang W, Zhu Z, Zhu F, Qin D, Hu X.	Microorganisms	10.3390/microorganisms13010117	2025
	Lactobacillus johnsonii N5 from heat stress-resistant pigs improves gut mucosal immunity and barrier in dextran sodium sulfate-induced colitis.	Yuan L, Zhu C, Gu F, Zhu M, Yao J, Zhu C, Li S, Wang K, Hu P, Zhang Y, Cai D, Liu HY.	Anim Nutr	10.1016/j.aninu.2023.04.012	2023
	Shenling Baizhu powder attenuates lard diet in a fatigued state-induced diarrhea via targeting microbial metabolites short chain fatty acids-mediated lipid metabolism.	Qiao B, Xiao N, Deng N, Tan Z.	3 Biotech	10.1007/s13205-024-04045-z	2024
	Fermentability of select polyphenol-rich substrates in the canine faecal inoculum and their interaction with a canine-origin probiotic: an in vitro appraisal.	Ashwin K, Pattanaik AK, Paladan V, Singh A, Sahoo JK, Jose T, Jadhav SE, Dutta N.	J Sci Food Agric	10.1002/jsfa.11495	2022
Metabolism	Effect of the administration of Lactobacillus spp. strains on neonatal diarrhoea, immune parameters and pathogen abundance in pre-weaned calves.	Fernandez S, Fraga M, Castells M, Colina R, Zunino P.	Benef Microbes	10.3920/bm2019.0167	2020
Metabolism	Effect of Tryptophan Supplementation Levels on the Cecal Microbial Composition, Growth Performance, Immune Function and Antioxidant Capacity in Broilers.	Liu X, Fu C, Gao Q, Zhang H, Shi T, Li G, Wang Y, Shang Y.	Metabolites	10.3390/metabo15110736	2025
	Effect of Gegen Qinlian Decoction on the regulation of gut microbiota and metabolites in type II diabetic rats.	Xu J, Zou Z, Li X, Sun X, Wang X, Qin F, Abulizi A, Chen Q, Pan Z, Shen H, Lv Y, Yan R.	Front Microbiol	10.3389/fmicb.2024.1429360	2024
	Insight of Metal Ions in Enzymatic Synthesis of Levan: The Metal-Binding Loop.	Ko H, Kang M, Sung BH, Kim MJ, Sohn JH, Bae JH.	J Microbiol Biotechnol	10.4014/jmb.2411.11030	2025
	Iturin A Potentiates Differentiation of Intestinal Epithelial Defense Cells by Modulating Keap1/Nrf2 Signaling to Mitigate Oxidative Damage Induced by Heat-Stable Enterotoxin B.	Zan GX, Qu HZ, Li XY, Peng QL, Wang XF, Li RS, Zhao YG, Yan HC, Zhou JY, Wang XQ.	Antioxidants (Basel)	10.3390/antiox14040478	2025
	Mucosal Hub Bacteria as Potential Targets for Improving High-Fat Diet-Related Intestinal Barrier Injury.	Shao L, Zhang B, Song Y, Lyu Z, Zhang W, Yang W, Fu J, Li J, Shi J.	Can J Infect Dis Med Microbiol	10.1155/cjid/3652740	2024
	Probiotic Supplementation Alleviates Corticosterone-Induced Fatty Liver Disease by Regulating Hepatic Lipogenesis and Increasing Gut Microbiota Diversity in Broilers.	Feng Y, Mei W, Chen Q, Chen X, Ni Y, Lei M, Liu J.	Microorganisms	10.3390/microorganisms13010200	2025
	Probiotic Lactobacillus johnsonii BS15 Promotes Growth Performance, Intestinal Immunity, and Gut Microbiota in Piglets.	Xin J, Zeng D, Wang H, Sun N, Zhao Y, Dan Y, Pan K, Jing B, Ni X.	Probiotics Antimicrob Proteins	10.1007/s12602-018-9511-y	2020
	Microbiota-Derived Inosine Suppresses Systemic Autoimmunity via Restriction of B Cell Differentiation and Migration.	Gao L, Zhang Y, Hu Z, Chen S, Wang Q, Zeng Y, Yin H, Zhao J, Zhan Y, Gao C, Xin Y, Chen B, van der Veen S, Zhao M, Fang D, Lu Q.	Adv Sci (Weinh)	10.1002/advs.202409837	2025
	Effect of dietary inclusion of indigenous probiotics on the growth and intestinal histomorphology of guinea pigs (Cavia porcellus).	Goicochea-Vargas J, Salvatierra-Alor M, Acosta-Pachorro F, Rondon-Jorge W, Caro-Magni C, Cajacuri-Aquino J, Morales-Parra E, Mialhe E, Silva M, Ratto M.	Open Vet J	10.5455/ovj.2025.v15.i7.8	2025
	The role of gut microbiota on cognitive development in rodents: a meta-analysis.	Putri SSF, Irfannuddin I, Murti K, Kesuma Y, Darmawan H, Koibuchi N.	J Physiol Sci	10.1186/s12576-023-00869-1	2023
	Remodeling of the gut microbiome by Lactobacillus johnsonii alleviates the development of acute myocardial infarction.	Zhong X, Zhao Y, Huang L, Liu J, Wang K, Gao X, Zhao X, Wang X.	Front Microbiol	10.3389/fmicb.2023.1140498	2023
	Lactobacillus helveticus CNU395 and L. paracasei CNU396 Alleviate Cognition in Scopolamine-Induced Cognitive Impairment Mice	Le B, Kim D, Song H, Giang P, Han H, Yang S.	Microorganisms		2025
	The interplay of gut microbiota, obesity, and depression: insights and interventions.	Halabitska I, Petakh P, Kamyshna I, Oksenych V, Kainov DE, Kamyshnyi O.	Cell Mol Life Sci	10.1007/s00018-024-05476-w	2024
	Impact of Edible Insect Polysaccharides on Mouse Gut Microbiota: A Study on White-Spotted Flower Chafer Larva (Protaetia brevitarsis seulensis) and Silkworm Pupa (Bombyx mori).	Lee JH, Son H, Subramaniyam S, Lim HJ, Park S, Choi RY, Kim IW, Seo M, Kweon HY, Kim Y, Kim SW, Choi JS, Shin Y.	Foods	10.3390/foods14010006	2024
	Extraction of Seed Oil from Heracleum persicum Desf. ex Fischer and Investigation of Its Composition, Qualitative and Nutraceutical Properties.	Dadazadeh A, Azadmard-Damirchi S, Piravi-Vanak Z, Torbati M, Martinez F.	Foods	10.3390/foods14203486	2025
Pathogenicity	Interactions between toll-like receptors signaling pathway and gut microbiota in host homeostasis.	Chen L, Zhang L, Hua H, Liu L, Mao Y, Wang R.	Immun Inflamm Dis	10.1002/iid3.1356	2024
	Sex Differences and Androgen Regulation Shape Mucosal Immune Phenotype, Gut Microbiota, and Microbiota-Derived Lactate in SKG Arthritis Model.	Wu X, Jiang L, Cao Y, Wang P, Wang W, Zhang X.	J Inflamm Res	10.2147/jir.s552491	2025
Pathogenicity	Probiotics: an Antibiotic Replacement Strategy for Healthy Broilers and Productive Rearing.	Neveling DP, Dicks LMT.	Probiotics Antimicrob Proteins	10.1007/s12602-020-09640-z	2021
Metabolism	Novel Approaches in Glucose and Lipid Metabolism Disorder Therapy: Targeting the Gut Microbiota-Bile Acid Axis.	Jiang J, Zhang H, Hussain M, Abdullah, Feng F, Guan R, Zhong H.	Biology (Basel)	10.3390/biology14070802	2025
	Gut Microbiome Analysis and Screening of Lactic Acid Bacteria with Probiotic Potential in Anhui Swine.	Shao Y, Wu X, Yu Z, Li M, Sheng T, Wang Z, Tu J, Song X, Qi K.	Animals (Basel)	10.3390/ani13243812	2023
	GAPDH Released from Lactobacillus johnsonii MG Enhances Barrier Function by Upregulating Genes Associated with Tight Junctions.	Lyu M, Bai Y, Orihara K, Miyanaga K, Yamamoto N.	Microorganisms	10.3390/microorganisms11061393	2023
Metabolism	Lactobacillus johnsonii L531 ameliorates enteritis via elimination of damaged mitochondria and suppression of SQSTM1-dependent mitophagy in a Salmonella infantis model of piglet diarrhea.	Xia B, Yu J, He T, Liu X, Su J, Wang M, Wang J, Zhu Y.	FASEB J	10.1096/fj.201901445rrr	2020
	Screening of Sourdough Starter Strains and Improvements in the Quality of Whole Wheat Steamed Bread.	Shen J, Shi K, Dong H, Yang K, Lu Z, Lu F, Wang P.	Molecules	10.3390/molecules27113510	2022
	Effects of Bacillus pumilus on growth performance, immunological indicators and gut microbiota of mice.	Zhang N, Wang L, Wei Y.	J Anim Physiol Anim Nutr (Berl)	10.1111/jpn.13505	2021
	Effects of dietary traditional Chinese medicine residues on growth performance, intestinal health and gut microbiota compositions in weaned piglets.	Sun W, Chen Z, Huang Z, Wan A, Zhou M, Gao J.	Front Cell Infect Microbiol	10.3389/fcimb.2023.1283789	2023
Phylogeny	Optimization of lung tissue pre-treatment by bead homogenization for subsequent culturomics.	Anduni L, Molina H, Zazueta A, Cancino J, Ponce C, Chakoory O, Comtet-Marre S, Tapia CV, Peyret P, Gotteland M, Magne F.	Sci Rep	10.1038/s41598-024-69736-2	2024
	Heat-Killed Leuconostoc mesenteroides H40 Alleviates Cognitive Impairment by Anti-Inflammation and Antioxidant Effects in a Scopolamine-Induced Mouse Model.	Lee NK, Lee Y, Hwang J, Park E, Paik HD.	J Microbiol Biotechnol	10.4014/jmb.2411.11013	2025
Metabolism	Microbiome-derived inosine modulates response to checkpoint inhibitor immunotherapy.	Mager LF, Burkhard R, Pett N, Cooke NCA, Brown K, Ramay H, Paik S, Stagg J, Groves RA, Gallo M, Lewis IA, Geuking MB, McCoy KD.	Science	10.1126/science.abc3421	2020
	Lactobacillus fermentum Inhibits the Development of Colitis by Regulating the Intestinal Microbiota and Metabolites to Enhance the Intestinal Barrier and Decrease Inflammatory Responses.	You X, Shi P, Liu W, Zheng M, Jin L, Liu W.	Int J Mol Sci	10.3390/ijms26189181	2025
	A prebiotic diet modulates the oral microbiome composition and results in the attenuation of oropharyngeal candidiasis in mice.	Vazquez-Munoz R, Thompson A, Sobue T, Dongari-Bagtzoglou A.	Microbiol Spectr	10.1128/spectrum.01734-23	2023
	Microbiota does not influence tumor development in two models of heritable cancer.	Spring J, Gurbuxani S, Golovkina T.	mBio	10.1128/mbio.03866-24	2025
Phylogeny	Genetic and Phenotypic Characteristics of a Multi-strain Probiotic for Broilers.	Neveling DP, Ahire JJ, Laubscher W, Rautenbach M, Dicks LMT.	Curr Microbiol	10.1007/s00284-019-01797-3	2020
	Consecutive fecal microbiota transplantation for metabolic dysfunction-associated steatotic liver disease: a randomized controlled trial.	Groenewegen B, Ruissen MM, Crossette E, Menon R, Prince AL, Norman JM, Ballieux BEPB, Lamb HJ, Terveer EM, Keller JJ, Tushuizen ME.	Gut Microbes	10.1080/19490976.2025.2541035	2025
Genetics	Effect of acupuncture at Back-Shu points on gut microbiota in insomnia model rats based on metagenomic sequencing technology	Qi S, Qian J, Li Y, Li Y, Li W, Gao X.	Front Microbiol		2025
	L. acidophilus/L. johnsonii ratio affects slow transit constipation in rats.	Liao Y, Wang Y, Huang W, Wang J, Guo M, Zhang J, Zheng H, Yan Y, Lin Z, Qiu N, Yu X, Yu Y.	Sci Rep	10.1038/s41598-024-71945-8	2024
Pathogenicity	Alginate Oligosaccharide Alleviated Cisplatin-Induced Kidney Oxidative Stress via Lactobacillus Genus-FAHFAs-Nrf2 Axis in Mice.	Zhang Y, Qin S, Song Y, Yuan J, Hu S, Chen M, Li L.	Front Immunol	10.3389/fimmu.2022.857242	2022
	Bifidobacterium animalis subsp. lactis Probio-M8 alleviates abnormal behavior and regulates gut microbiota in a mouse model suffering from autism.	Miao Z, Chen L, Zhang Y, Zhang J, Zhang H.	mSystems	10.1128/msystems.01013-23	2024
	Inhaling Eugenol Inhibits NAFLD by Activating the Hepatic Ectopic Olfactory Receptor Olfr544 and Modulating the Gut Microbiota.	Wang XR, Li ZZ, Sun SD, Song YG, Miao JX, Wu XX, Han YL, Zhang XL, Chen WJ, Wang QH, Zhang Y, Fu Y, Liu YT, Lang LY, Zhao WX, Miao MS.	Adv Sci (Weinh)	10.1002/advs.202510321	2025
	Complete Genome Sequence of Lactobacillus johnsonii NCK2677, Isolated from Mice.	O'Flaherty S, Foley MH, Rivera AJ, Theriot CM, Barrangou R.	Microbiol Resour Announc	10.1128/mra.00918-20	2020
	Microbiome Alterations Driven by Trypanosoma cruzi Infection in Two Disjunctive Murine Models.	Castaneda S, Munoz M, Hotez PJ, Bottazzi ME, Paniz-Mondolfi AE, Jones KM, Mejia R, Poveda C, Ramirez JD.	Microbiol Spectr	10.1128/spectrum.00199-23	2023
	The Skin Microbiome and Its Role in Psoriasis: A Review.	Celoria V, Rosset F, Pala V, Dapavo P, Ribero S, Quaglino P, Mastorino L.	Psoriasis (Auckl)	10.2147/ptt.s328439	2023
	Multi-omics reveals EGCG's anti-calcification effects associated with gut microbiota and metabolite remodeling.	Zhang Y, Tang Z, Zhu J, Zhao R, Wang S.	Front Immunol	10.3389/fimmu.2025.1595527	2025
Genetics	Fecal microbiota transplantation restores normal fecal composition and delays malignant development of mild chronic kidney disease in rats.	Liu X, Zhang M, Wang X, Liu P, Wang L, Li Y, Wang X, Ren F.	Front Microbiol	10.3389/fmicb.2022.1037257	2022
Pathogenicity	Rosmarinic acid alleviates intestinal inflammatory damage and inhibits endoplasmic reticulum stress and smooth muscle contraction abnormalities in intestinal tissues by regulating gut microbiota.	Li K, Wu J, Xu S, Li X, Zhang Y, Gao XJ.	Microbiol Spectr	10.1128/spectrum.01914-23	2023
	Intranasal administration of Lactobacillus johnsonii attenuates hyperoxia-induced lung injury by modulating gut microbiota in neonatal mice.	Chen CM, Yang YSH, Chou HC, Lin S.	J Biomed Sci	10.1186/s12929-023-00958-8	2023
	Cecal microbiome transplantation without antibiotic preconditioning standardizes murine microbiomes.	Howard-Stone R, Gerwin P, Capunitan D, Driscoll M, Jackson E, Tran TDB, Mandoiu I, Oziolor E.	Front Microbiol	10.3389/fmicb.2025.1632210	2025
	The Impact of Lactobacillus Probiotics on the Gut Microbiota in Children With Short Bowel Syndrome.	Piper HG, Coughlin LA, Hussain S, Nguyen V, Channabasappa N, Koh AY.	J Surg Res	10.1016/j.jss.2020.01.024	2020
	Comparing the therapeutic potentials of Lactobacillus johnsonii vs. Lactobacillus acidophilus against vulvovaginal candidiasis in female rats: an in vivo study.	ElFeky DS, Awad AR, Shamseldeen AM, Mowafy HL, Hosny SA.	Front Microbiol	10.3389/fmicb.2023.1222503	2023
	Causal Association Between the Mucosal and Luminal Microbiotas from the Gastrointestinal Tract of Weaned Piglets Using Bayesian Network.	Yoshimura S, Tsukahara T, Takahashi T, Miura H, Morishima S, Kise M, Shin J, Yahara Y, Inoue R.	Microorganisms	10.3390/microorganisms13020256	2025
	Salt-Sensitive Ileal Microbiota Plays a Role in Atrial Natriuretic Peptide Deficiency-Induced Cardiac Injury.	Li S, Chen S, Nie M, Wen L, Zou B, Zhang L, Xie J, Ser HL, Lee LH, Wang S, Lin C, Pathak JL, Zhou W, Miao J, Wang L, Zheng L.	Nutrients	10.3390/nu14153129	2022
Phylogeny	Microbial Signatures of Obesity-Aggravated Psoriasis: Insights from an Imiquimod-Based Mouse Model	Constantin C, Dobre E, Istvan P, Munteanu A, Surcel M, Isvoranu G, Neagu M.	Int J Mol Sci		2025
	Rhizoma Gastrodiae Water Extract Modulates the Gut Microbiota and Pathological Changes of P-Tau^Thr231 to Protect Against Cognitive Impairment in Mice.	Zhao W, Wang J, Latta M, Wang C, Liu Y, Ma W, Zhou Z, Hu S, Chen P, Liu Y.	Front Pharmacol	10.3389/fphar.2022.903659	2022
	Lactobacillusjohnsonii L531 Protects against Salmonella Infantis-Induced Intestinal Damage by Regulating the NOD Activation, Endoplasmic Reticulum Stress, and Autophagy.	Yang L, Wang JF, Liu N, Wang X, Wang J, Yang GH, Yang GY, Zhu YH.	Int J Mol Sci	10.3390/ijms231810395	2022
	Evaluation of skin cancer prevention properties of probiotics.	Torabi S, Nahidi Y, Ghasemi SZ, Reihani A, Samadi A, Ramezanghorbani N, Nazari E, Davoudi S.	Genes Nutr	10.1186/s12263-025-00770-z	2025
	Long-Term Breastfeeding: Protective Effects Against Triple-Negative Breast Cancer and the Role of the Breast Microbiota.	Sierra-Roca J, Climent J.	Pathogens	10.3390/pathogens14090946	2025
Genetics	Evaluation of Lactiplantibacillus plantarum CRS 33 to therapeutic effects on a murine model of Escherichia coli-induced endometritis.	Liu M, Wen X, Feng M, Sun Y, Feng X, Jin T, Liu B, Muhammad S, Liu K, Cheng J, Li J.	Front Vet Sci	10.3389/fvets.2025.1608791	2025
	Blueberries as an additive to increase the survival of Lactobacillus johnsonii N6.2 to lyophilisation.	Cai D, Harrison NA, Kling DN, Gonzalez CF, Lorca GL.	Benef Microbes	10.3920/bm2018.0144	2019
	Comprehensive multi omics explore the microbial function in metabolic pathway flow during altered diet.	Zhao Y, Yao S, Umar A, Huang J, Chen S, Yu Z.	NPJ Sci Food	10.1038/s41538-025-00575-9	2025
Cultivation	Insights into host dependency from a chemically defined medium for the human vaginal bacterium Lactobacillus crispatus.	Achterberg P, van Geenen NJK, Hertzberger RY, Molenaar D, van Loosdrecht MCM, Kort R.	Arch Microbiol	10.1007/s00203-025-04406-z	2025
Enzymology	Non-Melanoma Skin Cancer: news from microbiota research.	Squarzanti DF, Zavattaro E, Pizzimenti S, Amoruso A, Savoia P, Azzimonti B.	Crit Rev Microbiol	10.1080/1040841x.2020.1794792	2020
	The Skin Microbiome: A New Key Player in Melanoma, From Onset to Metastatic Stage.	L'Orphelin JM, Dompmartin A, Dreno B.	Pigment Cell Melanoma Res	10.1111/pcmr.13224	2025
Metabolism	Transcriptome analysis revealed ameliorative effect of probiotic Lactobacillus johnsonii BS15 against subclinical necrotic enteritis induced hepatic inflammation in broilers.	Khalique A, Zeng D, Wang H, Qing X, Zhou Y, Xin J, Zeng Y, Pan K, Shu G, Jing B, Shoaib M, Naqash, Ni X.	Microb Pathog	10.1016/j.micpath.2019.05.011	2019
	Effect of a Multi-Species Probiotic on the Colonisation of Salmonella in Broilers.	Neveling DP, van Emmenes L, Ahire JJ, Pieterse E, Smith C, Dicks LMT.	Probiotics Antimicrob Proteins	10.1007/s12602-019-09593-y	2020
	Effects of the synbiotic composed of mangiferin and Lactobacillus reuteri 1-12 on type 2 diabetes mellitus rats.	Meng F, Zhang F, Meng M, Chen Q, Yang Y, Wang W, Xie H, Li X, Gu W, Yu J.	Front Microbiol	10.3389/fmicb.2023.1158652	2023
Metabolism	Lactobacillus johnsonii L531 Ameliorates Salmonella enterica Serovar Typhimurium Diarrhea by Modulating Iron Homeostasis and Oxidative Stress via the IRP2 Pathway.	Chen K, Wang J, Guo L, Wang J, Yang L, Hu T, Zhao Y, Wang X, Zhu Y.	Nutrients	10.3390/nu15051127	2023
Pathogenicity	Bilberry anthocyanin extracts enhance anti-PD-L1 efficiency by modulating gut microbiota.	Wang L, Jiang G, Jing N, Liu X, Li Q, Liang W, Liu Z.	Food Funct	10.1039/d0fo00255k	2020
	The healthy urinary microbiome in asymptomatic participants in the MAPP Network Study: Relation to gender, age, and menopausal status.	Nickel JC, Stephens A, Ackerman AL, Anger JT, Lai HH, Ehrlich GD.	Can Urol Assoc J	10.5489/cuaj.7775	2022
Transcriptome	Changes in the Mucosa-Associated Microbiome and Transcriptome across Gut Segments Are Associated with Obesity in a Metabolic Syndrome Porcine Model.	Xu SS, Wang N, Huang L, Zhang XL, Feng ST, Liu SS, Wang Y, Liu ZG, Wang BY, Wu TW, Mu YL, Hou SH, Li K.	Microbiol Spectr	10.1128/spectrum.00717-22	2022
Pathogenicity	Synergistic effect of anti-Helicobacter pylori urease immunoglobulin Y from egg yolk of immunized hens and Lactobacillus johnsonii No.1088 to inhibit the growth of Helicobacter pylori in vitro and in vivo.	Aiba Y, Umeda K, Rahman S, Nguyen SV, Komatsu Y.	Vaccine	10.1016/j.vaccine.2019.04.045	2019
	The impact of T cells on immune-related liver diseases: an overview.	Koda Y, Kasuga R, Taniki N, Kanai T, Nakamoto N.	Inflamm Regen	10.1186/s41232-025-00387-0	2025
	Exopolysaccharides from Limosilactobacillus reuteri: their influence on in vitro activation of porcine monocyte-derived dendritic cells - brief report.	Kissova Z, Schusterova P, Mudronova D, Novotny J, Tkacikova L.	Vet Res Commun	10.1007/s11259-024-10445-6	2024
	Influence of host-specific and locally isolated multi-strain probiotics on piglet performance, mortality, inflammatory response, and gut microbiome.	Sahatsanon K, Sivapirunthep P, Sringarm K, Arjin C, Hnokaew P, Chaweewan K, Chaosap C.	Anim Biosci	10.5713/ab.24.0556	2025
	Exploring the role of gut microbiota in inflammatory bowel disease patients comorbid with non-alcoholic fatty liver disease.	Hu J, Zhou C, Zhang L, Chen Y, Li J, Li J, Duan L.	Gut Pathog	10.1186/s13099-025-00752-x	2025
Pathogenicity	Topical Probiotics as a Novel Approach in the Treatment of Chronic Dermatoses Associated with Skin Dysbiosis: A Narrative Review.	Nowicka D, Kucharczyk E, Pawluszkiewicz K, Korgiel M, Buslowicz T, Ponikowska M.	Int J Mol Sci	10.3390/ijms262010195	2025
Pathogenicity	Lacticaseibacillus paracasei JY062 Postbiotic Alleviated 3% DSS-Induced Colitis in Mice via Integrated Antioxidant, Barrier Repair, Immunomodulatory and Microbiota Modulation.	Guo J, Sun Y, Gao K, Zhao H, Su Y, Zhao Y, Zhang Y, Jiang Y.	Antioxidants (Basel)	10.3390/antiox14101256	2025
	Lactobacillus johnsonii L531 reduces pathogen load and helps maintain short-chain fatty acid levels in the intestines of pigs challenged with Salmonella enterica Infantis.	He T, Zhu YH, Yu J, Xia B, Liu X, Yang GY, Su JH, Guo L, Wang ML, Wang JF.	Vet Microbiol	10.1016/j.vetmic.2019.02.003	2019
Phylogeny	Gut microbiome signature in response to neoadjuvant chemoradiotherapy in patients with rectal cancer.	Duan T, Ren Z, Jiang H, Ding Y, Wang H, Wang F.	Front Microbiol	10.3389/fmicb.2025.1543507	2025
Enzymology	Recombinant Bile Salt Hydrolase Enhances the Inhibition Efficiency of Taurodeoxycholic Acid against Clostridium perfringens Virulence.	Alenezi T, Alrubaye B, Fu Y, Shrestha J, Algehani S, Wang H, Liyanage R, Sun X.	Pathogens	10.3390/pathogens13060464	2024
	Pneumocystis jirovecii is a potential pivotal ecological driver contributing to shifts in microbial equilibrium during the early-life lower airway microbiome assembly.	Magne F, Ruiz-Ruiz S, Perez-Brocal V, Ponce CA, Bustamante R, Martin VS, Gutierrez M, Gatti G, Vargas SL, Moya A.	Commun Biol	10.1038/s42003-025-07810-9	2025
	Bacterial Community of Breast Milk in Breastfeeding Women Using Culture-Dependent and Culture-Independent Approaches.	Lee S, Heo S, Park MK, Sung MH, Jeong DW.	J Microbiol Biotechnol	10.4014/jmb.2407.07001	2024
	The potential of Sijunzi decoction in the fight against gastrointestinal disorders: a review.	Yang L, Fang Z, Zhu J, Li X, Yang B, Liu H, Lou F.	Front Pharmacol	10.3389/fphar.2025.1464498	2025
	A multi-strain probiotic promoted recovery of puppies from gastroenteritis in a randomized, double-blind, placebo-controlled study.	Molina RA, Villar MD, Miranda MH, Maldonado NC, Vignolo GM, Nader-Macias MEF.	Can Vet J		2023
	Identification of Gut Bacteria such as Lactobacillus johnsonii that Disseminate to Systemic Tissues of Wild Type and MyD88-/- Mice.	Udayan S, Stamou P, Crispie F, Hickey A, Floyd AN, Hsieh CS, Cotter PD, O'Sullivan O, Melgar S, O'Toole PW, Newberry RD, Rossini V, Nally K.	Gut Microbes	10.1080/19490976.2021.2007743	2022
Genetics	An insight into the vaginal microbiome of infertile women in Bangladesh using metagenomic approach.	Hasan Z, Netherland M, Hasan NA, Begum N, Yasmin M, Ahmed S.	Front Cell Infect Microbiol	10.3389/fcimb.2024.1390088	2024
	Folate Production by Streptococcus thermophilus IDCC 2201 and Its Impact on Human Gut Microbiota.	Nam EH, Lee M, Kim D, Jung YH, Yang J, Shin M.	J Microbiol Biotechnol	10.4014/jmb.2502.02045	2025
	Probiotics as a complementary treatment in systemic lupus erythematosus: A systematic review.	Mirfeizi Z, Mahmoudi M, Faridzadeh A.	Health Sci Rep	10.1002/hsr2.1640	2023
	Detection and isolation of typical gut indigenous bacteria in ICR mice fed wheat bran and wheat straw fibre.	Takei N, Kuda T, Handa N, Fujita S, Takahashi H, Kimura B.	Food Chem (Oxf)	10.1016/j.fochms.2021.100071	2022
	Optimization of fermentation conditions for enhanced acetylcholine and biomass production of Lactiplantibacillus plantarum AM2 using the Taguchi approach.	Lotfy WA, Ali AM, Abdou HM, Ghanem KM.	BMC Microbiol	10.1186/s12866-025-04017-0	2025
	Region-Specific Effects of Metformin on Gut Microbiome and Metabolome in High-Fat Diet-Induced Type 2 Diabetes Mouse Model.	Cheng M, Jia X, Ren L, Chen S, Wang W, Wang J, Cong B.	Int J Mol Sci	10.3390/ijms25137250	2024
Metabolism	Exploring the role of gut microbiota modulation in the long-term therapeutic benefits of early MSC transplantation in MRL/lpr mice.	Pan Q, Guo F, Chen J, Huang H, Huang Y, Liao S, Xiao Z, Wang X, You L, Yang L, Huang X, Xiao H, Liu HF, Pan Q.	Cell Mol Biol Lett	10.1186/s11658-025-00716-8	2025
	Research Progress on the Relationship Between the Intestinal Barrier and Macrophages.	Ma S, Zhu K, Liu Y, Wang J.	Curr Issues Mol Biol	10.3390/cimb47100813	2025
	Novel silage from pea sprout roots and corn straw: a step towards agricultural waste utilization	Liu Q, Han Y, Sun Q, Gu Q, Jiang L, Su X, Zhong R.	BMC Microbiol		2025
	Gastrointestinal Digestion and Microbial Hydrolysis of Alkyl Gallates: Potential Sustained Release of Gallic Acid.	Wang X, Wang Q, Hu Y, Yin F, Liu X, Zhou D.	Foods	10.3390/foods11233936	2022
	Combined bailing capsule and conventional therapies in the treatment of chronic renal failure: a meta-analysis and economic evaluation.	He Y, Li W, Zhu H, Han S.	Front Med (Lausanne)	10.3389/fmed.2025.1609311	2025
	Coptis chinensis shows distinct effects on hyperlipidemia and gut microbiota in high-fat diet induced mice with cold or hot syndrome.	Yang Y, Zhan J, Cheng J, Cao Y, Wu C.	Chin Herb Med	10.1016/j.chmed.2025.04.009	2025
Pathogenicity	The bacterial microbiome and cancer: development, diagnosis, treatment, and future directions.	Qasem HH, El-Sayed WM.	Clin Exp Med	10.1007/s10238-024-01523-9	2024
	Aspergillus oryzae Fermentation of Lophatheri Herba Elevates SCFAs and Transforms Flavonoids to Fortify the Gut Barrier via Microbiota Remodeling in Mice.	Ma X, Chen J, Chen R, Liang W, Huang R, Tang L, Qian L.	Nutrients	10.3390/nu17182996	2025
	Knowledge graph-derived feed efficiency analysis via pig gut microbiota.	Zhang J, Jiang Q, Du Z, Geng Y, Hu Y, Tong Q, Song Y, Zhang HY, Yan X, Feng Z.	Sci Rep	10.1038/s41598-024-64835-6	2024
	Lactobacillus johnsonii YH1136 plays a protective role against endogenous pathogenic bacteria induced intestinal dysfunction by reconstructing gut microbiota in mice exposed at high altitude.	Wan Z, Zhang X, Jia X, Qin Y, Sun N, Xin J, Zeng Y, Jing B, Fang J, Pan K, Zeng D, Bai Y, Wang H, Ma H, Ni X.	Front Immunol	10.3389/fimmu.2022.1007737	2022
	Probiotic Microorganisms in Inflammatory Bowel Diseases: Live Biotherapeutics as Food.	Santos EN, Magalhaes-Guedes KT, Borges FEM, Ferreira DD, da Silva DF, Conceicao PCG, Lima AKC, Cardoso LG, Umsza-Guez MA, Ramos CL.	Foods	10.3390/foods13244097	2024
	Lactobacillus johnsonii BS15 combined with abdominal massage on intestinal permeability in rats with nonalcoholic fatty liver and cell biofilm repair.	Zhang W, Li H, Zhao N, Luo X, Liu S, Bao A, Chen Y, Wang H, Wang J, Wang J.	Bioengineered	10.1080/21655979.2021.1954134	2021
	Impact of Enterococcus faecium Kimate-X on Reducing Stress in Dogs Through Gut Microbiota Modulation.	Zhang R, Hu W, Zhong S, Chen W, Chen M, Yu Q.	Vet Sci	10.3390/vetsci12050412	2025
	Targeted modulation of intestinal barrier and mucosal immune-related microbiota attenuates IgA nephropathy progression.	Zhang R, Tang Y, Feng X, Lu X, Zhao M, Jin J, Ji X, He H, Zhao L.	Gut Microbes	10.1080/19490976.2025.2458184	2025
	Dendrobium officinale Endophytes May Colonize the Intestinal Tract and Regulate Gut Microbiota in Mice.	Chen W, Yu L, Zhu B, Qin L.	Evid Based Complement Alternat Med	10.1155/2022/2607506	2022
	Pediococcus pentosaceus MZF16 Probiotic Strain Prevents In Vitro Cytotoxic Effects of Pseudomonas aeruginosa H103 and Prolongs the Lifespan of Caenorhabditis elegans.	Boujnane M, Zommiti M, Lesouhaitier O, Ferchichi M, Tahrioui A, Boukerb AM, Connil N.	Pathogens	10.3390/pathogens14030244	2025
	Type I Diabetes Pathoetiology and Pathophysiology: Roles of the Gut Microbiome, Pancreatic Cellular Interactions, and the 'Bystander' Activation of Memory CD8⁺ T Cells.	Anderson G.	Int J Mol Sci	10.3390/ijms24043300	2023
	Weissella confusa alleviates experimental colitis in mice by regulating inflammatory pathways and gut microbiota.	Tang H, Fan Q, Lu Y, Lin X, Lan R, Hu D, Zhang S, Wang R, Zhao R, Liu L, Xu J.	Front Microbiol	10.3389/fmicb.2025.1574548	2025
	Effects of Luteolin-7-O-Glucoside on Intestinal Microbiota Dysbiosis and Drug Resistance Transmission Caused by Raoultella ornithinolytica B1645-1: Modulating the Composition of Intestinal Microbiota and Promoting the Transfer of bla_NDM-1 Gene from Genus Enterococcus to Lactobacillus in Mice.	Wu Z, Gou R, Sha L, Yu C, Meng L, Jin Z.	Microorganisms	10.3390/microorganisms11102477	2023
Proteome	Exoproteome Perspective on the Bile Stress Response of Lactobacillus johnsonii.	Bagon BB, Valeriano VDV, Oh JK, Pajarillo EAB, Lee JY, Kang DK.	Proteomes	10.3390/proteomes9010010	2021
Pathogenicity	Evidence of host specificity in Lactobacillus johnsonii genomes and its influence on probiotic potential in poultry.	Johnson A, Miller EA, Weber B, Figueroa CF, Aguayo JM, Johny AK, Noll S, Brannon J, Kozlowicz B, Johnson TJ.	Poult Sci	10.1016/j.psj.2023.102858	2023
Pathogenicity	Multi-omics analysis revealing the interplay between gut microbiome and the host following opioid use.	Kolli U, Jalodia R, Moidunny S, Singh PK, Ban Y, Tao J, Cantu GN, Valdes E, Ramakrishnan S, Roy S.	Gut Microbes	10.1080/19490976.2023.2246184	2023
	A Narrative Review of the Putative Etiologic Role and Diagnostic Utility of the Cervicovaginal Microbiome in Human Papillomavirus-Associated Cervical Carcinogenesis.	Logel M, Tope P, El-Zein M, Gonzalez E, Franco EL.	J Med Virol	10.1002/jmv.70027	2024
	Theabrownin combined with zearalenone suppresses colitis-associated colorectal cancer by inhibiting PI3K/AKT pathway and enhancing microbial propionate production.	Leung HKM, Lo EKK, Chen C, Zhang F, Felicianna, Ismaiah MJ, El-Nezami H.	Sci Rep	10.1038/s41598-025-11820-2	2025
	Investigating the eukaryotic host-like SLiMs in microbial mimitopes and their potential as novel drug targets for treating autoimmune diseases.	Garg A, Singhal N, Kumar M.	Front Microbiol	10.3389/fmicb.2022.1039188	2022
	Immune Responses in Pregnant Sows Induced by Recombinant Lactobacillus johnsonii Expressing the COE Protein of Porcine Epidemic Diarrhea Virus Provide Protection for Piglets against PEDV Infection.	Zheng D, Wang X, Ju N, Wang Z, Sui L, Wang L, Qiao X, Cui W, Jiang Y, Zhou H, Li Y, Tang L.	Viruses	10.3390/v14010007	2021
	Prospect of research hotspots in prevention and treatment of diseases based on intestinal microbiome.	Cai Y, Zhang Y, Wang W, Geng J.	Front Immunol	10.3389/fimmu.2022.971457	2022
	Synbiotic intervention reverses alcohol drinking-induced cognitive deficits in adolescent male mice by modulating the microbiota-gut-brain axis.	Barrera-Conde M, Korchevaya E, Kossatz E, Veza E, Pujadas M, Alechaga E, Nebot P, Pozo OJ, de la Torre R, Pizarro N, Robledo P.	Gut Microbes	10.1080/19490976.2025.2551104	2025
	Lacticaseibacillus rhamnosus Probio-M9 enhanced the antitumor response to anti-PD-1 therapy by modulating intestinal metabolites.	Gao G, Shen S, Zhang T, Zhang J, Huang S, Sun Z, Zhang H.	EBioMedicine	10.1016/j.ebiom.2023.104533	2023
	Effect of Cymbopogon martini (Roxb.) Will.Watson essential oil on antioxidant activity, immune and intestinal barrier-related function, and gut microbiota in pigeons infected by Candida albicans.	Huang T, Zhang ZY, Qiu ZL, Li L, Liu XX, Wang L, Wang ZY, Li ZP, Xiao GS, Wang W.	Front Pharmacol	10.3389/fphar.2024.1380277	2024
Genetics	Developing Gut-Healthy Strains for Pets: Probiotic Potential and Genomic Insights of Canine-Derived Lactobacillus acidophilus GLA09.	Zhao M, Zhang Y, Li Y, Li G.	Microorganisms	10.3390/microorganisms13020350	2025
Enzymology	Application of 16S rRNA virtual RFLP for the discrimination of some closely taxonomic-related lactobacilli species.	Laref N, Belkheir K.	J Genet Eng Biotechnol	10.1186/s43141-022-00448-8	2022
Cultivation	Practical media formulations for rapid growth of Lactobacillus iners and other vaginal bacteria.	Serrador D, Campbell JR, Getz LJ, Cheung D, Shefraw G, Kaul R, Navarre WW.	Appl Environ Microbiol	10.1128/aem.00183-25	2025
	Microbial succession at weaning is guided by microbial metabolism of host glycans.	Lubin JB, Planet PJ, Silverman MA.	Microbiome	10.1186/s40168-025-02193-9	2025
	Evaluation of the Potential Effect of Postbiotics Obtained from Honey Bees against Varroa destructor and Their Combination with Other Organic Products.	Garcia-Vicente EJ, Benito-Murcia M, Martin M, Rey-Casero I, Perez A, Gonzalez M, Alonso JM, Risco D.	Insects	10.3390/insects15010067	2024
	Gut microbial Nordihydroguaiaretic acid suppresses macrophage pyroptosis to regulate epithelial homeostasis and inflammation.	Wang J, Tan H, Ye Z, Weng S, Shi Y, Xu J, Liu H, Li J, Huang L, Zhai L, Luo H, Lin Z, Zhong C, Tang J, Wang Z, Zhang H, Zhang B, Huang C.	Gut Microbes	10.1080/19490976.2025.2518338	2025
	Prebiotic effect of galacto-N-biose on the intestinal lactic acid bacteria as enhancer of acetate production and hypothetical colonization.	Matsuzaki C, Takagi H, Saiga S, Kinoshita Y, Yamaguchi M, Higashimura Y, Yamamoto K, Yamaguchi M.	Appl Environ Microbiol	10.1128/aem.01445-23	2024
	Characterization of Lactobacillus spp. isolated from layer hens as probiotic candidates.	Zhang J, McWhorter AR, Khan S, Willson NL, Chousalkar KK.	BMC Vet Res	10.1186/s12917-025-04847-0	2025
	Purification and characterization of a novel antibacterial peptide against Clostridium perfringens.	Novodvorski A, Kong A, Yu H, Lepp D, Brott A, Carere J, Seah S, Gong J.	Microbiology (Reading)	10.1099/mic.0.001573	2025
	Unraveling the Gut Microbiota-mediated Anti-tumor Mechanisms of ShenXia KuanZhong Decoction in Gastric Cancer: a Systems Biology and Dose-weighted Network Pharmacology Approach.	Zhou Z, Fang Y, Song L, Wang Y, Fang Z.	Biol Proced Online	10.1186/s12575-025-00304-2	2025
	Exploring Eco-Friendly Microbial Strategies for Nosemosis Control in Honeybee.	Tache B, Spulber R, Dinu LD, Vamanu E.	Microorganisms	10.3390/microorganisms13102357	2025
Phenotype	Effects of Auricularia auricula Polysaccharides on Gut Microbiota and Metabolic Phenotype in Mice.	Liu Q, An X, Chen Y, Deng Y, Niu H, Ma R, Zhao H, Cao W, Wang X, Wang M.	Foods	10.3390/foods11172700	2022
Genetics	Diurnal oscillations of amino acids dynamically associate with microbiota and resistome in the colon of pigs.	Wang H, Li Y, You J, Feng N, Wang D, Su Y, Feng X.	Anim Microbiome	10.1186/s42523-025-00393-0	2025
	From pathogenic mechanisms to therapeutic perspectives: a review of gut microbiota and intestinal mucosal immunity in inflammatory bowel disease.	Han T, Zhang Y, Zheng G, Guo Y.	Front Immunol	10.3389/fimmu.2025.1704651	2025
	Extracellular vesicles derived from Lactobacillus johnsonii promote gut barrier homeostasis by enhancing M2 macrophage polarization.	Tao S, Fan J, Li J, Wu Z, Yao Y, Wang Z, Wu Y, Liu X, Xiao Y, Wei H.	J Adv Res	10.1016/j.jare.2024.03.011	2025
	Gut microbes combined with metabolomics reveal the protective effects of Qijia Rougan decoction against CCl₄-induced hepatic fibrosis.	Li X, Xu X, Tao S, Su Y, Wen L, Wang D, Liu J, Feng Q.	Front Pharmacol	10.3389/fphar.2024.1347120	2024
	The Role of miR-144/Nrf2 Pathway in Muscle Oxidative Stress Induced by Oxidized Fish Oil in Megalobrama amblycephala, with an Emphasis on Protein Oxidation.	Yang J, Zheng X, Zhou Q, Song C, Tian H, Wang A, Li X, Liu B, Sun C.	Antioxidants (Basel)	10.3390/antiox14101223	2025
	Screening of a Microbial Culture Collection: Empowering Selection of Starters for Enhanced Sensory Attributes of Pea-Protein-Based Beverages.	Spaccasassi A, Utz F, Dunkel A, Aragao Borner R, Ye L, De Franceschi F, Bogicevic B, Glabasnia A, Hofmann T, Dawid C.	J Agric Food Chem	10.1021/acs.jafc.4c02316	2024
	Hemoglobin-associated CALR in proximal tubule cells can be used as a biomarker for idiopathic membranous nephropathy.	Pang S, Tan Q, Xie B, Feng B, Zhou R, Liu Z, Wei H, Huang Y, Jili M, Xie Y, Li S, Zhao B, Li W, Yang R.	Front Med (Lausanne)	10.3389/fmed.2025.1574852	2025
Metabolism	Microencapsulated feruloyl esterase-producing lactobacilli ameliorate lipid profile and glycaemia in high fat diet-induced obese mice.	Russo M, Marquez A, Abeijon-Mukdsi MC, Santacruz A, Lopez-Malo A, Gauffin-Cano P, Medina R.	Benef Microbes	10.3920/bm2018.0025	2019
	Tumor-suppressing multi-enterobacteria and PD-1/PD-L1 immune checkpoint inhibitor combination improves the outcome of hepatocellular carcinoma therapy	Wu D, Fan Y, Zhang M, Wang X, He X, Guo X, Liu Y, Cao C, Deng Z.	Front Immunol		2025
	In Vitro Characterization of Probiotic Potential of Limosilactobacillus fermentum against Salmonella Gallinarum Causing Fowl Typhoid.	Mehmood A, Nawaz M, Rabbani M, Mushtaq MH.	Animals (Basel)	10.3390/ani13081284	2023
Phylogeny	Herbal formula BaWeiBaiDuSan alleviates polymicrobial sepsis-induced liver injury via increasing the gut microbiota Lactobacillus johnsonii and regulating macrophage anti-inflammatory activity in mice.	Fan X, Mai C, Zuo L, Huang J, Xie C, Jiang Z, Li R, Yao X, Fan X, Wu Q, Yan P, Liu L, Chen J, Xie Y, Leung EL.	Acta Pharm Sin B	10.1016/j.apsb.2022.10.016	2023
	Comparative analysis of the ileal bacterial composition of post-weaned pigs fed different high-quality protein sources.	Ortman J, Sinn SM, Gibbons WR, Brown ML, DeRouchey JM, St-Pierre B, Saqui-Salces M, Levesque CL.	Animal	10.1017/s1751731120000014	2020
	Reprogrammed fecal and mucosa-associated intestinal microbiota and weakened mucus layer in intestinal goblet cell- specific Piezo1-deficient mice.	Liu Y, Fang F, Xiong Y, Wu J, Li X, Li G, Bai T, Hou X, Song J.	Front Cell Infect Microbiol	10.3389/fcimb.2022.1035386	2022
	Black rice diet alleviates colorectal cancer development through modulating tryptophan metabolism and activating AHR pathway.	Wang L, Tu YX, Chen L, Yu KC, Wang HK, Yang SQ, Zhang Y, Zhang SJ, Song S, Xu HL, Yin ZC, Feng MQ, Yue JQ, Huang XH, Tang T, Wei SZ, Liang XJ, Chen ZX.	Imeta	10.1002/imt2.165	2024
	Isolation of Lactobacillaceae bacteria from feces of ostrich (Struthio camelus).	Onodera M, Ban-Tokuda T, Matsui H.	J Poult Sci	10.2141/jpsa.0210001	2022
	Ameliorating potential of Auricularia auricula-judae polysaccharides in mitigating hypercaloric diet-induced behavioral disorders through gut microbiota regulation.	Fei Y, Zhang J, Yuan S, Liu Y, Wang X, Wang M, Zhao H, Liu Q.	Front Nutr	10.3389/fnut.2025.1585778	2025
	Oleic Acid and Palmitic Acid from Bacteroides thetaiotaomicron and Lactobacillus johnsonii Exhibit Anti-Inflammatory and Antifungal Properties.	Charlet R, Le Danvic C, Sendid B, Nagnan-Le Meillour P, Jawhara S.	Microorganisms	10.3390/microorganisms10091803	2022
Metabolism	Effects of sulforaphane on breast cancer based on metabolome and microbiome.	Cao S, Hu S, Jiang P, Zhang Z, Li L, Wu Q.	Food Sci Nutr	10.1002/fsn3.3168	2023
Pathogenicity	Jian-Pi-Yi-Shen formula improves kidney function by regulating gut microbiome in rats with chronic kidney disease.	Wang Y, Lu J, Dai W, Yang S.	Front Cell Infect Microbiol	10.3389/fcimb.2025.1526863	2025
	Dietary Lactobacillus delbrueckii Affects Ileal Bacterial Composition and Circadian Rhythms in Pigs.	Luo W, Yin Z, Zhang M, Huang X, Yin J.	Animals (Basel)	10.3390/ani14030412	2024
	Effects of dietary Trollius chinensis Bunge residue supplementation on growth performance, antioxidant status, intestinal morphology, and cecal microbiota in weaned rabbits.	Deng L, Fang J, Yu J, Dong Y, Han K, Yang X, Fei D, Han X, Ma M, Bai J.	Front Vet Sci	10.3389/fvets.2025.1640419	2025
	TENS improves CFL injury rat and regulates the intestinal microbiota.	Miao M, Ma T, Chen R, Geng K, Shen Z, Sun Y.	PLoS One	10.1371/journal.pone.0319592	2025
	Flavonoids of Mao Jian Green Tea Ameliorate Glycemic Metabolism in Type-2-Diabetic Rats via AMPK Signaling Pathways and Gut Microbiota Regulation.	Wu L, Niu Y, Liu F, Tian J, Ma Z, Yang J, Guo X, Sun Y.	Foods	10.3390/foods14132402	2025
	Nanovesicles From Lactobacillus johnsonii N6.2 Reduce Apoptosis in Human Beta Cells by Promoting AHR Translocation and IL10 Secretion.	Teixeira LD, Harrison NA, da Silva DR, Mathews CE, Gonzalez CF, Lorca GL.	Front Immunol	10.3389/fimmu.2022.899413	2022
Enzymology	Impact of ginsenoside Rb1 on gut microbiome and associated changes in pharmacokinetics in rats.	Chen Y, Zhang KX, Liu H, Zhu Y, Bu QY, Song SX, Li YC, Zou H, You XY, Zhao GP.	Sci Rep	10.1038/s41598-024-72225-1	2024
Pathogenicity	Associations Between Uraemic Toxins and Gut Microbiota in Adults Initiating Peritoneal Dialysis.	James P, Stanford J, Dixit OVA, Nicdao MA, McWhinney B, Sud K, Ryan M, Read S, Ahlenstiel G, Lambert K, O'Brien C, Chau K.	Toxins (Basel)	10.3390/toxins17070334	2025
	Probiotic supplementation as an alternative to antibiotics in broiler chickens.	Tomczyk G, Niczyporuk JS, Kozdrun W, Sawicka-Durkalec A, Bocian L, Barabasz M, Michalski M.	J Vet Res	10.2478/jvetres-2024-0009	2024
Pathogenicity	Diarrhea accompanies intestinal inflammation and intestinal mucosal microbiota dysbiosis during fatigue combined with a high-fat diet.	Liu J, Qiao B, Cai Y, Tan Z, Deng N.	BMC Microbiol	10.1186/s12866-023-02896-9	2023
	The Role of the Intestinal Flora and Its Derivatives in Neurocognitive Disorders: A Narrative Review from Surgical Perspective.	Huang J, Qin TS, Bo Y, Li YJ, Liu RS, Yu Y, Li XD, He JC, Ma AX, Tao DP, Ren WJ, Peng J.	Mol Neurobiol	10.1007/s12035-024-04322-1	2025
Metabolism	Diarrhea with deficiency kidney-yang syndrome caused by adenine combined with Folium senna was associated with gut mucosal microbiota.	Zhu J, Li X, Deng N, Peng X, Tan Z.	Front Microbiol	10.3389/fmicb.2022.1007609	2022
	Prebiotic Effect of Oxidized Hydroxypropyl Starch via In Vitro and In Vivo.	Zheng H, Xu Z, Fan Y, Han J, Zhou L, Li H, Pan X, Ma R, Liu C, Tian Y.	Foods	10.3390/foods14132217	2025
	An optimized peritonitis-induced ACLF model that reproduces the full spectrum of extrahepatic organ failures in mice.	Flores-Costa R, Duran-Guell M, Romero-Grimaldo B, Contreras BJ, Salvatella A, Sanchez-Rodriguez MB, Uschner F, Klein S, Diaz A, Huergo E, Gomez-Cabrero D, Bosch J, Rautou PE, Trebicka J, Lopez-Vicario C, Claria J.	Hepatol Commun	10.1097/hc9.0000000000000744	2025
	Genomic characterization of antimicrobial resistance and mobile genetic elements in swine gut bacteria isolated from a Canadian research farm.	Rahman N, McCullough T, Orozco DF, Walkowiak S, Farzan A, Shekarriz S, Surette MG, Cicek N, Derakhshani H.	Anim Microbiome	10.1186/s42523-025-00432-w	2025
	The Gut Microbiota of Broilers Reared with and without Antibiotic Treatment.	Greene G, Koolman L, Whyte P, Burgess C, Bolton D.	Microorganisms	10.3390/microorganisms11040876	2023
Metabolism	In-depth multiomic characterization of the effects of obesity in high-fat diet-fed mice.	Li B, Chen J, Ou X, Liu X, Xu Z, Xiang X, Yang Y, Wang Q.	FEBS Open Bio	10.1002/2211-5463.13788	2024
	Gut-Joint Axis: Impact of Bifidobacterial Cell Wall Lipoproteins on Arthritis Development.	Piva F, Gervois P, Karrout Y, Sane F, Romond MB.	Nutrients	10.3390/nu15234861	2023
Phylogeny	Is Intestinal Microbiota Fully Restored After Chickens Have Recovered from Coccidiosis?	Guo J, Zhao Z, Broadwater C, Tobin I, Liu J, Whitmore M, Zhang G.	Pathogens	10.3390/pathogens14010081	2025
Transcriptome	Lactiplantibacillus plantarum Attenuates Diet-Induced Obesity and Insulin Resistance Through Gut Microbiota-Driven PPAR/PI3K-Axis Modulation.	Gao Y, Zhu A, Li J, Liu H, Li X, Zhang H.	Microb Biotechnol	10.1111/1751-7915.70227	2025
Pathogenicity	The gut microbiota modulates airway inflammation in allergic asthma through the gut-lung axis related immune modulation: A review.	Zhang M, Qin Z, Huang C, Liang B, Zhang X, Sun W.	Biomol Biomed	10.17305/bb.2024.11280	2025
	Lactobacillus delbrueckii subsp. allosunkii and lactis as emerging human uropathogens in elderly patients.	Guerin F, Sassi M, Gravey F, Zouari A, Quenet B, Lecourt M, Ract P, Michaux C, Auzou M, Isnard C, Cattoir V.	J Clin Microbiol	10.1128/jcm.02072-24	2025
	Effects of Red Clover Isoflavones on Growth Performance, Immune Function, and Cecal Microflora of Mice.	Guo R, Song X, Li X, Zeng C, Chen Y, Li C, Yang J, Ou D.	Animals (Basel)	10.3390/ani15020150	2025
	Fecal Microbiota Transfer from Young Mice Reverts Vascular Aging Hallmarks and Metabolic Impairments in Aged Mice.	Cheng CK, Gao J, Kang L, Huang Y.	Aging Dis	10.14336/ad.2024.0384	2024
	The prognostic nutritional index as a predictor of cardiovascular and all-cause mortality in chronic kidney disease: a population-based analysis of NHANES data (1999-2018).	Li W, Chen L, Jiang L, Zhang Z, Song K.	Front Med (Lausanne)	10.3389/fmed.2025.1589173	2025
	Blocked conversion of Lactobacillus johnsonii derived acetate to butyrate mediates copper-induced epithelial barrier damage in a pig model.	Wen Y, Yang L, Wang Z, Liu X, Gao M, Zhang Y, Wang J, He P.	Microbiome	10.1186/s40168-023-01655-2	2023
	Lactococcus lactis HkyuLL 10 suppresses colorectal tumourigenesis and restores gut microbiota through its generated alpha-mannosidase.	Su ACY, Ding X, Lau HCH, Kang X, Li Q, Wang X, Liu Y, Jiang L, Lu Y, Liu W, Ding Y, Cheung AH, To KF, Yu J.	Gut	10.1136/gutjnl-2023-330835	2024
	Anti-Helicobacter pylori activity of non-living, heat-killed form of lactobacilli including Lactobacillus johnsonii No.1088.	Aiba Y, Ishikawa H, Tokunaga M, Komatsu Y.	FEMS Microbiol Lett	10.1093/femsle/fnx102	2017
	Dietary inclusion of high-amylose cornstarch increased Lactobacillus and Terrisporobacter and decreased Streptococcus in the cecal digesta of weanling pigs.	Wellington MO, Adams S, Lee JW, Agyekum AK, Woyengo TA.	J Anim Sci	10.1093/jas/skaf008	2025
Pathogenicity	Metagenomic analysis revealed beneficial effects of probiotics in improving the composition and function of the gut microbiota in dogs with diarrhoea.	Xu H, Zhao F, Hou Q, Huang W, Liu Y, Zhang H, Sun Z.	Food Funct	10.1039/c9fo00087a	2019
	Characterization of the microbiome and volatile compounds in anal gland secretions from domestic cats (Felis catus) using metagenomics and metabolomics.	Rojas CA, Marks SL, Borras E, Lesea H, McCartney MM, Coil DA, Davis CE, Eisen JA.	Sci Rep	10.1038/s41598-023-45997-1	2023
Phylogeny	Isolation of Lactic Acid Bacteria from Naturally Ensiled Rosa roxburghii Tratt Pomace and Evaluation of Their Ensiling Potential and Antioxidant Properties.	Pan X, Zhang Y, Yue N, Yu K, Zhou L, Ge L, Chen F, Yang J, Li Q, Deng T, Yang X.	Foods	10.3390/foods14081329	2025
	Antibiotic Treatment during Pregnancy Alters Offspring Gut Microbiota in a Sex-Dependent Manner.	Madany AM, Hughes HK, Ashwood P.	Biomedicines	10.3390/biomedicines10051042	2022
	Efficacy of Bifidobacterium longum and Lactobacillus plantarum (NVP-1703) in Children With Allergic Rhinitis: A Randomized Controlled Trial.	Jeong K, Jang SW, Jeon SA, Seo HJ, Kang SH, Han SW, Suh DI, Lee S.	J Korean Med Sci	10.3346/jkms.2024.39.e266	2024
	Preventive effects of a nutraceutical mixture of berberine, citrus and apple extracts on metabolic disturbances in Zucker fatty rats.	Siliman Misha M, Destrumelle S, Le Jan D, Mansour NM, Fizanne L, Ouguerram K, Desfontis JC, Mallem MY.	PLoS One	10.1371/journal.pone.0306783	2024
Enzymology	Probiotic characterization of Lactobacillus isolates from canine faeces.	Coman MM, Verdenelli MC, Cecchini C, Bela B, Gramenzi A, Orpianesi C, Cresci A, Silvi S.	J Appl Microbiol	10.1111/jam.14197	2019
	Cordyceps guangdongensis lipid-lowering formula alleviates fat and lipid accumulation by modulating gut microbiota and short-chain fatty acids in high-fat diet mice.	Wang G, Sun C, Xie B, Wang T, Liu H, Chen X, Huang Q, Zhang C, Li T, Deng W.	Front Nutr	10.3389/fnut.2022.1038740	2022
Metabolism	Inosine: biofunctions and the roles in human diseases.	Li F, Zhang J, Kang J, Tong X, Zhang P, Zhu Y.	Front Endocrinol (Lausanne)	10.3389/fendo.2025.1634814	2025
	Odoribacter splanchnicus-derived extracellular vesicles alleviate inflammatory bowel disease by modulating gastrointestinal inflammation and intestinal barrier function via the NLRP3 inflammasome suppression.	Zhuang J, Zhuang Z, Chen B, Yang Y, Chen H, Guan G.	Mol Med	10.1186/s10020-025-01063-2	2025
Phylogeny	A taxonomic note on the genus Lactobacillus: Description of 23 novel genera, emended description of the genus Lactobacillus Beijerinck 1901, and union of Lactobacillaceae and Leuconostocaceae.	Zheng J, Wittouck S, Salvetti E, Franz CMAP, Harris HMB, Mattarelli P, O'Toole PW, Pot B, Vandamme P, Walter J, Watanabe K, Wuyts S, Felis GE, Ganzle MG, Lebeer S.	Int J Syst Evol Microbiol	10.1099/ijsem.0.004107	2020
	Protective effect of gut microbiota restored by fecal microbiota transplantation in a sepsis model in juvenile mice.	Han YJ, Kim S, Shin H, Kim HW, Park JD.	Front Immunol	10.3389/fimmu.2024.1451356	2024
	Free lipoproteins from Bifidobacterium longum alleviate osteoarthritis through modulation of the gut microbiome.	Sane F, Piva F, Romond MB.	Microbiome Res Rep	10.20517/mrr.2023.12	2023
	Enterotype-stratified gut microbial signatures in MASLD and cirrhosis based on integrated microbiome data.	Yuan H, Zhou J, Wu X, Wang S, Park S.	Front Microbiol	10.3389/fmicb.2025.1568672	2025
	A primary insight into gut microbiome, MicroRNA and stemness, in a PCOS rat model.	Esfandiarinezhad F, Zhan X, Tan SL, Li J, Tsang BK.	J Ovarian Res	10.1186/s13048-025-01648-9	2025
Genetics	Deep culturing the fecal microbiota of healthy laying hens.	Feng Z, Lorenc N, O'Brien B, Sun G, Li Z, Jung D, Ronholm J.	Anim Microbiome	10.1186/s42523-025-00395-y	2025
	Alleviating Clostridium perfringens-Induced Intestinal Lesions in Chickens Using the Xylanase CbXyn10C and Its Binary Cocktail with a Protease.	Zhang W, Hao Z, Yang D, Ji W, Guo K, Sun X, Wang S, Yang S, Ma J, Wang T, Luo H, Yao B, Zhang M, Wang Y, Huang H, Su X.	Animals (Basel)	10.3390/ani15020123	2025
	Poria cocos polysaccharides exert prebiotic function to attenuate the adverse effects and improve the therapeutic outcome of 5-FU in Apc^Min/+ mice.	Yin L, Huang G, Khan I, Su L, Xia W, Law BYK, Wong VKW, Wu Q, Wang J, Leong WK, Hsiao WLW.	Chin Med	10.1186/s13020-022-00667-8	2022
	Blood Microbiome Reveals the Impact of Lactobacillus on the Efficacy of Immunotherapy in Gastrointestinal Cancer	Zheng Y, Lin W, Chen J, Wei X, Huang J, Xu Y, Yang M, Zhang Q, Zuo Z, Yang Z, Zhang P, HONG N, Liu L, Zeng Z, Xu R, Luo H.	MedComm (2020)		2025
	L. pseudomesenteroides and L. johnsonii isolated from yaks in Tibet modulate gut microbiota in mice to ameliorate enteroinvasive Escherichia coli-induced diarrhea.	Wang Y, Li A, Liu J, Mehmood K, Wangdui B, Shi H, Luo X, Zhang H, Li J.	Microb Pathog	10.1016/j.micpath.2019.04.020	2019
	Lactobacillus johnsonii N6.2 and Blueberry Phytophenols Affect Lipidome and Gut Microbiota Composition of Rats Under High-Fat Diet.	Teixeira LD, Torrez Lamberti MF, DeBose-Scarlett E, Bahadiroglu E, Garrett TJ, Gardner CL, Meyer JL, Lorca GL, Gonzalez CF.	Front Nutr	10.3389/fnut.2021.757256	2021
Metabolism	Effects of Lactobacillus plantarum Uruma-SU4 fermented green loofah on plasma lipid levels and gut microbiome of high-fat diet fed mice.	Shikano A, Kuda T, Shibayama J, Toyama A, Ishida Y, Takahashi H, Kimura B.	Food Res Int	10.1016/j.foodres.2018.12.065	2019
Phylogeny	Vaginal microbiome in early pregnancy and subsequent risk of spontaneous preterm birth: a case-control study.	Tabatabaei N, Eren AM, Barreiro LB, Yotova V, Dumaine A, Allard C, Fraser WD.	BJOG	10.1111/1471-0528.15299	2019
	Pseudomonas aeruginosa enhances anti-PD-1 efficacy in colorectal cancer by activating cytotoxic CD8⁺ T cells.	Chen L, Ruan G, Zhao X, Yi A, Xiao Z, Tian Y, Cheng Y, Chen D, Wei Y.	Front Immunol	10.3389/fimmu.2025.1553757	2025
	Flavonoids, Isoquinoline Alkaloids, and Their Combinations Affect Growth Performance, Inflammatory Status, and Gut Microbiome of Broilers Under High Stocking Density and Heat Stress.	Insawake K, Songserm T, Songserm O, Theapparat Y, Adeyemi KD, Rassmidatta K, Ruangpanit Y.	Animals (Basel)	10.3390/ani15010071	2024
	beta-glucan protects against necrotizing enterocolitis in mice by inhibiting intestinal inflammation, improving the gut barrier, and modulating gut microbiota.	Zhang X, Zhang Y, He Y, Zhu X, Ai Q, Shi Y.	J Transl Med	10.1186/s12967-022-03866-x	2023
	Peanut Shell Extract Improves Markers of Glucose Homeostasis in Diabetic Mice by Modulating Gut Dysbiosis and Suppressing Inflammatory Immune Response.	Bender M, Santos JM, Dufour JM, Deshmukh H, Trasti S, Elmassry MM, Shen CL.	Nutrients	10.3390/nu16234158	2024
	Intestinal-Failure-Associated Liver Disease: Beyond Parenteral Nutrition.	Mignini I, Piccirilli G, Di Vincenzo F, Covello C, Pizzoferrato M, Esposto G, Galasso L, Borriello R, Gabrielli M, Ainora ME, Gasbarrini A, Zocco MA.	Biomolecules	10.3390/biom15030388	2025
	Dietary supplementation with blended essential oils improves meat quality of broilers through SCFA-mediated gut-muscle axis.	Malhi KK, Chen J, Wang TH, Huang MY, Xing KP, Xing HB, Song M, Kumar C, Zou XH, Li JL.	Poult Sci	10.1016/j.psj.2025.105911	2025
	The influence of curcumin additives on the viability of probiotic bacteria, antibacterial activity against pathogenic microorganisms, and quality indicators of low-fat yogurt.	Buniowska-Olejnik M, Urbanski J, Mykhalevych A, Bieganowski P, Znamirowska-Piotrowska A, Kacaniova M, Banach M.	Front Nutr	10.3389/fnut.2023.1118752	2023
	Metabolites and metabolic pathway reactions links to sensitization of immunotherapy in pan-cancer.	Yu S, Gao Y, Zhao F, Zhou J, Zhang J.	Mol Ther Oncol	10.1016/j.omton.2025.200933	2025
	Improving the thermostability and modulating the inulin profile of inulosucrase through rational glycine-to-proline substitution.	Charoenwongpaiboon T, Sommanat N, Wangpaiboon K, Puangpathanachai M, Pongsawasdi P, Pichyangkura R.	RSC Adv	10.1039/d3ra06896j	2024
Metabolism	Lactobacillus plantarum Zhang-LL Inhibits Colitis-Related Tumorigenesis by Regulating Arachidonic Acid Metabolism and CD22-Mediated B-Cell Receptor Regulation.	Zhu J, Liu W, Bian Z, Ma Y, Kang Z, Jin J, Li X, Ge S, Hao Y, Zhang H, Xie Y.	Nutrients	10.3390/nu15214512	2023
	Draft Genome Sequences of Lactobacillus salivarius A3iob and Lactobacillus johnsonii CRL1647, Novel Potential Probiotic Strains for Honeybees (Apis mellifera L.).	Audisio MC, Albarracin L, Torres MJ, Saavedra L, Hebert EM, Villena J.	Microbiol Resour Announc	10.1128/mra.00975-18	2018
	Colloidal aggregation induced by the reduction in pH and the synthesis of new molecular structures during the milk fermentation process	Vargas S, Rodriguez R, Quintanilla F, Gonzalez-Torres M.	International journal of dairy technology.	10.1111/1471-0307.12417	2018
Genetics	Genome-scale metabolic modeling reveals specific vaginal Lactobacillus strains and their metabolites as key inhibitors of Candida albicans.	Hu T, Meng Y, Zhao C, Sheng D, Yang S, Dai J, Wei T, Zhang Y, Zhao G, Liu Y, Wang Q, Zhang L.	Microbiol Spectr	10.1128/spectrum.02984-24	2025
	Probiotics mitigating subclinical necrotic enteritis (SNE) as potential alternatives to antibiotics in poultry.	Khalique A, Zeng D, Shoaib M, Wang H, Qing X, Rajput DS, Pan K, Ni X.	AMB Express	10.1186/s13568-020-00989-6	2020
Pathogenicity	Fecal Calprotectin as a Prognostic Biomarker for Mortality and Renal Outcomes in Chronic Kidney Disease.	Lee SY, Han K, Kwon HS, Koh ES, Chung S.	Biomolecules	10.3390/biom15040557	2025
	Diabetes progression and alterations in gut bacterial translocation: prevention by diet supplementation with human milk in NOD mice.	Sane F, Scuotto A, Pierrat V, Kacet N, Hober D, Romond MB.	J Nutr Biochem	10.1016/j.jnutbio.2018.08.017	2018
	Validity and safety of ID-JPL934 in lower gastrointestinal symptom improvement.	Shin CM, Choi YJ, Lee DH, Moon JS, Kim TY, Kim YK, Lee WH, Yoon H, Park YS, Kim N.	Sci Rep	10.1038/s41598-021-92007-3	2021
	Intestinal Microbes and Hematological Malignancies.	Zhu Y, Yang Q, Yang Q, He Y, Zhou W.	Cancers (Basel)	10.3390/cancers15082284	2023
Pathogenicity	MIIST305 mitigates gastrointestinal acute radiation syndrome injury and ameliorates radiation-induced gut microbiome dysbiosis.	Mitra D, Armijo GK, Ober EH, Baker SM, Turner HC, Broustas CG.	Gut Microbes	10.1080/19490976.2025.2458189	2025
	Gut microbiota suppress feeding induced by palatable foods.	Ousey J, Boktor JC, Mazmanian SK.	Curr Biol	10.1016/j.cub.2022.10.066	2023
	Lactobacillus plantarum Alters Gut Microbiota and Metabolites Composition to Improve High Starch Metabolism in Megalobrama amblycephala.	Qian L, Lu S, Jiang W, Mu Q, Lin Y, Gu Z, Wu Y, Ge X, Miao L.	Animals (Basel)	10.3390/ani15040583	2025
	Nanopore versus Illumina to study the gut bacterial diversity of sows and piglets between farms with high and low health status.	Tort-Miro C, Lorenzo-Rebenaque L, Montoro-Dasi L, Vega S, Rodriguez JC, Ventero MP, Perez-Gracia MT, Guitart-Matas J, Giler-Baquerizo N, Marco-Fuertes A, D'Auria G, Marin C, Migura-Garcia L.	BMC Vet Res	10.1186/s12917-025-04693-0	2025
	Nobiletin Enhances Skeletal Muscle Mass and Modulates Bile Acid Composition in Diet-Induced Obese Mice.	Koh YC, Liu CP, Leung SY, Lin WS, Ho PY, Ho CT, Pan MH.	J Agric Food Chem	10.1021/acs.jafc.5c00255	2025
	An animal derivative-free medium enhances Lactobacillus johnsonii LJO02 supernatant selective efficacy against the methicillin (oxacillin)-resistant Staphylococcus aureus virulence through key-metabolites.	Squarzanti DF, Zanetta P, Ormelli M, Manfredi M, Barberis E, Vanella VV, Amoruso A, Pane M, Azzimonti B.	Sci Rep	10.1038/s41598-022-12718-z	2022
	Gut microbiota depletion accelerates hematoma resolution and neurological recovery after intracerebral hemorrhage via p-coumaric acid-promoted Treg differentiation.	Zheng Y, Li Y, He X, Zhu Y, Xu S, Feng Y, Kuang Y, Chen H, Fan L, Huang H, Hu L, Yu X, Wu J, Jin L, Hu J, Fu X, Zeng H, Cao S, Wang L.	Theranostics	10.7150/thno.113764	2025
	Probiotic, antimicrobial and anticancer properties of Lysinibacillus macroides, Kurthia huakuii, and Enterococcus faecium isolated from freshwater snail gut microbiota.	Shaker RAE, Hashem RA, Hassan M, Ibrahim AM, Ragab YM, Khattab RA.	BMC Biotechnol	10.1186/s12896-025-01038-5	2025
	Metagenomic sequencing of human cardiac tissue reveals Microbial RNA which correlates with Toll-like receptor-associated inflammation in patients with heart disease.	Sandstedt J, Vukusic K, Dellgren G, Jeppsson A, Mattsson Hulten L, Rotter Sopasakis V.	Sci Rep	10.1038/s41598-023-35157-w	2023
	Individual and combined effects of butyric acid glycerides and a multicomponent phytogenic supplement on growth performance, intestinal mucosal health, and immune response of broiler chickens under coccidiosis challenge.	Ghasemi HA, Nahandast H, Hajkhodadadi I, Nari N, Taherpour K.	Poult Sci	10.1016/j.psj.2025.106046	2025
	Gut microbiota as a novel target for treating anxiety and depression: from mechanisms to multimodal interventions.	Ruohan Z, Ruting W, Hongxi W, Zhenjin H, Jiale L, Rongxin Z, Feng J, Yuanbo S.	Front Microbiol	10.3389/fmicb.2025.1664800	2025
	Bacteriocin-mediated inhibition of some common pathogens by wild and mutant Lactobacillus species and in vitro amplification of bacteriocin encoding genes.	Ahsan A, Mazhar B, Khan MK, Mustafa M, Hammad M, Ali NM.	ADMET DMPK	10.5599/admet.1053	2022
	Potential of natural products and gut microbiome in tumor immunotherapy.	Cao L, Wang X, Ma X, Xu M, Li J.	Chin Med	10.1186/s13020-024-01032-7	2024
	Evaluation of the Impact of BaP Exposure on the Gut Microbiota and Allergic Responses in an OVA-Sensitized Mouse Model.	Du B, Xiao X, Wang H, Li W, Xia Z, Yang P, Huang SK, Yuan R, Liu J, Han M, Zou Y, Zhu J, He D, Lyu J, Jin X, Xu X, Wang J, Yang H, Xiao L, Liu X, Kristiansen K.	Environ Health Perspect	10.1289/ehp11874	2023
	Impacts of non-starch polysaccharide sources with enzymes influencing intestinal mucosa-associated microbiota and mucosal immunity of nursery pigs on growth and carcass traits at market weight.	Baker JT, Deng Z, Gormley AR, Kim SW.	J Anim Sci Biotechnol	10.1186/s40104-025-01170-4	2025
	Anti-obesity effects of potential probiotic Lactobacillus strains isolated from Mongolian fermented dairy products in high-fat diet-induced obese rodent model.	Galindev U, Erdenebold U, Batnasan G, Ganzorig O, Batdorj B.	Braz J Microbiol	10.1007/s42770-024-01372-4	2024
	Nomograms predicting benefit after immunotherapy in oral bifidobacteria supplementation ICC patients: a retrospective study.	Zhu S, Jin Y, Zhang J, Zhou M, Liu B, Liu X, Shen J, Chen C.	BMC Cancer	10.1186/s12885-024-12982-4	2024
	Oral supplementation with lactic acid bacteria improve the intestinal epithelial barrier and gut microbiota of broiler chicks to alleviate Salmonella Enteritidis infection.	Yang Y, Hong J, Zhang Z, Zheng M, Zhao J, Fang X, Liang X, Liu J, Yang Y, Tian G, Fang C.	Poult Sci	10.1016/j.psj.2024.104385	2024
	Lactiplantibacillus (Lactobacillus) plantarum as a Complementary Treatment to Improve Symptomatology in Neurodegenerative Disease: A Systematic Review of Open Access Literature.	Beltran-Velasco AI, Reiriz M, Uceda S, Echeverry-Alzate V.	Int J Mol Sci	10.3390/ijms25053010	2024
	Assessing the impact of probiotics on immunotherapy effectiveness and antibiotic-mediated resistance in cancer: a systematic review and meta-analysis.	Zhao S, Lu Z, Zhao F, Tang S, Zhang L, Feng C.	Front Immunol	10.3389/fimmu.2025.1538969	2025
Pathogenicity	The Protective Effect of Sulforaphane on Dextran Sulfate Sodium-Induced Colitis Depends on Gut Microbial and Nrf2-Related Mechanism.	He C, Gao M, Zhang X, Lei P, Yang H, Qing Y, Zhang L.	Front Nutr	10.3389/fnut.2022.893344	2022
Genetics	Dual-omics strategy for selecting optimal fermentation strains in traditional koumiss production.	Wang X, Zhao Z, Zhao F, Li Y, Liang Y, Zhou R, Shen S, Yu J, Liu W, Menghe B.	Food Chem X	10.1016/j.fochx.2025.102407	2025
Genetics	Alterations in Gut Microbiota Correlate With Hematological Injuries Induced by Radiation in Beagles.	Huang Z, Wang L, Tong J, Zhao Y, Ling H, Zhou Y, Tan Y, Xiong X, Qiu Y, Bi Y, Pan Z, Yang R.	Int J Microbiol	10.1155/ijm/3096783	2024
	Isolation and Proteomic Analysis of Extracellular Vesicles from Lactobacillus salivarius SNK-6.	Huang J, Zhao A, He D, Wu X, Yan H, Zhu L.	J Microbiol Biotechnol	10.4014/jmb.2308.08017	2024
	Evaluation of the therapeutic effect of pomegranate peel ginger ultrafine powder on chronic enteritis in mice by regulating intestinal microbiota.	Guo Z, Wang X, Li Y, Zhang Y, Guo P, Zhang J, Zhang Z, Ma X.	Front Immunol	10.3389/fimmu.2025.1563225	2025
	A novel, non-GMO surface display in Limosilactobacillus fermentum mediated by cell surface hydrolase without anchor motif.	Vasquez R, Bagon BB, Song JH, Han NS, Kang DK.	BMC Microbiol	10.1186/s12866-022-02608-9	2022
	Gastrointestinal inflammation by gut microbiota disturbance induces memory impairment in mice.	Jang SE, Lim SM, Jeong JJ, Jang HM, Lee HJ, Han MJ, Kim DH.	Mucosal Immunol	10.1038/mi.2017.49	2018
	Detection of H1N1 Influenza Virus in the Bile of a Severe Influenza Mouse Model.	Liu Y, Xu J, Wei C, Xu Y, Lyu C, Sun M, Zheng Y, Cao B.	Influenza Other Respir Viruses	10.1111/irv.70012	2024
Pathogenicity	Unveiling the microbial influence: bacteria's dual role in tumor metastasis.	Lin L, Zhang D.	Front Oncol	10.3389/fonc.2025.1524887	2025
	Multifactorial inhibition of Candida albicans by combinations of lactobacilli and probiotic Saccharomyces cerevisiae CNCM I-3856.	Spacova I, Allonsius CN, De Boeck I, Oerlemans E, Tuyaerts I, Van de Vliet N, van den Broek MFL, Jimenez L, Boyer M, Rodriguez B, Ballet N, Lebeer S.	Sci Rep	10.1038/s41598-024-59869-9	2024
	Exercise Affects Mucosa-Associated Microbiota and Colonic Tumor Formation Induced by Azoxymethane in High-Fat-Diet-Induced Obese Mice.	Yo S, Matsumoto H, Gu T, Sasahira M, Oosawa M, Handa O, Umegaki E, Shiotani A.	Microorganisms	10.3390/microorganisms12050957	2024
	Influence of the gut microbiome on lymphoma treatment: current evidence and future therapeutic directions.	Tu J, Yu L, Zou R, He J, Qu C.	Ther Adv Med Oncol	10.1177/17588359251363207	2025
Metabolism	Addition of Prebiotics to the Ketogenic Diet Improves Metabolic Profile but Does Not Affect Seizures in a Rodent Model of Infantile Spasms Syndrome.	Mu C, Pochakom A, Reimer RA, Choudhary A, Wang M, Rho JM, Scantlebury MH, Shearer J.	Nutrients	10.3390/nu14112210	2022
	Psychoactive Effects of Lactobacillus johnsonii BS15 on Preventing Memory Dysfunction Induced by Acute Ethanol Exposure Through Modulating Intestinal Microenvironment and Improving Alcohol Metabolic Level.	Sun N, Zhu B, Xin J, Li L, Gan B, Cao X, Fang J, Pan K, Jing B, Zeng Y, Lv C, Zhao L, Zeng D, Xu P, Wang H, Ni X.	Front Microbiol	10.3389/fmicb.2022.847468	2022
	Effect of linex treatment on IFN-gamma and IL-4 in mice infected with Trichinella.	Atta SA, Fahmy ZH, Selim EAH, Aboushousha T, Mostafa RR.	BMC Infect Dis	10.1186/s12879-024-10202-9	2024
	Cordyceps militaris extract and cordycepin ameliorate LPS-challenged colonic damage in piglets by modulating the microbiota and metabolite profiles.	Xiong S, Wan F, Jiang J, Liu Y, Hang Y, Xue H, Lu Y, Su Y.	Front Immunol	10.3389/fimmu.2025.1530098	2025
Pathogenicity	The Probiotic, ID-JPL934, Attenuates Dextran Sulfate Sodium-Induced Colitis in Mice Through Inhibition of Proinflammatory Cytokines Expression.	Je IG, Lee DG, Jeong DG, Hong D, Yoon JM, Moon JS, Park S.	J Med Food	10.1089/jmf.2017.4152	2018
	Potentially probiotic NPL 1334 strain of Enterococcus durans benefits rats with diet-induced hypercholesterolemia.	Rashid H, Anwar H, Baig FM, Mukhtar I, Muhammad T, Zaidi A.	BMC Biotechnol	10.1186/s12896-024-00943-5	2025
	Genome Analysis of 6222 Bacterial Isolates from Livestock and Food Environments in Spain to Decipher the Antibiotic Resistome.	Hernandez M, Falco-Prieto A, Ugarte-Ruiz M, Miguela-Villoldo P, Ocampo-Sosa A, Abad D, Perez-Sancho M, Alvarez J, Cadamuro RD, Elois MA, Fongaro G, Quesada A, Gonzalez-Zorn B, Dominguez L, Eiros JM, Rodriguez-Lazaro D.	Antibiotics (Basel)	10.3390/antibiotics14030281	2025
	Synergistic treatment of sodium propionate and Sishen Pill for diarrhea mice with kidney-yang deficiency syndrome.	Guo M, Di J, Lei Z.	Front Cell Infect Microbiol	10.3389/fcimb.2025.1608271	2025
	Non-Viable Lactobacillus johnsonii JNU3402 Protects against Diet-Induced Obesity.	Yang G, Hong E, Oh S, Kim E.	Foods	10.3390/foods9101494	2020
	One mechanism of Sishen Pill on diarrhea with kidney Yang deficiency syndrome: influencing metabolic function by intestinal microorganisms and enzyme activity mediates the gut-kidney axis.	Zhou M, Li X, Xiao N, Tan Z.	Front Cell Infect Microbiol	10.3389/fcimb.2025.1620789	2025
Enzymology	Selection of Potential Probiotic Lactobacillus with Inhibitory Activity Against Salmonella and Fecal Coliform Bacteria.	Abhisingha M, Dumnil J, Pitaksutheepong C.	Probiotics Antimicrob Proteins	10.1007/s12602-017-9304-8	2018
	Oral Combined Probiotics Clostridium butyricum and Akkermansia muciniphila Inhibits the Progression of 4T1 Breast Cancer by Activating Bcl-2/Bax Pathway.	Li X, Hua D, Wu D, Hong W, Kang Y, Tang L, Yang Q, Wang X, Li B, Li R, Chen Z, Cui G.	Cancer Med	10.1002/cam4.70987	2025
	Occurrence and diversity pattern of CRISPR-Cas systems in Acetobacter genus provides insights on adaptive defense mechanisms against to invasive DNAs.	Ghaffarian S, Panahi B.	Front Microbiol	10.3389/fmicb.2024.1357156	2024
	A Comparative Analysis of the Stomach, Gut, and Lung Microbiomes in Rattus norvegicus.	Shah T, Wang Y, Wang Y, Li Q, Zhou J, Hou Y, Wang B, Xia X.	Microorganisms	10.3390/microorganisms11092359	2023
	Comprehensive analysis of antimicrobial resistance dynamics among broiler and duck intensive production systems.	Szoke Z, Fauszt P, Mikolas M, David P, Szilagyi-Tolnai E, Pesti-Asboth G, Homoki JR, Kovacs-Forgacs I, Gal F, Stundl L, Czegledi L, Stagel A, Biro S, Remenyik J, Paholcsek M.	Sci Rep	10.1038/s41598-025-89432-z	2025
	Anti-Obesity Effect of Kimchi with Starter Cultures in 3T3-L1 Cells.	Hyun IK, Hong SW, Ma MJ, Chang JY, Lee S, Yun YR.	J Microbiol Biotechnol	10.4014/jmb.2307.07005	2024
	A New 4-Thiazolidinone Derivative (Les-6490) as a Gut Microbiota Modulator: Antimicrobial and Prebiotic Perspectives.	Konechnyi Y, Rumynska T, Yushyn I, Holota S, Turkina V, Ryviuk Rydel M, Sekowska A, Salyha Y, Korniychuk O, Lesyk R.	Antibiotics (Basel)	10.3390/antibiotics13040291	2024
Pathogenicity	Probiotic-derived extracellular vesicles: the next breakthrough in postbiotics for rheumatoid arthritis.	Dell'Atti F, Abreu H, Malfa P, Raineri D, Cappellano G, Chiocchetti A.	Front Immunol	10.3389/fimmu.2025.1620185	2025
Enzymology	Probiotic Potential of a Lactobacillus Bacterium of Canine Faecal-Origin and Its Impact on Select Gut Health Indices and Immune Response of Dogs.	Kumar S, Pattanaik AK, Sharma S, Jadhav SE, Dutta N, Kumar A.	Probiotics Antimicrob Proteins	10.1007/s12602-017-9256-z	2017
	Zearalenone-14-glucoside specifically promotes dysplasia of Gut-Associated Lymphoid Tissue: A natural product for constructing intestinal nodular lymphatic hyperplasia model.	Ruan H, Wang Y, Zhang J, Huang Y, Yang Y, Wu C, Guo M, Luo J, Yang M.	J Adv Res	10.1016/j.jare.2023.05.006	2023
	Positive selection at core genes may underlie niche adaptation in Fusobacterium animalis	Forni D, Sivertsen A, Cagliani R, Mozzi A, Molteni C, Kommedal O, Sironi M.	Gut Pathog		2025
	Probiotic properties of native Lactobacillus spp. strains for dairy calves.	Fernandez S, Fraga M, Silveyra E, Trombert AN, Rabaza A, Pla M, Zunino P.	Benef Microbes	10.3920/bm2017.0131	2018
Genetics	Systematic review of gut microbiota composition, metabolic alterations, and the effects of treatments on PCOS and gut microbiota across human and animal studies.	Hanna A, Abbas H, Yassine F, AlBush A, Bilen M.	Front Microbiol	10.3389/fmicb.2025.1549499	2025
	Prospective comparison of the digestive tract resistome and microbiota in cattle raised in grass-fed versus grain-fed production systems.	Kwon J, Tanner W, Kong Y, Wade M, Bitler C, Chiavegato MB, Pettigrew MM.	mSphere	10.1128/msphere.00738-24	2025
	Laboratory evaluation of Lactobacillus johnsonii CRL1647 metabolites for biological control of Musca domestica	Torres MJ, Rocha VF, Audisio MC.	Entomol Exp Appl	10.1111/eea.12445	2016
	Interplay of Oxidative Stress, Gut Microbiota, and Nicotine in Metabolic-Associated Steatotic Liver Disease (MASLD).	Mignini I, Galasso L, Piccirilli G, Calvez V, Termite F, Esposto G, Borriello R, Miele L, Ainora ME, Gasbarrini A, Zocco MA.	Antioxidants (Basel)	10.3390/antiox13121532	2024
Pathogenicity	Fecal Microbiota Transplantation Derived from Alzheimer's Disease Mice Worsens Brain Trauma Outcomes in Wild-Type Controls.	Soriano S, Curry K, Wang Q, Chow E, Treangen TJ, Villapol S.	Int J Mol Sci	10.3390/ijms23094476	2022
	Associations between intestinal lactic acid bacteria species and feeding habits of zoo animals.	Horie M, Ohno T, Iwahashi H, Umemura M, Murotomi K.	Microbiome Res Rep	10.20517/mrr.2024.08	2024
	Gene expression of AvBD6-10 in broiler chickens is independent of AvBD6, 9, and 10 peptide potency.	Mowbray CA, Niranji SS, Cadwell K, Bailey R, Watson KA, Hall J.	Vet Immunol Immunopathol	10.1016/j.vetimm.2018.06.007	2018
Phenotype	The role of macrophages in renal fibrosis and therapeutic prospects.	Niu D, Yang JJ, He DF.	PeerJ	10.7717/peerj.19769	2025
Phylogeny	Altered vaginal cervical microbiota diversity contributes to HPV-induced cervical cancer via inflammation regulation.	Yang Y, Zhu J, Feng R, Han M, Chen F, Hu Y.	PeerJ	10.7717/peerj.17415	2024
Genetics	The distribution variation of pathogens and virulence factors in different geographical populations of giant pandas.	Zhao M, Li Y, Wei W, Zhang Z, Zhou H.	Front Microbiol	10.3389/fmicb.2023.1264786	2023
	Dental problems and oral microbiome alterations in ulcerative colitis.	Kucharski R, Sobocki BK, Stachowska E, Bulman N, Kalinowski L, Kazmierczak-Siedlecka K.	Front Immunol	10.3389/fimmu.2025.1502605	2025
Pathogenicity	Altered albumin/neutrophil to lymphocyte ratio are associated with all-cause and cardiovascular mortality for advanced cardiovascular-kidney-metabolic syndrome.	Yin X, Zou J, Yang J.	Front Nutr	10.3389/fnut.2025.1595119	2025
	ESKAPEE Pathogen Biofilm Control on Surfaces with Probiotic Lactobacillaceae and Bacillus species.	Neidhofer C, Rathore K, Parcina M, Sieber MA.	Antibiotics (Basel)	10.3390/antibiotics12050871	2023
Pathogenicity	Lactobacillus johnsonii alleviates colitis by TLR1/2-STAT3 mediated CD206⁺ macrophages^IL-10 activation.	Jia DJ, Wang QW, Hu YY, He JM, Ge QW, Qi YD, Chen LY, Zhang Y, Fan LN, Lin YF, Sun Y, Jiang Y, Wang L, Fang YF, He HQ, Pi XE, Liu W, Chen SJ, Wang LJ.	Gut Microbes	10.1080/19490976.2022.2145843	2022
Pathogenicity	Effect of host breeds on gut microbiome and fecal metabolome in commercial pigs.	Liufu S, Wang K, Chen B, Chen W, Liu X, Wen S, Li X, Xu D, Ma H.	BMC Vet Res	10.1186/s12917-024-04308-0	2024
Metabolism	Transformation kinetics of fermented milk using Lactobacillus casei (Lc1) and Streptococcus thermophilus: comparison of results with other Inocula.	Munoz SV, Guerrero FQ, Torres MG, Castro MD, Talavera RR.	J Dairy Res	10.1017/s0022029916000613	2017
	Lactiplantibacillus plantarum enables blood urate control in mice through degradation of nucleosides in gastrointestinal tract.	Li M, Wu X, Guo Z, Gao R, Ni Z, Cui H, Zong M, Van Bockstaele F, Lou W.	Microbiome	10.1186/s40168-023-01605-y	2023
Pathogenicity	Gut-specific histamine 3 receptor signaling orchestrates microglia-dependent resolution of peripheral inflammation.	Durholz K, Ehnes L, Linnerbauer M, Schmid E, Danzer H, Hinzpeter-Schmidt M, Losslein L, Amend L, Frech M, Azizov V, Schalter F, Gessner A, Lucas S, Lesker TR, Taudte RV, Hofmann J, Beyer F, Bootz-Maoz H, Reich Y, Romano H, Mauro D, Beckervordersandforth R, Kragsnaes MS, Ellingsen T, Xiang W, Haghikia A, Akdis CA, Ciccia F, Bauerle T, Sarter K, Strowig T, Yissachar N, Schett G, Rothhammer V, Zaiss MM.	J Clin Invest	10.1172/jci184697	2025
	Mitochondrial insights: key biomarkers and potential treatments for diabetic nephropathy and sarcopenia.	Chen YW, He S, Wang Y, Hu LY, Chen QK, Liu SY.	Front Cell Dev Biol	10.3389/fcell.2025.1596204	2025
	Longitudinal Analysis of the Microbiome and Metabolome in the 5xfAD Mouse Model of Alzheimer's Disease.	Dunham SJB, McNair KA, Adams ED, Avelar-Barragan J, Forner S, Mapstone M, Whiteson KL.	mBio	10.1128/mbio.01794-22	2022
	Novel insights into ORFV B2L DNA vaccine-mediated gut microbiota modulation and immune augmentation in rats.	Farooq U, Liu G, Ahmed S, Yang H, Ahmed M, Jiang X.	Front Immunol	10.3389/fimmu.2025.1598969	2025
	Intestinal microbiota characteristics of mice treated with Folium senna decoction gavage combined with restraint and tail pinch stress.	Yuan Z, Zhang C, Peng X, Shu L, Long C, Tan Z.	3 Biotech	10.1007/s13205-020-02172-x	2020
	Fecal microbiota transplantation is a promising therapy for kidney diseases.	Zhang J, Ren X, Li B, Zhao Z, Li S, Zhai W.	Front Med (Lausanne)	10.3389/fmed.2025.1628722	2025
	Structure-Function Relationship Studies of Multidomain Levansucrases from Leuconostocaceae Family.	Garcia-Paz FM, Martinez-Bahena S, Olvera C.	Microorganisms	10.3390/microorganisms10050889	2022
	Faecalibacterium prausnitzii-derived outer membrane vesicles reprogram gut microbiota metabolism to alleviate Porcine Epidemic Diarrhea Virus infection.	Xing J, Niu T, Yu T, Zou B, Shi C, Wang Y, Fan S, Li M, Bao M, Sun Y, Gao K, Qiu J, Zhang D, Wang N, Jiang Y, Huang H, Cao X, Zeng Y, Wang J, Zhang S, Hu J, Zhang D, Sun W, Yang G, Yang W, Wang C.	Microbiome	10.1186/s40168-025-02078-x	2025
	Emerging perspectives in the gut-muscle axis: The gut microbiota and its metabolites as important modulators of meat quality.	Wen C, Wang Q, Gu S, Jin J, Yang N.	Microb Biotechnol	10.1111/1751-7915.14361	2024
Enzymology	Cloning, Expression and Characterization of UDP-Glucose Dehydrogenases.	Couto MR, Rodrigues JL, Rodrigues LR.	Life (Basel)	10.3390/life11111201	2021
	Mendelian randomization suggests a causal relationship between gut dysbiosis and thyroid cancer.	Zhu F, Zhang P, Liu Y, Bao C, Qian D, Ma C, Li H, Yu T.	Front Cell Infect Microbiol	10.3389/fcimb.2023.1298443	2023
Phylogeny	Alterations in gut-kidney axis indicators and TMAO-related biomarkers in elderly patients with hypertensive nephropathy.	Li Z, Yang S, Zhou X, Qing Y, Zhang T, Xu W, Duan W, Ren F, Deng H, Wang W, Li M, Feng M, Rao C.	Front Med (Lausanne)	10.3389/fmed.2025.1671036	2025
Genetics	Isolation, Genomics-Based and Biochemical Characterization of Bacteriocinogenic Bacteria and Their Bacteriocins, Sourced from the Gastrointestinal Tract of Meat-Producing Pigs.	Sevillano E, Lafuente I, Pena N, Cintas LM, Munoz-Atienza E, Hernandez PE, Borrero J.	Int J Mol Sci	10.3390/ijms252212210	2024
	Prescription opioids induced microbial dysbiosis worsens severity of chronic pancreatitis and drives pain hypersensitivity.	Kesh K, Tao J, Ghosh N, Jalodia R, Singh S, Dawra R, Roy S.	Gut Microbes	10.1080/19490976.2024.2310291	2024
	Dual Inhibition of Salmonella enterica and Clostridium perfringens by New Probiotic Candidates Isolated from Chicken Intestinal Mucosa.	Lone A, Mottawea W, Ait Chait Y, Hammami R.	Microorganisms	10.3390/microorganisms9010166	2021
Genetics	Metagenomic analysis of human, animal, and environmental samples identifies potential emerging pathogens, profiles antibiotic resistance genes, and reveals horizontal gene transfer dynamics.	Napit R, Gurung A, Poudel A, Chaudhary A, Manandhar P, Sharma AN, Raut S, Pradhan SM, Joshi J, Poyet M, Groussin M, Rajbhandari RM, Karmacharya DB.	Sci Rep	10.1038/s41598-025-90777-8	2025
Metabolism	Gut microbial profiles and the role in lipid metabolism in Shaziling pigs.	Ma J, Duan Y, Li R, Liang X, Li T, Huang X, Yin Y, Yin J.	Anim Nutr	10.1016/j.aninu.2021.10.012	2022
	Cell-free supernatant of probiotic bacteria exerted antibiofilm and antibacterial activities against Pseudomonas aeruginosa: A novel biotic therapy.	Drumond MM, Tapia-Costa AP, Neumann E, Nunes AC, Barbosa JW, Kassuha DE, Mancha-Agresti P.	Front Pharmacol	10.3389/fphar.2023.1152588	2023
Transcriptome	Bacillus amyloliquefaciens attenuates the intestinal permeability, oxidative stress and endoplasmic reticulum stress: transcriptome and microbiome analyses in weaned piglets.	Yuan J, Meng H, Liu Y, Wang L, Zhu Q, Wang Z, Liu H, Zhang K, Zhao J, Li W, Wang Y.	Front Microbiol	10.3389/fmicb.2024.1362487	2024
	Effects of GLP-1 Analogues and Agonists on the Gut Microbiota: A Systematic Review.	Gofron KK, Wasilewski A, Malgorzewicz S.	Nutrients	10.3390/nu17081303	2025
	Lactobacillus regulate muscle fiber type conversion in Chinese native pigs via tryptophan metabolism.	Song B, Azad MAK, Zhu Q, Cheng Y, Ding S, Yao K, Kong X.	NPJ Biofilms Microbiomes	10.1038/s41522-025-00745-3	2025
	Role of bacteria in cancers and their therapeutic potential: Review of current knowledge.	Wawrety W, Kedziora A.	Iran J Basic Med Sci	10.22038/ijbms.2024.77667.16798	2025
Genetics	Microbiome Dysbiosis Shows Strong Association of Gut-Derived Altered Metabolomic Profile in Gulf War Chronic Multisymptom Illness Symptom Persistence Following Western Diet Feeding and Development of Obesity.	Bose D, Stebliankin V, Cickovski T, Saha P, Trivedi A, Roy S, More M, Tuteja A, Mathee K, Narasimhan G, Chatterjee S.	Int J Mol Sci	10.3390/ijms24044245	2023
	Multi-functional properties of lactic acid bacteria strains derived from canine feces.	Liu Y, Wang J, Zheng H, Xin J, Zhong Z, Liu H, Fu H, Zhou Z, Qiu X, Peng G.	Front Vet Sci	10.3389/fvets.2024.1404580	2024
Pathogenicity	Gut microbiota regulates oxidative stress and inflammation: a double-edged sword in renal fibrosis.	Li XJ, Shan QY, Wu X, Miao H, Zhao YY.	Cell Mol Life Sci	10.1007/s00018-024-05532-5	2024
	Inulin Supplementation Mitigates Gut Dysbiosis and Brain Impairment Induced by Mild Traumatic Brain Injury during Chronic Phase.	Yanckello LM, Fanelli B, McCulloch S, Xing X, Sun M, Hammond TC, Colwell R, Gu Z, Ericsson AC, Chang YH, Bachstetter AD, Lin AL.	J Cell Immunol	10.33696/immunology.4.132	2022
	Human Milk-Derived Enterococcus faecalis HM20: A Potential Alternative Agent of Antimicrobial Effect against Methicillin-Resistant Staphylococcus aureus (MRSA).	Yi EJ, Nguyen TTM, Jin X, Bellere AD, Kim MJ, Yi TH.	Microorganisms	10.3390/microorganisms12020306	2024
Pathogenicity	Gonadal sex and chromosome complement influence the gut microbiome in a mouse model of allergic airway inflammation.	Ekpruke CD, Alford R, Parker E, Silveyra P.	Physiol Genomics	10.1152/physiolgenomics.00003.2024	2024
	A Complex Microbial Interplay Underlies Recurrent Vulvovaginal Candidiasis Pathobiology.	Papon N, Van Dijck P.	mSystems	10.1128/msystems.01066-21	2021
	Hyperuricemia and the gut microbiota: current research hotspots and future trends.	Yang J, Chen J, Li D, Wu Q, Zhang Y, Li Y, Deng Y.	Front Microbiol	10.3389/fmicb.2025.1620561	2025
Metabolism	Comparison of gnotobiotic communities reveals milk-adapted metabolic functions and unexpected amino acid metabolism by the pre-weaning microbiome.	Lubin JB, Silverman MA, Planet PJ.	Gut Microbes	10.1080/19490976.2024.2387875	2024
	Ferulic Acid Esterase Producing Lactobacillus johnsonii from Goat Feces as Corn Silage Inoculants.	Andrada E, Mechoud MA, Abeijon-Mukdsi MC, Chagra Dib EP, Cervino S, Perez Chaia A, Medina RB.	Microorganisms	10.3390/microorganisms10091732	2022
Pathogenicity	One of the Short-Chain Fatty Acids (SCFAs), Sodium Propionate, Can Reduce the Dosage of Sishen Pill in Regulating the Intestinal Microbiota in Diarrhea with Kidney-Yang Deficiency Syndrome.	Guo M, Di J, Tan Z, Xiao N, Peng M.	J Inflamm Res	10.2147/jir.s522689	2025
Pathogenicity	An ultrasonic degraded polysaccharide extracted from Pueraria lobata ameliorate ischemic brain injury in mice by regulating the gut microbiota and LPS-TLR4 pathway.	Zhang Y, Dou Z, Li S, Zhang H, Zeng S, Zuo X, Xiao Y, Zhang L, Li Z, Zhu Q, Zhang W, Niu H, Duan Q, Chen X, Li Z, Zhou H, Wang Q.	Ultrason Sonochem	10.1016/j.ultsonch.2024.107200	2025
	Guardians in the Gut: Mechanistic Insights into a Hidden Ally Against Triple-Negative Breast Cancer.	Jaye K, Alsherbiny MA, Chang D, Li CG, Bhuyan DJ.	Cancers (Basel)	10.3390/cancers17193248	2025
	Immunomodulatory Effects of a Prebiotic Formula with 2'-Fucosyllactose and Galacto- and Fructo-Oligosaccharides on Cyclophosphamide (CTX)-Induced Immunosuppressed BALB/c Mice via the Gut-Immune Axis.	Ye W, Shi H, Qian W, Meng L, Wang M, Zhou Y, Wen Z, Han M, Peng Y, Li H, Xu Y.	Nutrients	10.3390/nu16203552	2024
	Detection of oxalyl-CoA decarboxylase (oxc) and formyl-CoA transferase (frc) genes in novel probiotic isolates capable of oxalate degradation in vitro.	Youssef HIA.	Folia Microbiol (Praha)	10.1007/s12223-024-01128-5	2024
Pathogenicity	Inflammation, Gut Microbiota, and Metabolomic Shifts in Colorectal Cancer: Insights from Human and Mouse Models.	Yang C, Wusigale, You L, Li X, Kwok LY, Chen Y.	Int J Mol Sci	10.3390/ijms252011189	2024
	Effect of Mixed Probiotics on Ovalbumin-Induced Atopic Dermatitis in Juvenile Mice.	Huang J, Wang X, Li Q, Zhang P, Jing Z, Zhang J, Su H, Sun X.	Int J Microbiol	10.1155/2024/7172386	2024
	Targeting the Adenosine-Mediated Metabolic Immune Checkpoint with Engineered Probiotic for Enhanced Chemo-Immunotherapy.	Wang J, Wang J, Yu Z, Wen H, Zhao C, Zhong J, Xiao C, Li Y, Xu J, Wang J, Mao ZW, Xia W.	Adv Sci (Weinh)	10.1002/advs.202411813	2025
	Topography of respiratory tract and gut microbiota in mice with influenza A virus infection.	Chen Q, Liu M, Lin Y, Wang K, Li J, Li P, Yang L, Jia L, Zhang B, Guo H, Li P, Song H.	Front Microbiol	10.3389/fmicb.2023.1129690	2023
	The effect of probiotics on select cognitive domains in mild cognitive impairment and Alzheimer's disease: A systematic review and meta-analysis.	Tripathi S, Kaushik M, Dwivedi R, Tiwari P, Tripathi M, Dada R.	J Alzheimers Dis Rep	10.1177/25424823241289039	2024
	Psychoactive Effects of Lactobacillus johnsonii Against Restraint Stress-Induced Memory Dysfunction in Mice Through Modulating Intestinal Inflammation and permeability-a Study Based on the Gut-Brain Axis Hypothesis.	Wang H, He S, Xin J, Zhang T, Sun N, Li L, Ni X, Zeng D, Ma H, Bai Y.	Front Pharmacol	10.3389/fphar.2021.662148	2021
	Heyndrickxia coagulans SANK70258 supplementation improves growth performance, gut health, and liver function in growing pigs.	Aida M, Yamada R, Kawase T, Matsuo T, Tsukahara T.	Front Vet Sci	10.3389/fvets.2025.1537913	2025
Pathogenicity	Citation: Tight Junction Protein Expression-Inducing Probiotics Alleviate TNBS-Induced Cognitive Impairment with Colitis in Mice.	Ma XY, Son YH, Yoo JW, Joo MK, Kim DH.	Nutrients	10.3390/nu14142975	2022
	Genome Sequence of Lactobacillus johnsonii Strain W1, Isolated from Mice.	Wu X, Zhao C, Guo Z, Hao Y, Li J, Shi H, Sun Y.	Genome Announc	10.1128/genomea.00561-16	2016
	Comprehensive Metagenomic Analysis of Veterinary Probiotics in Broiler Chickens.	Kerek A, Roman IL, Szabo A, Papp M, Banyai K, Kardos G, Kaszab E, Bali K, Makrai L, Jerzsele A.	Animals (Basel)	10.3390/ani14131927	2024
	Molecular identification and probiotic potential characterization of lactic acid bacteria isolated from the pigs with superior immune responses.	Ma W, Zhang W, Wang X, Pan Y, Wang M, Xu Y, Gao J, Cui H, Li C, Chen H, Zhang H, Xia C, Wang Y.	Front Microbiol	10.3389/fmicb.2024.1361860	2024
Pathogenicity	The process of hypertension induced by high-salt diet: Association with interactions between intestinal mucosal microbiota, and chronic low-grade inflammation, end-organ damage.	Zheng T, Wu Y, Guo KX, Tan ZJ, Yang T.	Front Microbiol	10.3389/fmicb.2023.1123843	2023
	Upregulation of Lactobacillus spp. in gut microbiota as a novel mechanism for environmental eustress-induced anti-pancreatic cancer effects.	Liang Y, Du M, Li X, Gao J, Li Q, Li H, Li J, Gao X, Cong H, Huang Y, Li X, Wang L, Cui J, Gan Y, Tu H.	Gut Microbes	10.1080/19490976.2025.2470372	2025
Pathogenicity	Anti-inflammatory effects of Lactobacillus johnsonii L531 in a pig model of Salmonella Infantis infection involves modulation of CCR6⁺ T cell responses and ER stress.	Yang GY, Xia B, Su JH, He T, Liu X, Guo L, Zhang S, Zhu YH, Wang JF.	Vet Res	10.1186/s13567-020-00754-4	2020
	Lacticaseibacillus paracasei Glu-07: A Promising Probiotic Candidate for the Management of Type 2 Diabetes Mellitus.	Xu W, Guan Y, Tian L, Fu Y, Zhang Y, Liu Y, Hu Y, Zhao B, Wu C.	Curr Microbiol	10.1007/s00284-025-04391-y	2025
	Bifidobacterium longum increases serum vitamin D metabolite levels and modulates intestinal flora to alleviate osteoporosis in mice.	Wang H, Tian G, Pei Z, Yu X, Wang Y, Xu F, Zhao J, Lu S, Lu W.	mSphere	10.1128/msphere.01039-24	2025
	Integrative analysis of metabolites and microbial diversity revealed metabolic mechanism of coarse feeding tolerance in Songliao Black sows during gestation.	Zhao J, Zhao W, Dong J, Zhang H, Yang K, Gao S, Feng W, Song Y, Qi M, He X.	Front Microbiol	10.3389/fmicb.2024.1484134	2024
	Mind, Mood and Microbiota-Gut-Brain Axis in Psychiatric Disorders.	Toader C, Dobrin N, Costea D, Glavan LA, Covache-Busuioc RA, Dumitrascu DI, Bratu BG, Costin HP, Ciurea AV.	Int J Mol Sci	10.3390/ijms25063340	2024
Genetics	CRISPR-Cas systems feature and targeting phages diversity in Lacticaseibacillus rhamnosus strains.	Panahi B, Dehganzad B, Nami Y.	Front Microbiol	10.3389/fmicb.2023.1281307	2023
	The dysbiosis of gut microbiota and dysregulation of metabolites in IgA nephropathy and membranous nephropathy.	Zhang L, Hu L, Tan L, Zhang Z, Chen M, Gan W, Chen L, Zou Y, Wang S, Pang Y, Fan Z, Liu J.	Front Med (Lausanne)	10.3389/fmed.2025.1618947	2025
	Transplantation of Gut Microbiota From High-Fat-Diet-Tolerant Cynomolgus Monkeys Alleviates Hyperlipidemia and Hepatic Steatosis in Rats.	Gao JM, Rao JH, Wei ZY, Xia SY, Huang L, Tang MT, Hide G, Zheng TT, Li JH, Zhao GA, Sun YX, Chen JH.	Front Microbiol	10.3389/fmicb.2022.876043	2022
Genetics	Mannanase improves the growth performance of broilers by alleviating inflammation of the intestinal epithelium and improving intestinal microbiota.	Zhang X, Xu H, Gong L, Wang J, Fu J, Lv Z, Zhou L, Li X, Liu Q, Xia P, Guo Y.	Anim Nutr	10.1016/j.aninu.2023.06.017	2024
	Probiotic Potential of Enterococcus lactis GL3 Strain Isolated from Honeybee (Apis mellifera L.) Larvae: Insights into Its Antimicrobial Activity Against Paenibacillus larvae.	Ye M, Jiang Y, Han Q, Li X, Meng C, Ji C, Ji F, Zhou B.	Vet Sci	10.3390/vetsci12020165	2025
	Alteration of the gut microbiome and correlated metabolism in a rat model of long-term depression.	Li Y, Li J, Cheng R, Liu H, Zhao Y, Liu Y, Chen Y, Sun Z, Zhai Z, Wu M, Yan Y, Sun Y, Zhang Z.	Front Cell Infect Microbiol	10.3389/fcimb.2023.1116277	2023
	Unveiling the microbial communities and metabolic pathways of Keem, a traditional starter culture, through whole-genome sequencing.	Rana B, Chandola R, Sanwal P, Joshi GK.	Sci Rep	10.1038/s41598-024-53350-3	2024
Genetics	Complete Genome Sequencing and Comparative Genome Characterization of Lactobacillus johnsonii ZLJ010, a Potential Probiotic With Health-Promoting Properties.	Zhang W, Wang J, Zhang D, Liu H, Wang S, Wang Y, Ji H.	Front Genet	10.3389/fgene.2019.00812	2019
	The role of the gut microbiota in the onset and progression of heart failure: insights into epigenetic mechanisms and aging.	Matacchione G, Piacenza F, Pimpini L, Rosati Y, Marcozzi S.	Clin Epigenetics	10.1186/s13148-024-01786-9	2024
	Topical Probiotic Hydrogels for Burn Wound Healing.	Arshad T, Mundrathi V, Perez VE, Nunez JM, Cho H.	Gels	10.3390/gels10090545	2024
Transcriptome	Comprehensive analysis of gut microbiome and host transcriptome in chickens after Eimeria tenella infection.	Yu H, Wang Q, Tang J, Dong L, Dai G, Zhang T, Zhang G, Xie K, Wang H, Zhao Z.	Front Cell Infect Microbiol	10.3389/fcimb.2023.1191939	2023
	Effect of Lactobacillus johnsonii CRL1647 on different parameters of honeybee colonies and bacterial populations of the bee gut.	Audisio MC, Sabate DC, Benitez-Ahrendts MR.	Benef Microbes	10.3920/bm2014.0155	2015
Enzymology	Gram-Positive Bacteria with Probiotic Potential for the Apis mellifera L. Honey Bee: The Experience in the Northwest of Argentina.	Audisio MC.	Probiotics Antimicrob Proteins	10.1007/s12602-016-9231-0	2017
	Metabolomics, network pharmacology, and microbiome analyses uncover the mechanisms of the Chinese herbal formula for the improvement of meat quality in spent hens.	Li Z, Azad MAK, Meng C, Kong X, Gui J, Lin W, Cui Y, Lan W, He Q.	J Anim Sci Biotechnol	10.1186/s40104-025-01150-8	2025
Phylogeny	Full-length 16S rDNA sequencing based on Oxford Nanopore Technologies revealed the association between gut-pharyngeal microbiota and tuberculosis in cynomolgus macaques.	Sawaswong V, Chanchaem P, Klomkliew P, Rotcheewaphan S, Meesawat S, Kemthong T, Kaewparuehaschai M, Noradechanon K, Ekatat M, Kanitpun R, Srilohasin P, Warit S, Chaiprasert A, Malaivijitnond S, Payungporn S.	Sci Rep	10.1038/s41598-024-53880-w	2024
	Vaginal Microbiome and Pregnancy Complications: A Review	Gerede A, Nikolettos K, Vavoulidis E, Margioula-Siarkou C, Petousis S, Giourga M, Fotinopoulos P, Salagianni M, Stavros S, Dinas K, Nikolettos N, Domali E.	J Clin Med		2024
Pathogenicity	Multi-omics analysis reveals substantial linkages between the oral-gut microbiomes and inflamm-aging molecules in elderly pigs.	Qiao C, He M, Wang S, Jiang X, Wang F, Li X, Tan S, Chao Z, Xin W, Gao S, Yuan J, Li Q, Xu Z, Zheng X, Zhao J, Liu G.	Front Microbiol	10.3389/fmicb.2023.1250891	2023
	Cimifugin ameliorates ulcerative colitis-related lung injury by modulating the JAK1/STAT1 signaling pathway and macrophage M1 polarization.	Wang G, Yang F, Zang G, Shen N, Huang L, Ma Z, Li M.	Front Immunol	10.3389/fimmu.2025.1551892	2025
	Early life microbiome disbalance impacts neuroendocrine outcomes in pre-pubertal mice in a sexually dimorphic manner.	Nankova BB, Hu F, LaGamma EF.	Front Microbiol	10.3389/fmicb.2025.1504513	2025
	Bisdemethoxycurcumin and Curcumin Alleviate Inflammatory Bowel Disease by Maintaining Intestinal Epithelial Integrity and Regulating Gut Microbiota in Mice.	Hsu KY, Majeed A, Ho CT, Pan MH.	J Agric Food Chem	10.1021/acs.jafc.4c11101	2025
Genetics	Diet-induced changes in the jejunal microbiota of developing broilers reduce the abundance of Enterococcus hirae and Enterococcus faecium.	Stege PB, Schokker D, Harders F, Kar SK, Stockhofe N, Perricone V, Rebel JMJ, de Jong IC, Bossers A.	BMC Genomics	10.1186/s12864-024-10496-8	2024
	Significance of Mucosa-Associated Microbiota and Its Impacts on Intestinal Health of Pigs Challenged with F18⁺E. coli.	Duarte ME, Kim SW.	Pathogens	10.3390/pathogens11050589	2022
	Yeast mannan rich fraction positively influences microbiome uniformity, productivity associated taxa, and lay performance.	Leigh RJ, Corrigan A, Murphy RA, Taylor-Pickard J, Moran CA, Walsh F.	Anim Microbiome	10.1186/s42523-024-00295-7	2024
	Identification of Genes Required for Glucan Exopolysaccharide Production in Lactobacillus johnsonii Suggests a Novel Biosynthesis Mechanism.	Mayer MJ, D'Amato A, Colquhoun IJ, Le Gall G, Narbad A.	Appl Environ Microbiol	10.1128/aem.02808-19	2020
Phenotype	Gut Microbiota Taxon-Dependent Transformation of Microglial M1/M2 Phenotypes Underlying Mechanisms of Spatial Learning and Memory Impairment after Chronic Methamphetamine Exposure.	Wu Y, Dong Z, Jiang X, Qu L, Zhou W, Sun X, Hou J, Xu H, Cheng M.	Microbiol Spectr	10.1128/spectrum.00302-23	2023
	Alginate Oligosaccharide and Gut Microbiota: Exploring the Key to Health.	Song M, Chen L, Dong C, Tang M, Wei Y, Lv D, Li Q, Chen Z.	Nutrients	10.3390/nu17121977	2025
	High-fat diet feeding exacerbates HIV-1 rectal transmission.	Lohani SC, Ramer-Tait AE, Li Q.	mSystems	10.1128/msystems.01322-23	2024
	Probiotic consumption and hepatic steatosis: results from the NHANES 2011-2016 and Mendelian randomization study.	Song Y, Guo W, Wang J, Liu S, Li Z, Li Y.	Front Nutr	10.3389/fnut.2024.1334935	2024
	Gut-Kidney Impairment Process of Adenine Combined with Folium sennae-Induced Diarrhea: Association with Interactions between Lactobacillus intestinalis, Bacteroides acidifaciens and Acetic Acid, Inflammation, and Kidney Function.	Li X, Peng X, Qiao B, Peng M, Deng N, Yu R, Tan Z.	Cells	10.3390/cells11203261	2022
	Seminal Bacterioflora of Two Rooster Lines: Characterization, Antibiotic Resistance Patterns and Possible Impact on Semen Quality.	Tvrda E, Petrovicova M, Benko F, Duracka M, Kovac J, Slanina T, Galovicova L, Ziarovska J, Kacaniova M.	Antibiotics (Basel)	10.3390/antibiotics12020336	2023
	Previse preterm birth in early pregnancy through vaginal microbiome signatures using metagenomics and dipstick assays.	Talukdar D, Sarkar M, Ahrodia T, Kumar S, De D, Nath S, Jana P, Verma J, Mehta O, Kothidar A, Yodhaanjali JR, Sharma K, Bakshi S, Singh U, Kshetrapal P, Wadhwa N, Thiruvengadam R, Garbh-Ini study group, Nair GB, Bhatnagar S, Mukherjee S, Das B.	iScience	10.1016/j.isci.2024.111238	2024
	Enhancement of host defense against Helicobacter pylori infection through modulation of the gastrointestinal microenvironment by Lactiplantibacillus plantarum Lp05.	Dong Y, Han M, Qi Y, Wu Y, Zhou Z, Jiang D, Gai Z.	Front Immunol	10.3389/fimmu.2024.1469885	2024
	Dietary Interventions and Physical Activity as Crucial Factors in the Prevention and Treatment of Metabolic Dysfunction-Associated Steatotic Liver Disease.	Rajewski P, Ciescinski J, Rajewski P, Suwala S, Rajewska A, Potasz M.	Biomedicines	10.3390/biomedicines13010217	2025
	Gut microbiota and gastrointestinal tumors: insights from a bibliometric analysis.	Chen C, Wang X, Han X, Peng L, Zhang Z.	Front Microbiol	10.3389/fmicb.2025.1558490	2025
	Bile Acid Regulates Mononuclear Phagocytes and T Helper 17 Cells to Control Candida albicans in the Intestine.	Datta A, Hernandez-Franco JF, Park S, Olson MR, HogenEsch H, Thangamani S.	J Fungi (Basel)	10.3390/jof8060610	2022
	Investigation of Trehalose Supplementation Impacting Campylobacter jejuni and Clostridium perfringens from Broiler Farming.	Fan YC, Wu YT, Wu YS, Wang CL, Chou CH, Chen YC, Tsai HJ.	Vet Sci	10.3390/vetsci10070466	2023
	Simulated Swine Digestion and Gut Microbiota Fermentation of Hydrolyzed Copra Meal.	Rungruangsaphakun J, Ayimbila F, Nakphaichit M, Keawsompong S.	Animals (Basel)	10.3390/ani14111677	2024
Pathogenicity	Probiotic Bacillus pumilus LV149 enhances gut repair, modulates microbiota, and alters transcriptome in DSS-induced colitis mice.	Sun X, Yun L, Xie K, Liu R, Ren X, Zeng B, Cao X, Li Z, Zhou G, Liu B, Peng L, Yuan L.	Front Microbiol	10.3389/fmicb.2024.1507979	2024
Genetics	Commercial farmed swine harbour a variety of pathogenic bacteria and antimicrobial resistance genes.	Eiamsam-Ang T, Tadee P, Buddhasiri S, Chuammitri P, Kittiwan N, Pascoe B, Patchanee P.	J Med Microbiol	10.1099/jmm.0.001787	2024
	Effects of nano-selenium on cecum microbial community and metabolomics in chickens challenged with Ochratoxin A.	Fang M, Hu W, Liu B.	Front Vet Sci	10.3389/fvets.2023.1228360	2023
	Administration of selenomethionine in combination with serine benefits diabetes via gut microbiota.	Cui X, Chen J, Yang Y.	Front Microbiol	10.3389/fmicb.2022.1007814	2022
	Gut microbiota regulates host melatonin production through epithelial cell MyD88.	Liu B, Fan L, Wang Y, Wang H, Yan Y, Chen S, Hung I, Liu C, Wei H, Ge L, Ren W.	Gut Microbes	10.1080/19490976.2024.2313769	2024
	Bacterial and Fungal Adaptations in Cecum and Distal Colon of Piglets Fed With Dairy-Based Milk Formula in Comparison With Human Milk.	Elolimy A, Rosa F, Tripp P, Zeineldin M, Bowlin AK, Randolph C, Robeson MS, Yeruva L.	Front Microbiol	10.3389/fmicb.2022.801854	2022
	Milk oligosaccharide-mediated cross-feeding between Enterococcus gallinarum and lactobacilli in the gut microbiota of infant rats.	Matsui S, Akazawa H, Tsujikawa Y, Fukuda I, Suzuki Y, Yamamoto Y, Mukai T, Shirai Y, Osawa R.	Biosci Microbiota Food Health	10.12938/bmfh.2021-036	2021
Pathogenicity	Immunosuppressive activity is attenuated by Astragalus polysaccharides through remodeling the gut microenvironment in melanoma mice.	Ding G, Gong Q, Ma J, Liu X, Wang Y, Cheng X.	Cancer Sci	10.1111/cas.15078	2021
	Changes in the Global Epidemiology of Type 1 Diabetes in an Evolving Landscape of Environmental Factors: Causes, Challenges, and Opportunities.	Ogrotis I, Koufakis T, Kotsa K.	Medicina (Kaunas)	10.3390/medicina59040668	2023
	Design of a beneficial product for newborn calves by combining Lactobacilli, minerals, and vitamins.	Maldonado NC, Silva de Ruiz C, Nader-Macias ME.	Prep Biochem Biotechnol	10.1080/10826068.2015.1128447	2016
	Isolation of bacterial consortia with probiotic potential from the rumen of tropical calves.	Rodriguez-Gonzalez S, Gonzalez-Davalos L, Robles-Rodriguez C, Lozano-Flores C, Varela-Echavarria A, Shimada A, Mora-Izaguirre O.	J Anim Physiol Anim Nutr (Berl)	10.1111/jpn.13699	2023
Pathogenicity	The insertion of the inverted repeat of an insertion sequence (IS) element from Lacticaseibacillus rhamnosus changes the host range and stability of pGK12, a shuttle vector for lactic acid bacteria.	Xie Z, Jin Y-S, Klaenhammer TR, Miller MJ.	Appl Environ Microbiol	10.1128/aem.01908-24	2025
Genetics	Evaluating the probiotic effects of spraying lactiplantibacillus plantarum P-8 in neonatal piglets.	Yao G, Zhao Z, Yang C, Zuo B, Sun Z, Wang J, Zhang H.	BMC Microbiol	10.1186/s12866-024-03332-2	2024
Pathogenicity	Inhibition of Bacillus cereus Strains by Antimicrobial Metabolites from Lactobacillus johnsonii CRL1647 and Enterococcus faecium SM21.	Soria MC, Audisio MC.	Probiotics Antimicrob Proteins	10.1007/s12602-014-9169-z	2014
	Heat-Killed Lactobacillus acidophilus Promotes Growth by Modulating the Gut Microbiota Composition and Fecal Metabolites of Piglets.	Miao H, Liang J, Lan G, Wu Q, Huang Z.	Animals (Basel)	10.3390/ani14172528	2024
	Effects of simulated digestion and prebiotics properties of polysaccharides extracted from Imperatae Rhizoma based on different pilot processes.	Sun M, Huang H, Tang H, Chen J, Chen W, Yang D.	Front Microbiol	10.3389/fmicb.2025.1544261	2025
	The Positive Effects of Exogenous Pancreatin on Growth Performance, Nutrient Digestion and Absorption, and Intestinal Microbiota in Piglets.	Liu X, Huang X, Fu Y, Wang Y, Lu Z.	Front Physiol	10.3389/fphys.2022.906522	2022
	Effect of antibiotics and low-crude protein diets on growth performance, health, immune response, and fecal microbiota of growing pigs.	Gomes MDS, Duarte ME, Saraiva A, de Oliveira LL, Teixeira LM, Rocha GC.	J Anim Sci	10.1093/jas/skad357	2023
	Causal Relationship Between Gut Microbiota and Leukemia: Future Perspectives.	Yang Q, Wang Z, Liu M, Gan L.	Oncol Ther	10.1007/s40487-024-00300-8	2024
	The effects of probiotic and phytase on growth performance, biochemical parameters and antioxidant capacity in broiler chickens.	Derakhshan M, Ghasemian SO, Gholami-Ahangaran M.	Vet Med Sci	10.1002/vms3.1075	2023
	Tibetan Medicine Qishiwei Zhenzhu Pills Can Reduce Cerebral Ischemia-Reperfusion Injury by Regulating Gut Microbiota and Inhibiting Inflammation.	Fu K, Zhang D, Song Y, Xu M, Wu R, Xiong X, Liu X, Wu L, Guo Y, Zhou Y, Li X, Wang Z.	Evid Based Complement Alternat Med	10.1155/2021/2251679	2021
Metabolism	Application of Lactobacillus johnsonii expressing phage endolysin for control of Clostridium perfringens.	Gervasi T, Lo Curto R, Minniti E, Narbad A, Mayer MJ.	Lett Appl Microbiol	10.1111/lam.12298	2014
	Probiotics and their Metabolites Reduce Oxidative Stress in Middle-Aged Mice.	Lin WY, Lin JH, Kuo YW, Chiang PR, Ho HH.	Curr Microbiol	10.1007/s00284-022-02783-y	2022
	D- and l-amino acid concentrations in culture broth of Lactobacillus are highly dependent on the phylogenetic group of Lactobacillus.	Sugahara H, Nagayama K, Ikeda S, Hirota T, Nakamura Y.	Biochem Biophys Rep	10.1016/j.bbrep.2021.101073	2021
	Gut microbiota-mediated polyphenol metabolism is restrained by parasitic whipworm infection and associated with altered immune function in mice.	Schytz Andersen-Civil AI, Arora P, Zhu L, Myhill LJ, Budeyri Gokgoz N, Castro-Mejia JL, Leppa MM, Hansen LH, Lessard-Lord J, Salminen JP, Thamsborg SM, Sandris Nielsen D, Desjardins Y, Williams AR.	Gut Microbes	10.1080/19490976.2024.2370917	2024
Pathogenicity	Galactooligosaccharides Attenuate Behavioural, Haematological and Immunological Abnormalities and Influence Gut Microbiota in Rats with Amygdala Hyperactivation Induced by Electrical Stimulation.	Rucinski J, Kurowska-Rucinska E, Myslinska D, Grembecka B, Piekarczyk N, Necel A, Kosznik-Kwasnicka K, Majkutewicz I.	Int J Mol Sci	10.3390/ijms26094353	2025
	Proton pump inhibitor alters Th17/Treg balance and induces gut dysbiosis suppressing contact hypersensitivity reaction in mice.	Strzepa A, Marcinska K, Kiecka A, Majewska-Szczepanik M, Szczepanik M.	Front Immunol	10.3389/fimmu.2024.1390025	2024
	Effect of Lactobacillus paracasei LK01 on Growth Performance, Antioxidant Capacity, Immunity, Intestinal Health, and Serum Biochemical Indices in Broilers.	Liu W, Cheng H, Zhang H, Liu G, Yin X, Zhang C, Jiang R, Wang Z, Ding X.	Animals (Basel)	10.3390/ani14233474	2024
Pathogenicity	Intestinal Microbiota Influence Doxorubicin Responsiveness in Triple-Negative Breast Cancer.	Bawaneh A, Wilson AS, Levi N, Howard-McNatt MM, Chiba A, Soto-Pantoja DR, Cook KL.	Cancers (Basel)	10.3390/cancers14194849	2022
Pathogenicity	Defatted Tenebrio molitor Larva Fermentation Extract Modifies Steatosis, Inflammation and Intestinal Microflora in Chronic Alcohol-Fed Rats.	Choi RY, Ham JR, Ryu HS, Lee SS, Miguel MA, Paik MJ, Ji M, Park KW, Kang KY, Lee HI, Lee MK.	Nutrients	10.3390/nu12051426	2020
	Comprehensive fecal metabolomics and gut microbiota study of the protective mechanism of herbal pair Polygonum hydropiper-Coptis chinensis in rats with stress-induced gastric mucosal damage.	Ren S, Ren C, Zhao Y, Niu H, Xie Y.	Front Pharmacol	10.3389/fphar.2024.1435166	2024
	How Do We Move Type 1 Diabetes Immunotherapies Forward During the Current COVID-19 Pandemic?	Haller MJ, Jacobsen LM, Posgai AL, Schatz DA.	Diabetes	10.2337/dbi20-0045	2021
	'Multi-omics' data integration: applications in probiotics studies.	Kwoji ID, Aiyegoro OA, Okpeku M, Adeleke MA.	NPJ Sci Food	10.1038/s41538-023-00199-x	2023
	GLP-1R Agonists and Their Therapeutic Potential in Inflammatory Bowel Disease and Other Immune-Mediated Inflammatory Diseases, a Systematic Review of the Literature.	Thin L, Teh WL.	Biomedicines	10.3390/biomedicines13051128	2025
Pathogenicity	C-phycocyanin alleviated cisplatin-induced oxidative stress and inflammation via gut microbiota-metabolites axis in mice.	Zhang Y, Li L, Qin S, Yuan J, Xie X, Wang F, Hu S, Yi Y, Chen M.	Front Nutr	10.3389/fnut.2022.996614	2022
	Plant polysaccharide-capped nanoparticles: A sustainable approach to modulate gut microbiota and advance functional food applications.	Bamigbade GB, Abdin M, Subhash A, Arachchi MP, Ullah N, Gan RY, Ali A, Kamal-Eldin A, Ayyash M.	Compr Rev Food Sci Food Saf	10.1111/1541-4337.70156	2025
	An archaeal lid-containing feruloyl esterase degrades polyethylene terephthalate.	Perez-Garcia P, Chow J, Costanzi E, Gurschke M, Dittrich J, Dierkes RF, Molitor R, Applegate V, Feuerriegel G, Tete P, Danso D, Thies S, Schumacher J, Pfleger C, Jaeger KE, Gohlke H, Smits SHJ, Schmitz RA, Streit WR.	Commun Chem	10.1038/s42004-023-00998-z	2023
	Dietary Alpha-Ketoglutarate Supplementation Improves Bone Growth, Phosphorus Digestion, and Growth Performance in Piglets.	Tian J, Yang F, Bao X, Jiang Q, Li Y, Yao K, Yin Y.	Animals (Basel)	10.3390/ani13040569	2023
Metabolism	Human milk and mucosal lacto- and galacto-N-biose synthesis by transgalactosylation and their prebiotic potential in Lactobacillus species.	Bidart GN, Rodriguez-Diaz J, Palomino-Schatzlein M, Monedero V, Yebra MJ.	Appl Microbiol Biotechnol	10.1007/s00253-016-7882-0	2017
	Effects of Wickerhamomyces anomalus Co-Fermented with Saccharomyces cerevisiae on Volatile Flavor Profiles during Steamed Bread Making Using Electronic Nose and HS-SPME-GC-MS.	Ding X, Yue M, Gu H, Li S, Chen S, Wang L, Sun L.	Foods	10.3390/foods13162490	2024
	Feruloyl Esterase (LaFae) from Lactobacillus acidophilus: Structural Insights and Functional Characterization for Application in Ferulic Acid Production.	Jeon S, Hwang J, Do H, Le LTHL, Lee CW, Yoo W, Lee MJ, Shin SC, Kim KK, Kim HW, Lee JH.	Int J Mol Sci	10.3390/ijms241311170	2023
	Effects of Yulin Tong Bu formula on modulating gut microbiota and fecal metabolite interactions in mice with polycystic ovary syndrome.	Su YN, Wang MJ, Yang JP, Wu XL, Xia M, Bao MH, Ding YB, Feng Q, Fu LJ.	Front Endocrinol (Lausanne)	10.3389/fendo.2023.1122709	2023
	Lactobacillus johnsonii BS15 improves intestinal environment against fluoride-induced memory impairment in mice-a study based on the gut-brain axis hypothesis.	Xin J, Zeng D, Wang H, Sun N, Khalique A, Zhao Y, Wu L, Pan K, Jing B, Ni X.	PeerJ	10.7717/peerj.10125	2020
	Draft Genome Sequence of Lactobacillus johnsonii Strain 16, Isolated from Mice.	Buhnik-Rosenblau K, Danin-Poleg Y, Elgavish S, Kashi Y.	Genome Announc	10.1128/genomea.01141-15	2015
	A tailored series of engineered yeasts for the cell-dependent treatment of inflammatory bowel disease by rational butyrate supplementation.	Wu J, Huang H, Wang L, Gao M, Meng S, Zou S, Feng Y, Feng Z, Zhu Z, Cao X, Li B, Kang G.	Gut Microbes	10.1080/19490976.2024.2316575	2024
	Regulatory Effects of Combined Dietary Supplementation With Essential Oils and Organic Acids on Microbial Communities of Cobb Broilers.	Qiao J, Shang Z, Liu X, Wang K, Wu Z, Wei Q, Li H.	Front Microbiol	10.3389/fmicb.2021.814626	2021
Pathogenicity	Perturbed gut microbiota and serum metabolites are associated with progressive renal fibrosis.	Wang RX, Zhou HB, Gao JX, Li XH, Bai WF, Wang J, Bai YC, Fan LY, Chang H, Shi SL.	Front Med (Lausanne)	10.3389/fmed.2025.1489100	2025
Pathogenicity	Gene expression profiling reveals host defense strategies for restricting Candida albicans invasion and gastritis to the limiting ridge of the murine stomach.	Zeise KD, Falkowski NR, Metcalf JD, Brown CA, Huffnagle GB.	Infect Immun	10.1128/iai.00438-24	2024
	Polysaccharide from Edible Alga Enteromorpha clathrata Improves Ulcerative Colitis in Association with Increased Abundance of Parabacteroides spp. in the Gut Microbiota of Dextran Sulfate Sodium-Fed Mice.	Ma M, Fu T, Wang Y, Zhang A, Gao P, Shang Q, Yu G.	Mar Drugs	10.3390/md20120764	2022
	Dietary fiber during gestation improves lactational feed intake of sows by modulating gut microbiota.	Li S, Zheng J, He J, Liu H, Huang Y, Huang L, Wang K, Zhao X, Feng B, Che L, Fang Z, Li J, Xu S, Lin Y, Jiang X, Hua L, Zhuo Y, Wu.	J Anim Sci Biotechnol	10.1186/s40104-023-00870-z	2023
	Microbial shifts associated with necrotic enteritis.	Antonissen G, Eeckhaut V, Van Driessche K, Onrust L, Haesebrouck F, Ducatelle R, Moore RJ, Van Immerseel F.	Avian Pathol	10.1080/03079457.2016.1152625	2016
	Selection and Characterization of Probiotic Bacteria Exhibiting Antiadipogenic Potential in 3T3-L1 Preadipocytes.	Lee CS, Park MH, Kim SH.	Probiotics Antimicrob Proteins	10.1007/s12602-021-09793-5	2022
	Fewer culturable Lactobacillaceae species identified in faecal samples of pigs performing manipulative behaviour.	Konig E, Heponiemi P, Kivinen S, Rakkolainen J, Beasley S, Borman T, Collado MC, Hukkinen V, Junnila J, Lahti L, Norring M, Piirainen V, Salminen S, Heinonen M, Valros A.	Sci Rep	10.1038/s41598-023-50791-0	2024
	Impact of probiotics use on clinical outcomes of immune checkpoint inhibitors therapy in cancer patients.	Wan L, Wu C, Wu Q, Luo S, Liu J, Xie X.	Cancer Med	10.1002/cam4.4994	2023
Genetics	Probiotics Bifidobacterium lactis M8 and Lactobacillus rhamnosus M9 prevent high blood pressure via modulating the gut microbiota composition and host metabolic products.	Zhang Y, Zheng T, Ma D, Shi P, Zhang H, Li J, Sun Z.	mSystems	10.1128/msystems.00331-23	2023
Pathogenicity	Bile Acid Regulates the Colonization and Dissemination of Candida albicans from the Gastrointestinal Tract by Controlling Host Defense System and Microbiota.	Thangamani S, Monasky R, Lee JK, Antharam V, HogenEsch H, Hazbun TR, Jin Y, Gu H, Guo GL.	J Fungi (Basel)	10.3390/jof7121030	2021
	Association of cervical microbial community with persistence, clearance and negativity of Human Papillomavirus in Korean women: a longitudinal study.	Arokiyaraj S, Seo SS, Kwon M, Lee JK, Kim MK.	Sci Rep	10.1038/s41598-018-33750-y	2018
Metabolism	Lactobacillus fermentum 016 Alleviates Mice Colitis by Modulating Oxidative Stress, Gut Microbiota, and Microbial Metabolism.	Pan H, Yang S, Kulyar MF, Ma H, Li K, Zhang L, Mo Q, Li J.	Nutrients	10.3390/nu17030452	2025
	Effect of metformin on sepsis-associated acute lung injury and gut microbiota in aged rats with sepsis.	Wan Y, Wang S, Niu Y, Duo B, Liu Y, Lu Z, Zhu R.	Front Cell Infect Microbiol	10.3389/fcimb.2023.1139436	2023
	Alterations of milk oligosaccharides in mothers with gestational diabetes mellitus impede colonization of beneficial bacteria and development of RORgammat⁺ Treg cell-mediated immune tolerance in neonates.	Li X, Ning X, Rui B, Wang Y, Lei Z, Yu D, Liu F, Deng Y, Yuan J, Li W, Yan J, Li M.	Gut Microbes	10.1080/19490976.2023.2256749	2023
	Preventing non-alcoholic fatty liver disease through Lactobacillus johnsonii BS15 by attenuating inflammation and mitochondrial injury and improving gut environment in obese mice.	Xin J, Zeng D, Wang H, Ni X, Yi D, Pan K, Jing B.	Appl Microbiol Biotechnol	10.1007/s00253-014-5752-1	2014
	Identification of novel probiotic lactic acid bacteria from soymilk waste using the 16s rRNA gene for potential use in poultry.	Srifani A, Mirnawati M, Marlida Y, Rizal Y, Nurmiati N, Lee KW.	Vet World	10.14202/vetworld.2024.1001-1011	2024
Metabolism	Bacteroides thetaiotaomicron and Lactobacillus johnsonii modulate intestinal inflammation and eliminate fungi via enzymatic hydrolysis of the fungal cell wall.	Charlet R, Bortolus C, Sendid B, Jawhara S.	Sci Rep	10.1038/s41598-020-68214-9	2020
	The causal relationship between gut microbiota and lymphoma: a two-sample Mendelian randomization study.	Li B, Han Y, Fu Z, Chai Y, Guo X, Du S, Li C, Wang D.	Front Immunol	10.3389/fimmu.2024.1397485	2024
Pathogenicity	Cinnamaldehyde Improves Metabolic Functions in Streptozotocin-Induced Diabetic Mice by Regulating Gut Microbiota.	Zhao H, Wu H, Duan M, Liu R, Zhu Q, Zhang K, Wang L.	Drug Des Devel Ther	10.2147/dddt.s288011	2021
	The effect of enterocin A/P dipeptide on growth performance, glutathione-peroxidase activity, IgA secretion and jejunal morphology in rabbits after experimental methicillin-resistant Staphylococcus epidermidis P3Tr2a Infection.	Pogany Simonova M, Chrastinova L, Scerbova J, Fockova V, Placha I, Tokarcikova K, Zitnan R, Laukova A.	Vet Res Commun	10.1007/s11259-023-10277-w	2024
	Ultrafast in situ formed robust and adhesive photo-crosslinked hydrogel encapsulating curcumin for ulcerative colitis alleviation via regulating inflammation and gut microbiota.	Bai Y, Chen T, Zhang Y, Zhao J, Ren C, Zhao Y, Sun C, Jin Y, Yang Z, Bao B, Lin Q, Zhu L, Yang Y, Yao W, Zou D.	Mater Today Bio	10.1016/j.mtbio.2025.102312	2025
	Natural Products in the Management of Gastroesophageal Reflux Disease: Mechanisms, Efficacy, and Future Directions.	Komolafe K, Komolafe TR, Crown OO, Ajiboye B, Noubissi F, Ogungbe IV, Graham B.	Nutrients	10.3390/nu17061069	2025
	Role of Probiotics in Modulating Human Gut Microbiota Populations and Activities in Patients with Colorectal Cancer-A Systematic Review of Clinical Trials.	Wierzbicka A, Mankowska-Wierzbicka D, Mardas M, Stelmach-Mardas M.	Nutrients	10.3390/nu13041160	2021
	Distribution of Vaginal and Gut Microbiome in Advanced Maternal Age.	Huang Y, Li D, Cai W, Zhu H, Shane MI, Liao C, Pan S.	Front Cell Infect Microbiol	10.3389/fcimb.2022.819802	2022
Phenotype	The Gut Microbiome Modulates Body Temperature Both in Sepsis and Health.	Bongers KS, Chanderraj R, Woods RJ, McDonald RA, Adame MD, Falkowski NR, Brown CA, Baker JM, Winner KM, Fergle DJ, Hinkle KJ, Standke AK, Vendrov KC, Young VB, Stringer KA, Sjoding MW, Dickson RP.	Am J Respir Crit Care Med	10.1164/rccm.202201-0161oc	2023
Phylogeny	Comparison of Changes in Gut Microbiota in Wild Boars and Domestic Pigs Using 16S rRNA Gene and Metagenomics Sequencing Technologies.	Wei L, Zhou W, Zhu Z.	Animals (Basel)	10.3390/ani12172270	2022
Pathogenicity	Roles of Gut Microbiota in the Regulation of Hippocampal Plasticity, Inflammation, and Hippocampus-Dependent Behaviors.	Tang W, Meng Z, Li N, Liu Y, Li L, Chen D, Yang Y.	Front Cell Infect Microbiol	10.3389/fcimb.2020.611014	2020
Pathogenicity	Modulating the Gut-Muscle Axis: Increasing SCFA-Producing Gut Microbiota Commensals and Decreasing Endotoxin Production to Mitigate Cancer Cachexia.	Roy S, Alizadeh Bahmani AH, Davids M, Herrema H, Nieuwdorp M.	Microorganisms	10.3390/microorganisms13061356	2025
	Chemotherapy-induced microbiota exacerbates the toxicity of chemotherapy through the suppression of interleukin-10 from macrophages.	He Z, Xie H, Xu H, Wu J, Zeng W, He Q, Jobin C, Jin S, Lan P.	Gut Microbes	10.1080/19490976.2024.2319511	2024
	Nutritional and functional roles of beta-mannanase on intestinal health and growth of newly weaned pigs fed two different types of feeds.	Baker JT, Deng Z, Sokale A, Frederick B, Kim SW.	J Anim Sci	10.1093/jas/skae206	2024
	The role of the microbiota in myelopoiesis during homeostasis and inflammation.	Kim Y, Kamada N.	Int Immunol	10.1093/intimm/dxad002	2023
	Astragalus mongholicus Bunge and Curcuma aromatica Salisb. modulate gut microbiome and bile acid metabolism to inhibit colon cancer progression.	Wang X, Zhu B, Hua Y, Sun R, Tan X, Chang X, Tang D, Gu J.	Front Microbiol	10.3389/fmicb.2024.1395634	2024
	Alterations in the gut microbiota and serum metabolomics of spontaneous cholestasis caused by loss of FXR signal in mice.	Wei S, He T, Zhao X, Jing M, Li H, Chen L, Zheng R, Zhao Y.	Front Pharmacol	10.3389/fphar.2023.1197847	2023
	Lactobacillus johnsonii L531 Ameliorates Escherichia coli-Induced Cell Damage via Inhibiting NLRP3 Inflammasome Activity and Promoting ATG5/ATG16L1-Mediated Autophagy in Porcine Mammary Epithelial Cells.	Zou YJ, Xu JJ, Wang X, Zhu YH, Wu Q, Wang JF.	Vet Sci	10.3390/vetsci7030112	2020
	Production of probiotic garden cress (Lepidium Sativum) using Bifidobacterium Bifidum and its evaluation of nutritional value, biocontrol and growth rate ability	Shambayati G, Vazifeh M, Hosseini S, Barkousaraei H.	PLoS One		2025
	Maternal Faecalibacterium pathobionts and low-fiber diets synergize to impact offspring health: implications for atopic dermatitis	Lee D, Park J, Park S, Hwang J, Kim S, Kee S, Kim H.	Microbiome		2025
Metabolism	Intestinal Lactobacillus murinus-derived small RNAs target porcine polyamine metabolism.	Fan L, Liu B, Wang Y, Tang B, Xu T, Fu J, Wang C, Liu Y, Ge L, Wei H, Ren W.	Proc Natl Acad Sci U S A	10.1073/pnas.2413241121	2024
	Effects of levodopa on gut bacterial antibiotic resistance in Parkinson's disease rat.	Sheng S, Li X, Zhao S, Zheng C, Zhang F.	Front Aging Neurosci	10.3389/fnagi.2023.1122712	2023
	Immune checkpoint blockade induces gut microbiota translocation that augments extraintestinal antitumor immunity.	Choi Y, Lichterman JN, Coughlin LA, Poulides N, Li W, Del Valle P, Palmer SN, Gan S, Kim J, Zhan X, Gao Y, Evers BM, Hooper LV, Pasare C, Koh AY.	Sci Immunol	10.1126/sciimmunol.abo2003	2023
	Prevention of polymorphic light eruption by oral administration of a nutritional supplement containing lycopene, beta-carotene, and Lactobacillus johnsonii: results from a randomized, placebo-controlled, double-blinded study.	Marini A, Jaenicke T, Grether-Beck S, Le Floc'h C, Cheniti A, Piccardi N, Krutmann J.	Photodermatol Photoimmunol Photomed	10.1111/phpp.12093	2014
Enzymology	Gastric acid inhibitor aggravates indomethacin-induced small intestinal injury via reducing Lactobacillus johnsonii.	Nadatani Y, Watanabe T, Suda W, Nakata A, Matsumoto Y, Kosaka S, Higashimori A, Otani K, Hosomi S, Tanaka F, Nagami Y, Kamata N, Taira K, Yamagami H, Tanigawa T, Hattori M, Fujiwara Y.	Sci Rep	10.1038/s41598-019-53559-7	2019
	Fecal Enterotoxigenic Bacteroides fragilis-Peptostreptococcus stomatis-Parvimonas micra Biomarker for Noninvasive Diagnosis and Prognosis of Colorectal Laterally Spreading Tumor.	Shen X, Li J, Li J, Zhang Y, Li X, Cui Y, Gao Q, Chen X, Chen Y, Fang JY.	Front Oncol	10.3389/fonc.2021.661048	2021
	Dietary Complex Probiotic Supplementation Changed the Composition of Intestinal Short-Chain Fatty Acids and Improved the Average Daily Gain of Growing Pigs.	Wang J, Li S, Tang W, Diao H, Zhang H, Yan H, Liu J.	Vet Sci	10.3390/vetsci10020079	2023
	Modulative effect of Physalis alkekengi on both gut bacterial and fungal micro-ecosystem.	Yang Y, Zhao X, Xie Y, Wu C.	Chin Herb Med	10.1016/j.chmed.2023.02.003	2023
	Faecal microbiota transplantation-mediated jejunal microbiota changes halt high-fat diet-induced obesity in mice via retarding intestinal fat absorption.	Zhu L, Fu J, Xiao X, Wang F, Jin M, Fang W, Wang Y, Zong X.	Microb Biotechnol	10.1111/1751-7915.13951	2022
	Individual and Combined Effects of 2'-Fucosyllactose and Bifidobacterium longum subsp. infantis on the Gut Microbiota Composition of Piglets.	Wang M, Monaco MH, Daniels VC, Hirvonen J, Jensen HM, Ouwehand AC, Mukherjea R, Christensen N, Lehtinen MJ, Hibberd AA, Dilger RN, Donovan SM.	J Nutr	10.1016/j.tjnut.2024.12.022	2025
	Parabacteroides as a promising target for disease intervention: current stage and pending issues.	Liu J, Qiu H, Zhao J, Shao N, Chen C, He Z, Zhao X, Zhao J, Zhou Y, Xu L.	NPJ Biofilms Microbiomes	10.1038/s41522-025-00772-0	2025
Genetics	Deep Investigating the Changes of Gut Microbiome and Its Correlation With the Shifts of Host Serum Metabolome Around Parturition in Sows.	Fu H, He M, Wu J, Zhou Y, Ke S, Chen Z, Liu Q, Liu M, Jiang H, Huang L, Chen C.	Front Microbiol	10.3389/fmicb.2021.729039	2021
	Influence and effect of the human microbiome in allergy and asthma.	Panzer AR, Lynch SV.	Curr Opin Rheumatol	10.1097/bor.0000000000000191	2015
	Endometrial microbiota profile in in-vitro fertilization (IVF) patients by culturomics-based analysis.	Cariati F, Carotenuto C, Bagnulo F, Pacella D, Marrone V, Paolillo R, Catania MR, Di Girolamo R, Conforti A, Strina I, Alviggi C.	Front Endocrinol (Lausanne)	10.3389/fendo.2023.1204729	2023
	Comparative assessment of canine-origin Lactobacillus johnsonii CPN23 and dairy-origin Lactobacillus acidophillus NCDC 15 for nutrient digestibility, faecal fermentative metabolites and selected gut health indices in dogs.	Kumar S, Pattanaik AK, Sharma S, Gupta R, Jadhav SE, Dutta N.	J Nutr Sci	10.1017/jns.2017.35	2017
	Gut microbiota drives structural variation of exogenous probiotics to enhance colonization.	Jiang S, Huang S, Zhang Z, Ma W, Han Z, Song Y, Huo D, Cui W, Zhang J.	Gut Microbes	10.1080/19490976.2025.2503371	2025
	Lactiplantibacillus plantarum-encapsulated microcapsules prepared from okra polysaccharides improved intestinal microbiota in Alzheimer's disease mice.	Hsiao YK, Lee BH, Wu SC.	Front Microbiol	10.3389/fmicb.2024.1305617	2024
	Prophylactic Treatment with Vitamins C and B2 for Methotrexate-Induced Gastrointestinal Mucositis.	da Silva Ferreira AR, Wardill HR, Havinga R, Tissing WJE, Harmsen HJM.	Biomolecules	10.3390/biom11010034	2020
	Obese Ningxiang pig-derived microbiota rewires carnitine metabolism to promote muscle fatty acid deposition in lean DLY pigs.	Yin J, Li Y, Tian Y, Zhou F, Ma J, Xia S, Yang T, Ma L, Zeng Q, Liu G, Yin Y, Huang X.	Innovation (Camb)	10.1016/j.xinn.2023.100486	2023
Pathogenicity	Dynamic response of the intestinal microbiome to Eimeria maxima-induced coccidiosis in chickens.	Liu J, Guo J, Whitmore MA, Tobin I, Kim DM, Zhao Z, Zhang G.	Microbiol Spectr	10.1128/spectrum.00823-24	2024
	H89 Treatment Reduces Intestinal Inflammation and Candida albicans Overgrowth in Mice.	Dumortier C, Charlet R, Bettaieb A, Jawhara S.	Microorganisms	10.3390/microorganisms8122039	2020
	Biodegradable Electrospun PLGA Nanofibers-Encapsulated Trichinella Spiralis Antigens Protect from Relapsing Experimental Autoimmune Encephalomyelitis and Related Gut Microbiota Dysbiosis.	Sabljic L, Radulovic N, Dokic J, Stojanovic DB, Radojevic D, Glamoclija S, Dinic M, Golic N, Vasilev S, Uskokovic P, Sofronic-Milosavljevic L, Gruden-Movsesijan A, Tomic S.	Int J Nanomedicine	10.2147/ijn.s499161	2025
Pathogenicity	Analysis of hepatic transcriptome demonstrates altered lipid metabolism following Lactobacillus johnsonii BS15 prevention in chickens with subclinical necrotic enteritis.	Qing X, Zeng D, Wang H, Ni X, Lai J, Liu L, Khalique A, Pan K, Jing B.	Lipids Health Dis	10.1186/s12944-018-0741-5	2018
Genetics	Dynamic changes in the gut microbiota of SPF Bama piglets during breast and formula feeding.	Zhang C, Liu Z, Yu H, Shen Y, Lu L, Kong F, Sun W, Wei X, Jin L, Ge L, Zeng B.	Front Microbiol	10.3389/fmicb.2025.1537286	2025
Pathogenicity	Effects of dietary inulin supplementation on the composition and dynamics of cecal microbiota and growth-related parameters in broiler chickens.	Xia Y, Kong J, Zhang G, Zhang X, Seviour R, Kong Y.	Poult Sci	10.3382/ps/pez483	2019
	Effects of combined ciprofloxacin and Neulasta therapy on intestinal pathology and gut microbiota after high-dose irradiation in mice.	Horseman TS, Frank AM, Cannon G, Zhai M, Olson MG, Lin B, Li X, Hull L, Xiao M, Kiang JG, Burmeister DM.	Front Public Health	10.3389/fpubh.2024.1365161	2024
Metabolism	Limosilactobacillus reuteri FN041 prevents atopic dermatitis in pup mice by remodeling the ileal microbiota and regulating gene expression in Peyer's patches after vertical transmission.	Zhou J, Xu G, Li X, Tu H, Li H, Chang H, Chen J, Yu R, Qi C, Sun J.	Front Nutr	10.3389/fnut.2022.987400	2022
	Vairimorpha (Nosema) ceranae can promote Serratia development in honeybee gut: an underrated threat for bees?	Braglia C, Alberoni D, Garrido PM, Porrini MP, Baffoni L, Scott D, Eguaras MJ, Di Gioia D, Mifsud D.	Front Cell Infect Microbiol	10.3389/fcimb.2024.1323157	2024
	Decoction derived from Allium ascalonicum L. bulbs and Sojae Semen Praeparatum alleviates wind-cold-type common cold via Nrf2/HO-1 pathway and modulation of Lactobacillus murinus level.	Jiang Y, Wei W, Zhou J, Qiu S, Yang Q, Huo JH, Wang W.	Front Pharmacol	10.3389/fphar.2024.1364328	2024
	ANT(9)-Ic, a Novel Chromosomally Encoded Aminoglycoside Nucleotidyltransferase from Brucella intermedia.	Sheng X, Lu W, Li A, Lu J, Song C, Xu J, Dong Y, Fu C, Lin X, Zhu M, Bao Q, Li K.	Microbiol Spectr	10.1128/spectrum.00620-23	2023
	Lactobacillus delbrueckii subsp. bulgaricus Alleviates Acute Injury in Hypoxic Mice.	Song K, Ling H, Wang L, Tian P, Jin X, Zhao J, Chen W, Wang G, Bi Y.	Nutrients	10.3390/nu16101465	2024
	Functional and mechanistic studies of a phytogenic formulation, Shrimp Best, in growth performance and vibriosis in whiteleg shrimp.	Lee YS, Umam K, Kuo TF, Yang YL, Feng CS, Yang WC.	Sci Rep	10.1038/s41598-024-62436-x	2024
	Redefining Autoimmune Disorders' Pathoetiology: Implications for Mood and Psychotic Disorders' Association with Neurodegenerative and Classical Autoimmune Disorders.	Anderson G, Almulla AF, Reiter RJ, Maes M.	Cells	10.3390/cells12091237	2023
	Multi-omics analysis reveals indicator features of microbe-host interactions during Candida albicans colonization and subsequent infection.	Zhang H, Song D, Luo Q, Yu J, Wei Y, Chen D, Wu G, Zhang Z, Li Z, Jiang H, Gan J, Deng D, Li H, Yuan W.	Front Microbiol	10.3389/fmicb.2024.1476429	2024
	Erwinia tasmaniensis levansucrase shows enantiomer selection for (S)-1,2,4-butanetriol.	Polsinelli I, Salomone-Stagni M, Benini S.	Acta Crystallogr F Struct Biol Commun	10.1107/s2053230x2200680x	2022
	Sleep deprivation-induced anxiety-like behaviors are associated with alterations in the gut microbiota and metabolites.	Zhang N, Gao X, Li D, Xu L, Zhou G, Xu M, Peng L, Sun G, Pan F, Li Y, Ren R, Huang R, Yang Y, Wang Z.	Microbiol Spectr	10.1128/spectrum.01437-23	2024
Metabolism	Immunometabolism of Innate Immune Cells in Gastrointestinal Cancer.	Sieminska I, Lenart M.	Cancers (Basel)	10.3390/cancers17091467	2025
Pathogenicity	Efficacy of Probiotic Compounds in Relieving Constipation and Their Colonization in Gut Microbiota.	He Y, Zhu L, Chen J, Tang X, Pan M, Yuan W, Wang H.	Molecules	10.3390/molecules27030666	2022
	Gut microbiota derived indole-3-acetic acid ameliorates precancerous inflammatory intestinal milieu to inhibit tumorigenesis through IL-35.	Wang J, Hao Y, Yang Y, Zhang Y, Xu C, Yang R.	J Immunother Cancer	10.1136/jitc-2024-011155	2025
	Implications and Mechanisms of Antiviral Effects of Lactic Acid Bacteria: A Systematic Review.	Farahmandi F, Parhizgar P, Mozafari Komesh Tape P, Bizhannia F, Rohani FS, Bizhanzadeh M, Mostafavi Alhosseini ZS, Hosseinzade M, Farsi Y, Nasiri MJ.	Int J Microbiol	10.1155/2023/9298363	2023
Metabolism	A Comprehensive Analysis of the Colonic Flora Diversity, Short Chain Fatty Acid Metabolism, Transcripts, and Biochemical Indexes in Heat-Stressed Pigs.	Hu C, Niu X, Chen S, Wen J, Bao M, Mohyuddin SG, Yong Y, Liu X, Wu L, Yu Z, Ma X, Ju X.	Front Immunol	10.3389/fimmu.2021.717723	2021
	Lactobacillus johnsonii BS15 Prevents Psychological Stress-Induced Memory Dysfunction in Mice by Modulating the Gut-Brain Axis.	Wang H, Sun Y, Xin J, Zhang T, Sun N, Ni X, Zeng D, Bai Y.	Front Microbiol	10.3389/fmicb.2020.01941	2020
	Effects of Lactiplantibacillus plantarum on oxidative stress, mitophagy, and NLRP3 inflammasome activation in broiler breast meat.	Yuan J, Zhao F, Liu Y, Liu H, Zhang K, Tian X, Mu Y, Zhao J, Wang Y.	Poult Sci	10.1016/j.psj.2023.103128	2023
	Production and characterization of microbial levan using sugarcane (Saccharum spp.) juice and chicken feather peptone as a low-cost alternate medium.	Veerapandian B, Shanmugam SR, Sivaraman S, Sriariyanun M, Karuppiah S, Venkatachalam P.	Heliyon	10.1016/j.heliyon.2023.e17424	2023
	Evaluation of Tetracycline Resistance and Determination of the Tentative Microbiological Cutoff Values in Lactic Acid Bacterial Species.	Ma Q, Pei Z, Fang Z, Wang H, Zhu J, Lee YK, Zhang H, Zhao J, Lu W, Chen W.	Microorganisms	10.3390/microorganisms9102128	2021
	The impact of wild-boar-derived microbiota transplantation on piglet microbiota, metabolite profile, and gut proinflammatory cytokine production differs from sow-derived microbiota.	Rahman R, Fouhse JM, Ju T, Fan Y, Bhardwaj T, Brook RK, Nosach R, Harding J, Willing BP.	Appl Environ Microbiol	10.1128/aem.02265-24	2025
	Analysis of Probiotic Bacteria Genomes: Comparison of CRISPR/Cas Systems and Spacer Acquisition Diversity.	Kahraman Ilikkan O.	Indian J Microbiol	10.1007/s12088-021-00971-1	2022
Pathogenicity	Penthorum chinense Pursh improves type 2 diabetes mellitus via modulating gut microbiota in db/db mice.	Hu J, Xie H, Lin N, Yang Y.	BMC Complement Med Ther	10.1186/s12906-023-04136-z	2023
Pathogenicity	Immunomodulatory Effects of a Probiotic Mixture: Alleviating Colitis in a Mouse Model through Modulation of Cell Activation Markers and the Gut Microbiota.	Ryu HM, Islam SMS, Riaz B, Sayeed HM, Choi B, Sohn S.	Int J Mol Sci	10.3390/ijms25168571	2024
	Akkermansia muciniphila: new insights into resistance to gastrointestinal stress, adhesion, and protein interaction with human mucins through optimised in vitro trials and bioinformatics tools.	Vergalito F, Bagnoli D, Maiuro L, Pannella G, Palombo V, Testa B, Coppola F, Di Marco RMA, Tremonte P, Lombardi SJ, Iorizzo M, Coppola R, Succi M.	Front Microbiol	10.3389/fmicb.2024.1462220	2024
	Impact of Pediococcus acidilactici GLP06 supplementation on gut microbes and metabolites in adult beagles: a comparative analysis.	Zhao M, Zhang Y, Li Y, Liu K, Bao K, Li G.	Front Microbiol	10.3389/fmicb.2024.1369402	2024
Genetics	Salidroside ameliorates memory impairment following long-term ethanol intake in rats by modulating the altered intestinal microbiota content and hippocampal gene expression.	Jiao Y, Zhao Z, Li X, Li L, Xiao D, Wan S, Wu T, Li T, Li P, Zhao R.	Front Microbiol	10.3389/fmicb.2023.1172936	2023
	Bile acid is a responsible host factor for high-fat diet-induced gut microbiota alterations in rats: proof of the "bile acid hypothesis".	Watanabe M, Fujita Y, Hagio M, Ishizuka S, Ogura Y, Hayashi T, Fukiya S, Yokota A.	Biosci Microbiota Food Health	10.12938/bmfh.2024-042	2025
	The Effect of Exogenous Bile Acids on Antioxidant Status and Gut Microbiota in Heat-Stressed Broiler Chickens.	Yin C, Xia B, Tang S, Cao A, Liu L, Zhong R, Chen L, Zhang H.	Front Nutr	10.3389/fnut.2021.747136	2021
	Beneficial Bacteria and Plant Extracts Promote Honey Bee Health and Reduce Nosema ceranae Infection.	Garrido PM, Porrini MP, Alberoni D, Baffoni L, Scott D, Mifsud D, Eguaras MJ, Di Gioia D.	Probiotics Antimicrob Proteins	10.1007/s12602-022-10025-7	2024
Metabolism	Intestinal bacterial indicator phylotypes associate with impaired DNA double-stranded break sensors but augmented skeletal bone micro-structure.	Maier I, Liu J, Ruegger PM, Deutschmann J, Patsch JM, Helbich TH, Borneman J, Schiestl RH.	Carcinogenesis	10.1093/carcin/bgz204	2020
	Modulation of the Gut Microbiota Alters the Tumour-Suppressive Efficacy of Tim-3 Pathway Blockade in a Bacterial Species- and Host Factor-Dependent Manner.	Lee B, Lee J, Woo MY, Lee MJ, Shin HJ, Kim K, Park S.	Microorganisms	10.3390/microorganisms8091395	2020
	Safety Evaluation of an Intranasally Applied Cocktail of Lactococcus lactis Strains in Pigs	Rattigan R, Wajda L, Vlasblom A, Wolfe A, Zomer A, Duim B, Wagenaar J, Lawlor P.	Animals (Basel)		2023
	Gasdermin D promotes development of intestinal tumors through regulating IL-1beta release and gut microbiota composition.	Gao H, Li W, Xu S, Xu Z, Hu W, Pan L, Luo K, Xie T, Yu Y, Sun H, Huang L, Chen P, Wu J, Yang D, Li L, Luan S, Cao M, Chen P.	Cell Commun Signal	10.1186/s12964-024-01890-6	2024
	The gut microbiome and antibiotic resistome of chronic diarrhea rhesus macaques (Macaca mulatta) and its similarity to the human gut microbiome.	Yang S, Liu Y, Yang N, Lan Y, Lan W, Feng J, Yue B, He M, Zhang L, Zhang A, Price M, Li J, Fan Z.	Microbiome	10.1186/s40168-021-01218-3	2022
	Integrating immunotherapy with conventional treatment regime for breast cancer patients- an amalgamation of armamentarium.	Nandi D, Sharma D.	Front Immunol	10.3389/fimmu.2024.1477980	2024
Metabolism	The TLR3/TICAM-1 signal constitutively controls spontaneous polyposis through suppression of c-Myc in Apc ^Min/+ mice.	Ono J, Shime H, Takaki H, Takashima K, Funami K, Yoshida S, Takeda Y, Matsumoto M, Kasahara M, Seya T.	J Biomed Sci	10.1186/s12929-017-0387-z	2017
	Modulation of the gut microbiome with nisin.	O'Reilly C, Grimaud GM, Coakley M, O'Connor PM, Mathur H, Peterson VL, O'Donovan CM, Lawlor PG, Cotter PD, Stanton C, Rea MC, Hill C, Ross RP.	Sci Rep	10.1038/s41598-023-34586-x	2023
	Effects of xylanase, protease, and xylo-oligosaccharides on growth performance, nutrient utilization, short chain fatty acids, and microbiota in Eimeria-challenged broiler chickens fed high fiber diet.	Lin Y, Lourenco JM, Olukosi OA.	Anim Nutr	10.1016/j.aninu.2023.08.009	2023
	Evaluation of the Difference in the Content of Essential and Non-Essential Elements in Wild Boar and Swine Tissues Sampled in the Same Area of Northern Italy.	Draghi S, Spinelli M, Fontanarosa C, Curone G, Amoresano A, Pignoli E, Cagnardi P, Vigo D, Arioli F, Materazzi S, Risoluti R, Di Cesare F.	Animals (Basel)	10.3390/ani14060827	2024
Enzymology	Lactobacillus johnsonii inhibits indoleamine 2,3-dioxygenase and alters tryptophan metabolite levels in BioBreeding rats.	Valladares R, Bojilova L, Potts AH, Cameron E, Gardner C, Lorca G, Gonzalez CF.	FASEB J	10.1096/fj.12-223339	2013
	The Role of Tumor and Host Microbiome on Immunotherapy Response in Urologic Cancers.	Pfail J, Drobner J, Doppalapudi K, Saraiya B, Packiam V, Ghodoussipour S.	J Cancer Immunol (Wilmington)	10.33696/cancerimmunol.6.078	2024
	Lactiplantibacillus argentoratensis AGMB00912 alleviates diarrhea and promotes the growth performance of piglets during the weaning transition.	Yoon KN, Choi YH, Keum GB, Yeom SJ, Kim SS, Kim ES, Park HJ, Kim JE, Park JH, Song BS, Eun JB, Park SH, Lee JH, Lee JH, Kim HB, Kim JK.	BMC Microbiol	10.1186/s12866-024-03536-6	2024
Pathogenicity	Akkermansia muciniphila exacerbates acute radiation-induced intestinal injury by depleting mucin and enhancing inflammation.	Wang Y, Wang X, Chen Z, Zheng J, Liu X, Zheng Y, Zheng Z, Xu Z, Zhang Y, Chen K, Zhang Y, Yu L, Ding Y.	ISME J	10.1093/ismejo/wraf084	2025
Metabolism	Identification and characterization of intestinal lactobacilli strains capable of degrading immunotoxic peptides present in gluten.	Duar RM, Clark KJ, Patil PB, Hernandez C, Bruning S, Burkey TE, Madayiputhiya N, Taylor SL, Walter J.	J Appl Microbiol	10.1111/jam.12687	2015
	Exploitation of Skin Microbiota in Wound Healing: Perspectives During Space Missions.	Marvasi M, Monici M, Pantalone D, Cavalieri D.	Front Bioeng Biotechnol	10.3389/fbioe.2022.873384	2022
	Exploring bioactive molecules released during inter- and intraspecific competition: A paradigm for novel antiparasitic drug discovery and design for human use.	Ruenchit P.	Curr Res Parasitol Vector Borne Dis	10.1016/j.crpvbd.2025.100256	2025
Metabolism	Hydrolysis of chicoric and caftaric acids with esterases and Lactobacillus johnsonii in Vitro and in a gastrointestinal model.	Bel-Rhlid R, Page-Zoerkler N, Fumeaux R, Ho-Dac T, Chuat JY, Sauvageat JL, Raab T.	J Agric Food Chem	10.1021/jf301317h	2012
	Lyophyllum decastes-derived polysaccharides alleviate DSS-induced colitis in mice by suppressing inflammation, enhancing intestinal barrier integrity, and restoring gut microbiota homeostasis.	Ghaleb E, Alioui Y, Yazeed J, Wahan N, Bashah A, Al-Waqeerah A, Atta A, Sun Y, Xin Y, Wang L, Feng B, Mao W.	Front Pharmacol	10.3389/fphar.2025.1644325	2025
Pathogenicity	The Interplay between the Gut and Ketogenic Diets in Health and Disease.	Mu C, Rho JM, Shearer J.	Adv Sci (Weinh)	10.1002/advs.202504249	2025
	Effects of red ginseng on gut, microbiota, and brain in a mouse model of post-infectious irritable bowel syndrome.	Yu S, Chun E, Ji Y, Lee YJ, Jin M.	J Ginseng Res	10.1016/j.jgr.2021.03.008	2021
Pathogenicity	Targeting IL-23 for the interception of obesity-associated colorectal cancer.	Madka V, Chiliveru S, Panneerselvam J, Pathuri G, Zhang Y, Stratton N, Kumar N, Sanghera DK, Rao CV.	Neoplasia	10.1016/j.neo.2023.100939	2023
	Heat-Killed Lactobacillus salivarius and Lactobacillus johnsonii Reduce Liver Injury Induced by Alcohol In Vitro and In Vivo.	Chuang CH, Tsai CC, Lin ES, Huang CS, Lin YY, Lan CC, Huang CC.	Molecules	10.3390/molecules21111456	2016
	Stingless Bee Honey: Evaluating Its Antibacterial Activity and Bacterial Diversity.	Rosli FN, Hazemi MHF, Akbar MA, Basir S, Kassim H, Bunawan H.	Insects	10.3390/insects11080500	2020
Metabolism	Improved bioavailability of dietary phenolic acids in whole grain barley and oat groat following fermentation with probiotic Lactobacillus acidophilus , Lactobacillus johnsonii , and Lactobacillus reuteri.	Hole AS, Rud I, Grimmer S, Sigl S, Narvhus J, Sahlstrom S.	J Agric Food Chem	10.1021/jf300410h	2012
	In ovo supplementation of chitooligosaccharide and chlorella polysaccharide affects cecal microbial community, metabolic pathways, and fermentation metabolites in broiler chickens.	Zhang J, Cai K, Mishra R, Jha R.	Poult Sci	10.1016/j.psj.2020.06.061	2020
Pathogenicity	Treatment with the Probiotic Product Aviguard^® Alleviates Inflammatory Responses during Campylobacter jejuni-Induced Acute Enterocolitis in Mice.	Heimesaat MM, Weschka D, Mousavi S, Bereswill S.	Int J Mol Sci	10.3390/ijms22136683	2021
	Exploring the Immunological Role of the Microbial Composition of the Appendix and the Associated Risks of Appendectomies.	Islam T, Sagor MS, Tamanna NT, Bappy MKI, Danishuddin, Haque MA, Lackner M.	J Pers Med	10.3390/jpm15030112	2025
	Dissecting the Effect of Berberine on the Intestinal Microbiome in the Weaned Piglets by Metagenomic Sequencing.	Hu H, Xu K, Wang K, Zhang F, Bai X.	Front Microbiol	10.3389/fmicb.2022.862882	2022
Genetics	A catalog of microbial genes and metagenome-assembled genomes from the quail gut microbiome.	Xiong X, Rao Y, Ma J, Wang Z, He Q, Gong J, Sheng W, Xu J, Zhu X, Tan Y, Yang Y.	Poult Sci	10.1016/j.psj.2023.102931	2023
Pathogenicity	Positive impact of indicaxanthin from Opuntia ficus-indica fruit on high-fat diet-induced neuronal damage and gut microbiota dysbiosis.	Terzo S, Amato A, Calvi P, Giardina M, Nuzzo D, Picone P, Palumbo-Piccionello A, Amata S, Giardina IC, Massaro A, Restivo I, Attanzio A, Tesoriere L, Allegra M, Mule F.	Neural Regen Res	10.4103/nrr.nrr-d-23-02039	2026
	Grass hay mixed-in creep feed or separately-fed differentially affects digestive development in pre- and post-weaning piglets.	Yao R, Hulshof TG, van Hees HMJ, Cools A, Merckx M, Maes D, Janssens GPJ.	J Anim Sci Biotechnol	10.1186/s40104-025-01227-4	2025
	Dysbiosis of the Gut Microbiota and Kynurenine (Kyn) Pathway Activity as Potential Biomarkers in Patients with Major Depressive Disorder.	Lin P, Li D, Shi Y, Li Q, Guo X, Dong K, Chen Q, Lou X, Li Z, Li P, Jin W, Chen S, Sun Y, Sun J, Cheng X.	Nutrients	10.3390/nu15071752	2023
	Excess dietary fructose does not alter gut microbiota or permeability in humans: A pilot randomized controlled study.	Aleman JO, Henderson WA, Walker JM, Ronning A, Jones DR, Walter PJ, Daniel SG, Bittinger K, Vaughan R, MacArthur R, Chen K, Breslow JL, Holt PR.	J Clin Transl Sci	10.1017/cts.2021.801	2021
	Distinct signatures of gut microbiota and metabolites in primary biliary cholangitis with poor biochemical response after ursodeoxycholic acid treatment.	Han W, Song T, Huang Z, Liu Y, Xu B, Huang C.	Cell Biosci	10.1186/s13578-024-01253-1	2024
	Fecal microbial and metabolic characteristics of swine from birth to market.	He H, Yang M, Li W, Lu Z, Wang Y, Jin M.	Front Microbiol	10.3389/fmicb.2023.1191392	2023
	Effects of Interactions between Feeding Patterns and the Gut Microbiota on Pig Reproductive Performance.	Wang M, Yue J, Lv G, Wang Y, Guo A, Liu Z, Yu T, Yang G.	Animals (Basel)	10.3390/ani14182714	2024
	Gut microbiota-derived tryptophan metabolites improve total parenteral nutrition-associated infections by regulating Group 3 innate lymphoid cells.	Huang L, Wang P, Liu S, Deng G, Qi X, Sun G, Gao X, Zhang L, Zhang Y, Xiao Y, Gao T, Maitiabula G, Wang X.	Imeta	10.1002/imt2.70007	2025
Phylogeny	Obesity Modulates the Gut Microbiome in Triple-Negative Breast Cancer.	Hossain F, Majumder S, David J, Bunnell BA, Miele L.	Nutrients	10.3390/nu13103656	2021
	Animal Models of Cognitive Deficits for Probiotic Treatment.	Kwon OY, Lee SH.	Food Sci Anim Resour	10.5851/kosfa.2022.e45	2022
Genetics	Comparative genomics of Lactobacillaceae from the gut of honey bees, Apis mellifera, from the Eastern United States.	Bradford EL, Wax N, Bueren EK, Walke JB, Fell R, Belden LK, Haak DC.	G3 (Bethesda)	10.1093/g3journal/jkac286	2022
	Lactiplantibacillus plantarum LPJZ-658 Improves Non-Alcoholic Steatohepatitis by Modulating Bile Acid Metabolism and Gut Microbiota in Mice.	Liu L, Deng L, Wei W, Li C, Lu Y, Bai J, Li L, Zhang H, Jin N, Li C, Zhao C.	Int J Mol Sci	10.3390/ijms241813997	2023
	Influence of encapsulation on the survival of probiotics in food matrix under simulated stress conditions.	Afzaal M, Saeed F, Hussain M, Ismail Z, Siddeeg A, Al-Farga A, Aljobair MO.	Saudi J Biol Sci	10.1016/j.sjbs.2022.103394	2022
	Eradication of Helicobacter pylori infection by the probiotic strains Lactobacillus johnsonii MH-68 and L. salivarius ssp. salicinius AP-32.	Hsieh PS, Tsai YC, Chen YC, Teh SF, Ou CM, King VA.	Helicobacter	10.1111/j.1523-5378.2012.00992.x	2012
	Functional Modulation of Gut Microbiota and Blood Parameters in Diabetic Rats Following Dietary Intervention with Free or Immobilized Pediococcus acidilactici SK Cells on Pistachio Nuts.	Prapa I, Yanni AE, Kompoura V, Mitropoulou G, Panas P, Kostomitsopoulos N, Kourkoutas Y.	Nutrients	10.3390/nu16234221	2024
Metabolism	Lactobacillus gasseri requires peptides, not proteins or free amino acids, for growth in milk.	Arakawa K, Matsunaga K, Takihiro S, Moritoki A, Ryuto S, Kawai Y, Masuda T, Miyamoto T.	J Dairy Sci	10.3168/jds.2014-8860	2015
Pathogenicity	Gut microbiota-derived short-chain fatty acids mediate the antifibrotic effects of traditional Chinese medicine in diabetic nephropathy.	Jiang H, Wang X, Zhou W, Huang Z, Zhang W.	Front Endocrinol (Lausanne)	10.3389/fendo.2025.1643515	2025
	Gut Microbiota and Targeted Biomarkers Analysis in Patients With Cognitive Impairment.	Lu S, Yang Y, Xu Q, Wang S, Yu J, Zhang B, Wang Z, Zhang Y, Lu W, Hong K.	Front Neurol	10.3389/fneur.2022.834403	2022
Genetics	Detection of a Novel, and Likely Ancestral, Tn916-Like Element from a Human Saliva Metagenomic Library.	Reynolds LJ, Anjum MF, Roberts AP.	Genes (Basel)	10.3390/genes11050548	2020
	Specific microbiome patterns and their association with breast cancer: the intestinal microbiota as a potential biomarker and therapeutic strategy.	Amaro-da-Cruz A, Rubio-Tomas T, Alvarez-Mercado AI.	Clin Transl Oncol	10.1007/s12094-024-03554-w	2025
	Pharmacological Efficacy of Probiotics in Respiratory Viral Infections: A Comprehensive Review.	Wahab S, Almaghaslah D, Mahmood SE, Ahmad MF, Alsayegh AA, Abu Haddash YM, Rahman MA, Ahamd I, Ahmad W, Khalid M, Usmani S, Ahmad MP, Hani U.	J Pers Med	10.3390/jpm12081292	2022
	Screening of Lactobacillus strains of domestic goose origin against bacterial poultry pathogens for use as probiotics.	Dec M, Puchalski A, Urban-Chmiel R, Wernicki A.	Poult Sci	10.3382/ps.2014-04025	2014
	Chlorogenic Acid Inhibits Rahnella aquatilis KM25 Growth and Proteolytic Activity in Fish-Based Products.	Myszka K, Tomas N, Juzwa W, Wolko L.	Microorganisms	10.3390/microorganisms11061367	2023
Phylogeny	Isolation and Characterization of Human Intestinal Bacteria Cytobacillus oceanisediminis NB2 for Probiotic Potential.	Yadav M, Kumar T, Kanakan A, Maurya R, Pandey R, Chauhan NS.	Front Microbiol	10.3389/fmicb.2022.932795	2022
	_D-Tryptophan suppresses enteric pathogen and pathobionts and prevents colitis by modulating microbial tryptophan metabolism.	Seki N, Kimizuka T, Gondo M, Yamaguchi G, Sugiura Y, Akiyama M, Yakabe K, Uchiyama J, Higashi S, Haneda T, Suematsu M, Hase K, Kim YG.	iScience	10.1016/j.isci.2022.104838	2022
	Sex-dependent circadian alterations of both central and peripheral clock genes expression and gut-microbiota composition during activity-based anorexia in mice.	Salaun C, Courvalet M, Rousseau L, Cailleux K, Breton J, Bole-Feysot C, Guerin C, Hure M, Goichon A, do Rego JC, Dechelotte P, Ribet D, Achamrah N, Coeffier M.	Biol Sex Differ	10.1186/s13293-023-00576-x	2024
	Impact of proton pump inhibitors on the risk of small bowel or colorectal bleeding: A systematic review and meta-analysis.	Jung YS, Park JH, Park CH.	United European Gastroenterol J	10.1002/ueg2.12448	2023
	Gut microbiota dysbiosis deteriorates immunoregulatory effects of tryptophan via colonic indole and LBP/HTR2B-mediated macrophage function.	Jiang L, Hao Y, Han D, Dong W, Yang A, Sun Z, Ge Y, Duan S, Zhang X, Dai Z.	ISME J	10.1093/ismejo/wrae166	2024
	Conditional Vitamin D Receptor Deletion Induces Fungal and Archaeal Dysbiosis and Altered Metabolites.	Claypool DJ, Zhang YG, Xia Y, Sun J.	Metabolites	10.3390/metabo14010032	2024
	A consortium of seven commensal bacteria promotes gut microbiota recovery and strengthens ecological barrier against vancomycin-resistant enterococci.	Jan A, Bayle P, Mohellibi N, Lemoine C, Pepke F, Beguet-Crespel F, Jouanin I, Tremblay-Franco M, Laroche B, Serror P, Rigottier-Gois L.	Microbiome	10.1186/s40168-025-02127-5	2025
	Analysis of the microbial ecology between Helicobacter pylori and the gastric microbiota of Mongolian gerbils.	Zaman C, Osaki T, Hanawa T, Yonezawa H, Kurata S, Kamiya S.	J Med Microbiol	10.1099/jmm.0.061135-0	2014
	Ingestion of Faecalibaculum rodentium causes depression-like phenotypes in resilient Ephx2 knock-out mice: A role of brain-gut-microbiota axis via the subdiaphragmatic vagus nerve.	Wang S, Ishima T, Qu Y, Shan J, Chang L, Wei Y, Zhang J, Pu Y, Fujita Y, Tan Y, Wang X, Ma L, Wan X, Hammock BD, Hashimoto K.	J Affect Disord	10.1016/j.jad.2021.06.006	2021
	A key role of the subdiaphragmatic vagus nerve in the depression-like phenotype and abnormal composition of gut microbiota in mice after lipopolysaccharide administration.	Zhang J, Ma L, Chang L, Pu Y, Qu Y, Hashimoto K.	Transl Psychiatry	10.1038/s41398-020-00878-3	2020
	Insights into the Role of Natural Products in the Control of the Honey Bee Gut Parasite (Nosema spp.).	El-Seedi HR, El-Wahed AAA, Naggar YA, Saeed A, Xiao J, Ullah H, Musharraf SG, Boskabady MH, Cao W, Guo Z, Daglia M, El Wakil A, Wang K, Khalifa SAM.	Animals (Basel)	10.3390/ani12213062	2022
	Prior exposure to microcystin alters host gut resistome and is associated with dysregulated immune homeostasis in translatable mouse models.	Saha P, Bose D, Stebliankin V, Cickovski T, Seth RK, Porter DE, Brooks BW, Mathee K, Narasimhan G, Colwell R, Scott GI, Chatterjee S.	Sci Rep	10.1038/s41598-022-15708-3	2022
Metabolism	Preventing subclinical necrotic enteritis through Lactobacillus johnsonii BS15 by ameliorating lipid metabolism and intestinal microflora in broiler chickens.	Qing X, Zeng D, Wang H, Ni X, Liu L, Lai J, Khalique A, Pan K, Jing B.	AMB Express	10.1186/s13568-017-0439-5	2017
	Evidence of the Beneficial Impact of Three Probiotic-Based Food Supplements on the Composition and Metabolic Activity of the Intestinal Microbiota in Healthy Individuals: An Ex Vivo Study.	Sanchez MC, Herraiz A, Tigre S, Llama-Palacios A, Hernandez M, Ciudad MJ, Collado L.	Nutrients	10.3390/nu15245077	2023
Pathogenicity	Age and Giardia intestinalis Infection Impact Canine Gut Microbiota.	Boucard AS, Thomas M, Lebon W, Polack B, Florent I, Langella P, Bermudez-Humaran LG.	Microorganisms	10.3390/microorganisms9091862	2021
	What's eating you? An update on Giardia, the microbiome and the immune response.	Singer SM, Angelova VV, DeLeon H, Miskovsky E.	Curr Opin Microbiol	10.1016/j.mib.2020.09.006	2020
	The gut microbiotas with metabolites regulate the protective role of miR-30a-5p in myocardial infarction.	Wang R, Chen RL, Wu C, Zhang XC, Wu WY, Dai C, Wang Y, Li G.	J Adv Res	10.1016/j.jare.2024.10.017	2025
Genetics	Sex-specific associations between AD genotype and the microbiome of human amyloid beta knock-in (hAbeta-KI) mice.	Dunham SJB, Avelar-Barragan J, Rothman JA, Adams ED, Faraci G, Forner S, Kawauchi S, Tenner AJ, Green KN, LaFerla FM, MacGregor GR, Mapstone M, Whiteson KL.	Alzheimers Dement	10.1002/alz.13794	2024
	Screening of Potential Probiotic Lactobacillaceae and Their Improvement of Type 2 Diabetes Mellitus by Promoting PI3K/AKT Signaling Pathway in db/db Mice.	Li Y, Tong T, Li P, Peng Y, Zhang M, Liu J, She Y, Li Z, Li Y.	Pol J Microbiol	10.33073/pjm-2023-028	2023
	Effects of Bacillus licheniformis on the Growth Performance, Antioxidant Capacity, Ileal Morphology, Intestinal Short Chain Fatty Acids, and Colonic Microflora in Piglets Challenged with Lipopolysaccharide.	Cao G, Yang S, Wang H, Zhang R, Wu Y, Liu J, Qiu K, Dong Y, Yue M.	Animals (Basel)	10.3390/ani13132172	2023
	Jiedu-Yizhi Formula Alleviates Neuroinflammation in AD Rats by Modulating the Gut Microbiota.	Wang J, Zhu X, Li Y, Guo W, Li M.	Evid Based Complement Alternat Med	10.1155/2022/4023006	2022
Enzymology	Enhanced expression of fucosyl GA1 in the digestive tract of immune-deficient scid, nude and pIgR(-/-) mice.	Iwamori M, Iwamori Y, Matsumoto S, Adachi S, Nomura T.	J Biochem	10.1093/jb/mvt087	2013
Phylogeny	Gut Microbial Diversity Analysis of Different Native Chickens and Screening of Chicken-Derived Probiotics.	Chen L, Bai X, Wang T, Liu J, Miao X, Zeng B, Li D.	Animals (Basel)	10.3390/ani13233672	2023
	Fungi in the Gut Microbiota: Interactions, Homeostasis, and Host Physiology.	Liu HY, Li S, Ogamune KJ, Ahmed AA, Kim IH, Zhang Y, Cai D.	Microorganisms	10.3390/microorganisms13010070	2025
Phylogeny	Identification of Lactobacillus strains of goose origin using MALDI-TOF mass spectrometry and 16S-23S rDNA intergenic spacer PCR analysis.	Dec M, Urban-Chmiel R, Gnat S, Puchalski A, Wernicki A.	Res Microbiol	10.1016/j.resmic.2014.02.003	2014
	Modeling the weaning diet of piglets with fermented feed material: effects on growth performance and health parameters.	Badaras S, Starkute V, Mockus E, Ruzauskas M, Klupsaite D, Mozuriene E, Dailidaviciene J, Dauksiene A, Vadopalas L, Metzler-Zebeli BU, Bartkiene E.	Front Vet Sci	10.3389/fvets.2025.1616209	2025
	Lactobacillus Cell Surface Proteins Involved in Interaction with Mucus and Extracellular Matrix Components.	Muscariello L, De Siena B, Marasco R.	Curr Microbiol	10.1007/s00284-020-02243-5	2020
	[Probiotic baths for atopic dermatitis].	Axt-Gadermann M, Chudomirova K, Noll M.	Hautarzt	10.1007/s00105-021-04789-2	2021
	Detoxification of Acrylamide by Potentially Probiotic Strains of Lactic Acid Bacteria and Yeast.	Maher A, Miskiewicz K, Rosicka-Kaczmarek J, Nowak A.	Molecules	10.3390/molecules29204922	2024
Metabolism	Effects of a yeast-dried milk product in creep and phase-1 nursery diets on growth performance, circulating immunoglobulin A, and fecal microbiota of nursing and nursery pigs.	Tran H, Bundy JW, Hinkle EE, Walter J, Burkey TE, Miller PS.	J Anim Sci	10.2527/jas.2014-7574	2014
Pathogenicity	Antibiotic-induced microbiome depletion protects against MPTP-induced dopaminergic neurotoxicity in the brain.	Pu Y, Chang L, Qu Y, Wang S, Zhang K, Hashimoto K.	Aging (Albany NY)	10.18632/aging.102221	2019
Phylogeny	Apilactobacillus kunkeei Alleviated Toxicity of Acetamiprid in Honeybee.	Liu P, Niu J, Zhu Y, Li Z, Ye L, Cao H, Shi T, Yu L.	Insects	10.3390/insects13121167	2022
Genetics	Design of Multi-Epitope Vaccine for Staphylococcus saprophyticus: Pan-Genome and Reverse Vaccinology Approach.	Yousaf M, Ullah A, Sarosh N, Abbasi SW, Ismail S, Bibi S, Hasan MM, Albadrani GM, Talaat Nouh NA, Abdulhakim JA, Abdel-Daim MM, Bin Emran T.	Vaccines (Basel)	10.3390/vaccines10081192	2022
	Crosstalk between metabolic reprogramming and microbiota: implications for cancer progression and novel therapeutic opportunities	Li X, Jia Y, Li Y, Hei H, Zhang S, Qin J.	Front Immunol		2025
	Influence of Lactobacillus casei WB 315 and crude fish oil (CFO) on growth performance, EPA, DHA, HDL, LDL, cholesterol of meat broiler chickens.	Yulianto AB, Lokapirnasari WP, Najwan R, Wardhani HCP, Rahman NFN, Huda K, Ulfah N.	Iran J Microbiol	10.18502/ijm.v12i2.2620	2020
	Effects of Intranasal Pseudorabies Virus AH02LA Infection on Microbial Community and Immune Status in the Ileum and Colon of Piglets.	Zhang C, Liu Y, Chen S, Qiao Y, Zheng Y, Xu M, Wang Z, Hou J, Wang J, Fan H.	Viruses	10.3390/v11060518	2019
	Genomic and transcriptomic analysis of Ligilactobacillus salivarius IBB3154-in search of new promoters for vaccine construction.	Kobierecka P, Wyszynska A, Aleksandrzak-Piekarczyk T, Salanska A, Gawor J, Bardowski J, Jagusztyn Krynicka KE.	Microbiol Spectr	10.1128/spectrum.02844-23	2023
	Therapeutic and protective approaches to combat Campylobacter jejuni infections.	Sharafutdinov I, Linz B, Tegtmeyer N, Backert S.	Front Pharmacol	10.3389/fphar.2025.1572616	2025
	The effect of Lactobacillus johnsonii Ncc533 (La1) on the balance of Th1/Th2 cells in BALB/c mice.	Yang J, Li W, Sun R, Li B.	Clin Invest Med	10.25011/cim.v34i4.15369	2011
	Comparison of Enzyme Secretion and Ferulic Acid Production by Escherichia coli Expressing Different Lactobacillus Feruloyl Esterases.	Xu Z, Kong J, Zhang S, Wang T, Liu X.	Front Microbiol	10.3389/fmicb.2020.568716	2020
	Antagonistic Interactions of Lactic Acid Bacteria from Human Oral Microbiome against Streptococcus mutans and Candida albicans.	Atanasov N, Evstatieva Y, Nikolova D.	Microorganisms	10.3390/microorganisms11061604	2023
	Differentiating between Enterococcusfaecium and Enterococcuslactis by Matrix-Assisted Laser Desorption Ionization Time-of-Flight Mass Spectrometry.	Kim E, Yang SM, Kim HJ, Kim HY.	Foods	10.3390/foods11071046	2022
Phylogeny	Changes of gut microbiota in patients at different phases of stroke.	Cui W, Xu L, Huang L, Tian Y, Yang Y, Li Y, Yu Q.	CNS Neurosci Ther	10.1111/cns.14271	2023
	Diet replacement with whole insect larvae affects intestinal morphology and microbiota of broiler chickens.	Vasilopoulos S, Giannenas I, Mellidou I, Stylianaki I, Antonopoulou E, Tzora A, Skoufos I, Athanassiou CG, Papadopoulos E, Fortomaris P.	Sci Rep	10.1038/s41598-024-54184-9	2024
Enzymology	The lactate dehydrogenase gene is involved in the growth and metabolism of Lacticaseibacillus paracasei and the production of fermented milk flavor substances.	Fang S, Song X, Cui L, Bai J, Lu H, Wang S.	Front Microbiol	10.3389/fmicb.2023.1195360	2023
	Exploring the dark side of probiotics to pursue light: Intrinsic and extrinsic risks to be opportunistic pathogens.	Xu R, Yu Y, Chen T.	Curr Res Food Sci	10.1016/j.crfs.2025.101044	2025
	Oral Administration of a Select Mixture of Lactobacillus and Bacillus Alleviates Inflammation and Maintains Mucosal Barrier Integrity in the Ileum of Pigs Challenged with Salmonella Infantis.	Liu X, Xia B, He T, Li D, Su JH, Guo L, Wang JF, Zhu YH.	Microorganisms	10.3390/microorganisms7050135	2019
	Milk phospholipids protect Bifidobacterium longum subsp. infantis during in vitro digestion and enhance polysaccharide production.	Kosmerl E, Gonzalez-Orozco BD, Garcia-Cano I, Ortega-Anaya J, Jimenez-Flores R.	Front Nutr	10.3389/fnut.2023.1194945	2023
Pathogenicity	Effects of the organic acids produced by a lactic acid bacterium in Apis mellifera colony development, Nosema ceranae control and fumagillin efficiency.	Maggi M, Negri P, Plischuk S, Szawarski N, De Piano F, De Feudis L, Eguaras M, Audisio C.	Vet Microbiol	10.1016/j.vetmic.2013.07.030	2013
	Colorectal cancer and microbiota: systematic review.	Imanbayev N, Iztleuov Y, Bekmukhambetov Y, Abdelazim IA, Donayeva A, Amanzholkyzy A, Aigul Z, Aigerim I, Aslan Y.	Prz Gastroenterol	10.5114/pg.2024.136228	2024
	Gut Microbiota Disruption in Hematologic Cancer Therapy: Molecular Insights and Implications for Treatment Efficacy.	Guevara-Ramirez P, Cadena-Ullauri S, Paz-Cruz E, Ruiz-Pozo VA, Tamayo-Trujillo R, Cabrera-Andrade A, Zambrano AK.	Int J Mol Sci	10.3390/ijms251910255	2024
Genetics	Metagenomic Analysis of the Faecal Microbiome of Rats with 1, 2-Dimethylhydrazine Induced Colon Cancer and Prophylactic Whole-Cell Carotenoid Intervention.	Gomathinayagam S, Kodiveri Muthukaliannan G.	Indian J Microbiol	10.1007/s12088-020-00909-z	2021
	Neonatal intermittent hypoxia, fish oil, and/or antioxidant supplementation on gut microbiota in neonatal rats.	Bodkin D, Cai CL, Manlapaz-Mann A, Mustafa G, Aranda JV, Beharry KD.	Pediatr Res	10.1038/s41390-021-01707-z	2022
	Effects of in ovo Inoculation of Multi-Strain Lactobacilli on Cytokine Gene Expression and Antibody-Mediated Immune Responses in Chickens.	Alizadeh M, Shojadoost B, Astill J, Taha-Abdelaziz K, Karimi SH, Bavananthasivam J, Kulkarni RR, Sharif S.	Front Vet Sci	10.3389/fvets.2020.00105	2020
Metabolism	Adaptation to Aerobic Environment of Lactobacillus johnsonii/gasseri Strains.	Maresca D, Zotta T, Mauriello G.	Front Microbiol	10.3389/fmicb.2018.00157	2018
	Oral Administration of Lotus-Seed Resistant Starch Protects against Food Allergy.	Hu J, Lin Z, Li L, Zheng B, Zeng H, Wang Y, Zhang Y.	Foods	10.3390/foods12040737	2023
	Adjuvant probiotic Bifidobacterium animalis subsp. lactis CP-9 improve phototherapeutic treatment outcomes in neonatal jaundice among full-term newborns: A randomized double-blind clinical study.	Tsai ML, Lin WY, Chen YT, Lin HY, Ho HH, Kuo YW, Lin JH, Huang YY, Wang HS, Chiu HY, Lin HC.	Medicine (Baltimore)	10.1097/md.0000000000031030	2022
	Tetragenococcus halophilus Alleviates Intestinal Inflammation in Mice by Altering Gut Microbiota and Regulating Dendritic Cell Activation via CD83.	Islam SMS, Ryu HM, Sohn S.	Cells	10.3390/cells11121903	2022
	Probiotic Lactobacillus johnsonii BS15 Improves Blood Parameters Related to Immunity in Broilers Experimentally Infected with Subclinical Necrotic Enteritis.	Wang H, Ni X, Qing X, Liu L, Xin J, Luo M, Khalique A, Dan Y, Pan K, Jing B, Zeng D.	Front Microbiol	10.3389/fmicb.2018.00049	2018
Metabolism	Exposure to high altitude leads to disturbances in host metabolic homeostasis: study of the effects of hypoxia-reoxygenation and the associations between the microbiome and metabolome.	Zhao Q, Hao D, Wang S, Chen S, Zhou C, Fan C, Su Q, Huang W, Liu J, Kong Q, Wu Y, He Z.	mSystems	10.1128/msystems.01347-24	2025
	Creation of a non-Western humanized gnotobiotic mouse model through the transplantation of rural African fecal microbiota.	Van Den Ham KM, Little MR, Bednarski OJ, Fusco EM, Mandal RK, Mitra R, Li S, Doumbo S, Doumtabe D, Kayentao K, Ongoiba A, Traore B, Crompton PD, Schmidt NW.	Microbiol Spectr	10.1128/spectrum.01554-23	2023
	Improved prebiotic-based "shield" equipped probiotics for enhanced colon cancer therapy by polarizing M1 macrophages and regulating intestinal microbiota.	Wang Y, Su X, Liu Y, Hu L, Kang L, Xu C, Sun Z, Sun C, Guo H, Shen S.	Acta Pharm Sin B	10.1016/j.apsb.2025.05.040	2025
	Evaluation of lactic acid bacteria isolated from poultry feces as potential probiotic and its in vitro competitive activity against Salmonella typhimurium.	Salehizadeh M, Modarressi MH, Mousavi SN, Tajabadi Ebrahimi M.	Vet Res Forum	10.30466/vrf.2018.84395.2110	2020
	Lactobacillus johnsonii CRL1647, isolated from Apis mellifera L. bee-gut, exhibited a beneficial effect on honeybee colonies.	Audisio MC, Benitez-Ahrendts MR.	Benef Microbes	10.3920/bm2010.0024	2011
	Impact of a Purified Blueberry Extract on In Vitro Probiotic Mucin-Adhesion and Its Effect on Probiotic/Intestinal Pathogen Systems.	Silva S, Costa EM, Oliveira H, Freitas V, Morais RM, Calhau C, Pintado M.	Molecules	10.3390/molecules27206991	2022
	Garlic-Derived Metabolites Exert Antioxidant Activity, Modulate Gut Microbiota Composition and Limit Citrobacter rodentium Infection in Mice.	Zhu L, Andersen-Civil AIS, Castro-Meija JL, Nielsen DS, Blanchard A, Olsen JE, Thamsborg SM, Williams AR.	Antioxidants (Basel)	10.3390/antiox11102033	2022
	Isolation and evaluation of multi-functional properties of lactic acid bacteria strains derived from canine milk.	Liu Y, Zeng Y, Chen L, Xin J, Zhong Z, Liu H, Fu H, Zhou Z, Peng G.	Front Vet Sci	10.3389/fvets.2024.1505854	2024
Genetics	Interpretation of vaginal metagenomic characteristics in different types of vaginitis.	Song J, Dong X, Lan Y, Lu Y, Liu X, Kang X, Huang Z, Yue B, Liu Y, Ma W, Zhang L, Yan H, He M, Fan Z, Guo T.	mSystems	10.1128/msystems.01377-23	2024
Pathogenicity	Potential of Skin Microbiome, Pro- and/or Pre-Biotics to Affect Local Cutaneous Responses to UV Exposure.	Patra V, Gallais Serezal I, Wolf P.	Nutrients	10.3390/nu12061795	2020
Metabolism	mRNA profiling for vaginal fluid and menstrual blood identification.	Jakubowska J, Maciejewska A, Pawlowski R, Bielawski KP.	Forensic Sci Int Genet	10.1016/j.fsigen.2012.11.005	2013
Genetics	Impact of commercial gut health interventions on caecal metagenome and broiler performance.	Pangga GM, Star-Shirko B, Psifidi A, Xia D, Corcionivoschi N, Kelly C, Hughes C, Lavery U, Richmond A, Ijaz UZ, Gundogdu O.	Microbiome	10.1186/s40168-024-02012-7	2025
	Fine-tuning of post-weaning pig microbiome structure and functionality by in-feed zinc oxide and antibiotics use.	Ortiz Sanjuan JM, Manzanilla EG, Cabrera-Rubio R, Crispie F, Cotter PD, Garrido JJ, Ekhlas D, O'Neill L, Arguello H.	Front Cell Infect Microbiol	10.3389/fcimb.2024.1354449	2024
	Rational re-design of Lactobacillus reuteri 121 inulosucrase for product chain length control.	Charoenwongpaiboon T, Klaewkla M, Chunsrivirot S, Wangpaiboon K, Pichyangkura R, Field RA, Prousoontorn MH.	RSC Adv	10.1039/c9ra02137j	2019
	Gut Microbiota and Liver Regeneration: A Synthesis of Evidence on Structural Changes and Physiological Mechanisms.	Kiseleva YV, Zharikova TS, Maslennikov RV, Temirbekov SM, Olsufieva AV, Polyakova OL, Pontes-Silva A, Zharikov YO.	J Clin Exp Hepatol	10.1016/j.jceh.2024.101455	2024
	Genome-centric investigation of the potential succession pattern in gut microbiota and altered functions under high-protein diet.	Zhao Y, Chen L, Yao S, Chen L, Huang J, Chen S, Yu Z.	Curr Res Food Sci	10.1016/j.crfs.2023.100600	2023
	Ameliorating effect of probiotic on nonalcoholic fatty liver disease and lipolytic gene expression in rabbits.	Aziz M, Hemeda SA, Albadrani GM, Fadl SE, Elgendey F.	Sci Rep	10.1038/s41598-023-32584-7	2023
Genetics	First report on metagenomics and their predictive functional analysis of fermented bamboo shoot food of Tripura, North East India.	Das R, Tamang B, Najar IN, Thakur N, Mondal K.	Front Microbiol	10.3389/fmicb.2023.1158411	2023
	Lifelong partners: Gut microbiota-immune cell interactions from infancy to old age.	Brown JA, Bashir H, Zeng MY.	Mucosal Immunol	10.1016/j.mucimm.2025.01.006	2025
	Akkermansia muciniphila Suppresses High-Fat Diet-Induced Obesity and Related Metabolic Disorders in Beagles.	Lin XQ, Chen W, Ma K, Liu ZZ, Gao Y, Zhang JG, Wang T, Yang YJ.	Molecules	10.3390/molecules27186074	2022
	Combined supplementation with Lactobacillus sp. and Bifidobacterium thermacidophilum isolated from Tibetan pigs improves growth performance, immunity, and microbiota composition in weaned piglets.	He Y, Liang J, Liu Y, Zhou X, Peng C, Long C, Huang P, Feng J, Zhang Z.	J Anim Sci	10.1093/jas/skad220	2023
	Maternal gut microbiome regulates immunity to RSV infection in offspring.	Fonseca W, Malinczak CA, Fujimura K, Li D, McCauley K, Li J, Best SKK, Zhu D, Rasky AJ, Johnson CC, Bermick J, Zoratti EM, Ownby D, Lynch SV, Lukacs NW, Ptaschinski C.	J Exp Med	10.1084/jem.20210235	2021
Metabolism	Excretion into feces of asialo GM1 in the murine digestive tract and Lactobacillus johnsonii exhibiting binding ability toward asialo GM1. A possible role of epithelial glycolipids in the discharge of intestinal bacteria.	Iwamori M, Iwamori Y, Adachi S, Nomura T.	Glycoconj J	10.1007/s10719-010-9320-3	2011
	Identification and characterization of gut-associated lactic acid bacteria isolated from the bean bug, Riptortus pedestris (Hemiptera: Alydidae).	Choi O, Lee Y, Kang B, Cho SK, Kang Y, Kang DW, Lee SB, Bae SM, Kim J.	PLoS One	10.1371/journal.pone.0281121	2023
Enzymology	PsEst3, a new psychrophilic esterase from the Arctic bacterium Paenibacillus sp. R4: crystallization and X-ray crystallographic analysis.	Kim H, Park AK, Lee JH, Shin SC, Park H, Kim HW.	Acta Crystallogr F Struct Biol Commun	10.1107/s2053230x18007525	2018
	Gestational Diabetes, Colorectal Cancer, Bariatric Surgery, and Weight Loss among Diabetes Mellitus Patients: A Mini Review of the Interplay of Multispecies Probiotics.	Benioudakis E, Karlafti E, Bekiaridou A, Didangelos T, Papavramidis TS.	Nutrients	10.3390/nu14010192	2021
	Evidence and possible mechanisms of probiotics in the management of type 1 diabetes mellitus.	Dovi KS, Bajinka O, Conteh I.	J Diabetes Metab Disord	10.1007/s40200-022-01006-2	2022
	Glucosylceramide Changes Bacterial Metabolism and Increases Gram-Positive Bacteria through Tolerance to Secondary Bile Acids In Vitro.	Dai H, Otsuka A, Tanabe K, Yanagita T, Nakayama J, Kitagaki H.	Int J Mol Sci	10.3390/ijms23105300	2022
	Eubacterium siraeum suppresses fat deposition via decreasing the tyrosine-mediated PI3K/AKT signaling pathway in high-fat diet-induced obesity.	Lai X, Liu S, Miao J, Shen R, Wang Z, Zhang Z, Gong H, Li M, Pan Y, Wang Q.	Microbiome	10.1186/s40168-024-01944-4	2024
	Microbial composition of tumorous and adjacent gastric tissue is associated with prognosis of gastric cancer.	Lehr K, Nikitina D, Vilchez-Vargas R, Steponaitiene R, Thon C, Skieceviciene J, Schanze D, Zenker M, Malfertheiner P, Kupcinskas J, Link A.	Sci Rep	10.1038/s41598-023-31740-3	2023
	The protective effect and immunomodulatory ability of orally administrated Lacticaseibacillus rhamnosus GG against Mycoplasma pneumoniae infection in BALB/c mice.	Long H, He G, He J, Du TF, Feng P, Zhu C.	PLoS One	10.1371/journal.pone.0312318	2024
	IgA deficiency destabilizes homeostasis toward intestinal microbes and increases systemic immune dysregulation.	Conrey PE, Denu L, O'Boyle KC, Rozich I, Green J, Maslanka J, Lubin JB, Duranova T, Haltzman BL, Gianchetti L, Oldridge DA, De Luna N, Vella LA, Allman D, Spergel JM, Tanes C, Bittinger K, Henrickson SE, Silverman MA.	Sci Immunol	10.1126/sciimmunol.ade2335	2023
	Environmental and Microbial Factors in Inflammatory Bowel Disease Model Establishment: A Review Partly through Mendelian Randomization.	Lin Z, Luo W, Zhang K, Dai S.	Gut Liver	10.5009/gnl230179	2024
	Effect of fermented red ginseng on gut microbiota dysbiosis- or immobilization stress-induced anxiety, depression, and colitis in mice.	Shin YJ, Lee DY, Kim JY, Heo K, Shim JJ, Lee JL, Kim DH.	J Ginseng Res	10.1016/j.jgr.2022.08.004	2023
Genetics	Alterations of gut virome with close interaction in the progression of estrogen deficiency-induced osteoporosis.	Chen Y, Yang C, Deng Z, Xiang T, Tan J, Xu J, Sun D, Luo F.	Gut Microbes	10.1080/19490976.2024.2437250	2024
Metabolism	Interactions Between Antidepressants and Intestinal Microbiota.	Xu F, Xie Q, Kuang W, Dong Z.	Neurotherapeutics	10.1007/s13311-023-01362-8	2023
	The bidirectional interaction between antidepressants and the gut microbiota: are there implications for treatment response?	Borgiani G, Possidente C, Fabbri C, Oliva V, Bloemendaal M, Arias Vasquez A, Dinan TG, Vieta E, Menchetti M, De Ronchi D, Serretti A, Fanelli G.	Int Clin Psychopharmacol	10.1097/yic.0000000000000533	2025
Enzymology	Effect of probiotic Enterococcus faecium SF68 on liver function in healthy dogs.	Lucena R, Novales M, Blanco B, Hernandez E, Ginel PJ.	J Vet Intern Med	10.1111/jvim.15625	2019
	Screening of Dietary Ingredients against the Honey Bee Parasite Nosema ceranae.	Braglia C, Alberoni D, Porrini MP, Garrido PM, Baffoni L, Di Gioia D.	Pathogens	10.3390/pathogens10091117	2021
	Discovery of a non-canonical prototype long-chain monoacylglycerol lipase through a structure-based endogenous reaction intermediate complex.	Pinotsis N, Kruger A, Tomas N, Chatziefthymiou SD, Litz C, Mortensen SA, Daffe M, Marrakchi H, Antranikian G, Wilmanns M.	Nat Commun	10.1038/s41467-023-43354-4	2023
	Structural and biochemical insights into PsEst3, a new GHSR-type esterase obtained from Paenibacillus sp. R4.	Son J, Choi W, Kim H, Kim M, Lee JH, Shin SC, Kim HW.	IUCrJ	10.1107/s2052252523001562	2023
Metabolism	Lactobacillus johnsonii supplementation attenuates respiratory viral infection via metabolic reprogramming and immune cell modulation.	Fonseca W, Lucey K, Jang S, Fujimura KE, Rasky A, Ting HA, Petersen J, Johnson CC, Boushey HA, Zoratti E, Ownby DR, Levine AM, Bobbit KR, Lynch SV, Lukacs NW.	Mucosal Immunol	10.1038/mi.2017.13	2017
	Honeybees Exposure to Natural Feed Additives: How Is the Gut Microbiota Affected?	Alberoni D, Baffoni L, Braglia C, Gaggia F, Di Gioia D.	Microorganisms	10.3390/microorganisms9051009	2021
	Comparison of alternatives to in-feed antimicrobials for the prevention of clinical necrotic enteritis.	Geier MS, Mikkelsen LL, Torok VA, Allison GE, Olnood CG, Boulianne M, Hughes RJ, Choct M.	J Appl Microbiol	10.1111/j.1365-2672.2010.04758.x	2010
	From Gut to Blood: Spatial and Temporal Pathobiome Dynamics during Acute Abdominal Murine Sepsis.	Hartwig C, Drechsler S, Vainshtein Y, Maneth M, Schmitt T, Ehling-Schulz M, Osuchowski M, Sohn K.	Microorganisms	10.3390/microorganisms11030627	2023
Phylogeny	The impact of gut microbiota changes on the intestinal mucus barrier in burned mice: a study using 16S rRNA and metagenomic sequencing.	Zha X, Su S, Wu D, Zhang P, Wei Y, Fan S, Huang Q, Peng X.	Burns Trauma	10.1093/burnst/tkad056	2023
Pathogenicity	The Protection of Lactic Acid Bacteria Fermented-Mango Peel against Neuronal Damage Induced by Amyloid-Beta.	Lee BH, Hsu WH, Hou CY, Chien HY, Wu SC.	Molecules	10.3390/molecules26123503	2021
	A High-Salt Diet Exacerbates Liver Fibrosis through Enterococcus-Dependent Macrophage Activation.	Zhang X, Liang Y, Jiang J, Lu C, Shi F, Cao Q, Zhang Y, Diao H.	Microbiol Spectr	10.1128/spectrum.03403-22	2023
	Microbiome Analysis of Traditional Grain Vinegar Produced under Different Fermentation Conditions in Various Regions in Korea.	Kong H, Kim SH, Jeong WS, Kim SY, Yeo SH.	Foods	10.3390/foods11223573	2022
Metabolism	Screening of probiotic lactobacilli for inhibition of Shigella sonnei and the macromolecules involved in inhibition.	Zhang YC, Zhang LW, Ma W, Yi HX, Yang X, Du M, Shan YJ, Han X, Zhang LL.	Anaerobe	10.1016/j.anaerobe.2012.08.007	2012
Pathogenicity	Impact of chicory inclusion in a cereal-based diet on digestibility, organ size and faecal microbiota in growing pigs.	Ivarsson E, Liu HY, Dicksved J, Roos S, Lindberg JE.	Animal	10.1017/s1751731111002709	2012
	Nutritional Strategies to Improve Meat Quality and Composition in the Challenging Conditions of Broiler Production: A Review.	Choi J, Kong B, Bowker BC, Zhuang H, Kim WK.	Animals (Basel)	10.3390/ani13081386	2023
	Novel therapeutic strategies and recent advances in gut microbiota synergy with nanotechnology for colorectal cancer treatment.	Han Q, Li J, Li Z, Aishajiang R, Yu D.	Mater Today Bio	10.1016/j.mtbio.2025.101601	2025
	Effects of Bacillus subtilis on growth performance, serum parameters, digestive enzyme, intestinal morphology, and colonic microbiota in piglets.	Deng B, Wu J, Li X, Zhang C, Men X, Xu Z.	AMB Express	10.1186/s13568-020-01150-z	2020
	Cognitive and behavioral benefits of 2'-fucosyllactose in growing mice: the roles of 5-hydroxytryptophan and gut microbiota.	Zhu L, Zhang Z, Luo T, Li H, Deng Z, Li J, Zheng L, Liao J, Wang M, Zhang B.	Microbiome	10.1186/s40168-025-02094-x	2025
Enzymology	Lactic acid bacteria from chicken carcasses with inhibitory activity against Salmonella spp. and Listeria monocytogenes.	Sakaridis I, Soultos N, Dovas CI, Papavergou E, Ambrosiadis I, Koidis P.	Anaerobe	10.1016/j.anaerobe.2011.09.009	2012
	The Relationship between Gut Microbiota and Respiratory Tract Infections in Childhood: A Narrative Review.	Zama D, Totaro C, Biscardi L, Rocca A, Turroni S, Brigidi P, Lanari M.	Nutrients	10.3390/nu14142992	2022
	Microbiome Engineering Using Probiotic Yeast: Saccharomyces boulardii and the Secreted Human Lysozyme Lead to Changes in the Gut Microbiome and Metabolome of Mice.	Kim J, Atkinson C, Miller MJ, Kim KH, Jin YS.	Microbiol Spectr	10.1128/spectrum.00780-23	2023
Metabolism	Bile salt hydrolases: Gatekeepers of bile acid metabolism and host-microbiome crosstalk in the gastrointestinal tract.	Foley MH, O'Flaherty S, Barrangou R, Theriot CM.	PLoS Pathog	10.1371/journal.ppat.1007581	2019
	Effect of Oral Administration with Lactobacillus plantarum CAM6 on the Hematological Profile, Relative Weight of Digestive Organs, and Cecal Traits in Growing Pigs.	Betancur C, Martinez Y.	Animals (Basel)	10.3390/ani13121915	2023
	Hymenolepis diminuta Reduce Lactic Acid Bacterial Load and Induce Dysbiosis in the Early Infection of the Probiotic Colonization of Swiss Albino Rat.	Mandal S, Mondal C, Mukherjee T, Saha S, Kundu A, Ghosh S, Lyndem LM.	Microorganisms	10.3390/microorganisms10122328	2022
Pathogenicity	Glucose but Not Fructose Alters the Intestinal Paracellular Permeability in Association With Gut Inflammation and Dysbiosis in Mice.	Zhang X, Monnoye M, Mariadassou M, Beguet-Crespel F, Lapaque N, Heberden C, Douard V.	Front Immunol	10.3389/fimmu.2021.742584	2021
Pathogenicity	High-fat diet disrupts REG3gamma and gut microbial rhythms promoting metabolic dysfunction.	Frazier K, Kambal A, Zale EA, Pierre JF, Hubert N, Miyoshi S, Miyoshi J, Ringus DL, Harris D, Yang K, Carroll K, Hermanson JB, Chlystek JS, Overmyer KA, Cham CM, Musch MW, Coon JJ, Chang EB, Leone VA.	Cell Host Microbe	10.1016/j.chom.2022.03.030	2022
	Gastrointestinal Dysmotility Predisposes to Colitis through Regulation of Gut Microbial Composition and Linoleic Acid Metabolism.	Zhang Y, Song F, Yang M, Chen C, Cui J, Xing M, Dai Y, Li M, Cao Y, Lu L, Zhu H, Liu Y, Ma C, Wei Q, Qin H, Li J.	Adv Sci (Weinh)	10.1002/advs.202306297	2024
Pathogenicity	Extending viability of Lactobacillus plantarum and Lactobacillus johnsonii by microencapsulation in alginate microgels.	Tiani KA, Yeung TW, McClements DJ, Sela DA	Int J Food Sci Nutr	10.1080/09637486.2017.1343285	2017
Metabolism	A highly acid-resistant novel strain of Lactobacillus johnsonii No. 1088 has antibacterial activity, including that against Helicobacter pylori, and inhibits gastrin-mediated acid production in mice.	Aiba Y, Nakano Y, Koga Y, Takahashi K, Komatsu Y	Microbiologyopen	10.1002/mbo3.252	2015
Enzymology	Effects of the probiotic Enterococcus faecium NCIMB 10415 on selected lactic acid bacteria and enterobacteria in co-culture.	Starke IC, Zentek J, Vahjen W	Benef Microbes	10.3920/BM2014.0052	2015
Phylogeny	Characterization of a novel Lactobacillus species closely related to Lactobacillus johnsonii using a combination of molecular and comparative genomics methods.	Sarmiento-Rubiano LA, Berger B, Moine D, Zuniga M, Perez-Martinez G, Yebra MJ	BMC Genomics	10.1186/1471-2164-11-504	2010
Genetics	Identification of genes associated with the long-gut-persistence phenotype of the probiotic Lactobacillus johnsonii strain NCC533 using a combination of genomics and transcriptome analysis.	Denou E, Pridmore RD, Berger B, Panoff JM, Arigoni F, Brussow H	J Bacteriol	10.1128/JB.01637-07	2008
Enzymology	Functional analysis of the gene encoding immunity to lactacin F, lafI, and its use as a Lactobacillus-specific, food-grade genetic marker.	Allison GE, Klaenhammer TR	Appl Environ Microbiol	10.1128/aem.62.12.4450-4460.1996	1996
Phylogeny	Lactobacillus rodentium sp. nov., from the digestive tract of wild rodents.	Killer J, Havlik J, Vlkova E, Rada V, Pechar R, Benada O, Kopecny J, Kofronova O, Sechovcova H	Int J Syst Evol Microbiol	10.1099/ijs.0.054924-0	2014
Phylogeny	Taxonomic study of the Lactobacillus acidophilus group, with recognition of Lactobacillus gallinarum sp. nov. and Lactobacillus johnsonii sp. nov. and synonymy of Lactobacillus acidophilus group A3 (Johnson et al. 1980) with the type strain of Lactobacillus amylovorus (Nakamura 1981).	Fujisawa T, Benno Y, Yaeshima T, Mitsuoka T	Int J Syst Bacteriol	10.1099/00207713-42-3-487	1992

References

#3968	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 10533
#20215	Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.: List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#34023	; Curators of the CIP;
#50246	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 30725
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#67771	Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;
#68371	Automatically annotated from API 50CH acid .
#68382	Automatically annotated from API zym .
#69479	João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.: MicrobeAtlas 1.0 beta .
#120360	Collection of Institut Pasteur ; Curators of the CIP; CIP 103620
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Lactobacillus johnsonii (DSM 10533, ATCC 33200, NCFB 2241)

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Genome browser: GCA_001433975

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