Bacteroides clarus (DSM 22519, JCM 16067, CCUG 60911)

Name: Bacteroides clarus (DSM 22519, JCM 16067, CCUG 60911)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 1628

Type strain

Strain Designation A 20

Culture col. no. DSM 22519 JCM 16067 CCUG 60911 YIT 12056 A 20 1 more

NCBI tax ID(s) 762984 626929

Special Collections DSMZ CCUG JCM KCTC Literature strains

History <- Y. Watanabe, Yakult Central Inst. Microbiol. Res., Tokyo, Japan <- F. Nagai and M. Morotomi Y. Watanabe A20 (=YIT 12056).

Links

Bacteroides clarus A 20 is an anaerobe, mesophilic, Gram-negative prokaryote that was isolated from human faeces .

Gram-negative rod-shaped anaerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 403364

JCM 16067,DSM 22519,CCUG 60911T

@ref 20215

Last LPSN update 2025-12-16 09:47:09

Domain Pseudomonadati

Phylum Bacteroidota

Class Bacteroidia

Order Bacteroidales

Family Bacteroidaceae

Genus Bacteroides

Species Bacteroides clarus

Full scientific name Bacteroides clarus Watanabe et al. 2010

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
29531	negative	0.7-2.9 µm	0.5-1 µm	rod-shaped
125438	negative				94.046
125439	negative				99.6

Pigmentation

29531

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
16376	CHOPPED MEAT MEDIUM (DSMZ Medium 78)		Medium recipe at MediaDive	Name: CHOPPED MEAT MEDIUM (DSMZ Medium 78) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l Ethanol 9.5 g/l (optional) K2HPO4 5.0 g/l Yeast extract 5.0 g/l L-Cysteine HCl 0.5 g/l Haemin 0.005 g/l (optional) Resazurin 0.001 g/l Vitamin K3 0.0005 g/l (optional) Vitamin K1 (optional) NaOH (optional) Distilled water
16376	PYG MEDIUM (MODIFIED) (DSMZ Medium 104)		Medium recipe at MediaDive	Name: PYG MEDIUM (modified) (DSMZ Medium 104) Composition: Yeast extract 10.0 g/l Peptone 5.0 g/l Trypticase peptone 5.0 g/l Beef extract 5.0 g/l Glucose 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l K2HPO4 0.04 g/l KH2PO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Hemin 0.005 g/l Ethanol 0.0038 g/l Resazurin 0.001 g/l Tween 80 Vitamin K1 NaOH Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
16376	positive	growth	37	mesophilic
29531	positive	growth	37	mesophilic
29531	positive	optimum	37	mesophilic
67770	positive	growth	37	mesophilic

Culture pH

@ref	Ability	Type	PH
29531	positive	optimum	7
29531	positive	growth	7

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
16376	anaerobe
29531	anaerobe
125438	anaerobe	91.29
125439	anaerobe	96.4

Spore formation

@ref	Spore formation	Confidence
29531
125438		93.979
125439		99.8

Observation

@ref	Observation
29531	aggregates in chains
67770	quinones: MK-10, MK-11

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68367	17057 ChEBI	cellobiose	+	builds acid from	from API 20A
68367	17634 ChEBI	D-glucose	+	builds acid from	from API 20A
68367	16899 ChEBI	D-mannitol	-	builds acid from	from API 20A
68380	16024 ChEBI	D-mannose	+	fermentation	from API rID32A
68367	16024 ChEBI	D-mannose	+	builds acid from	from API 20A
68367	65327 ChEBI	D-xylose	+	builds acid from	from API 20A
68367	4853 ChEBI	esculin	+	hydrolysis	from API 20A
68367	5291 ChEBI	gelatin	-	hydrolysis	from API 20A
29531	17754 ChEBI	glycerol	+	carbon source
68367	17754 ChEBI	glycerol	-	builds acid from	from API 20A
68367	30849 ChEBI	L-arabinose	-	builds acid from	from API 20A
68380	29985 ChEBI	L-glutamate	+	degradation	from API rID32A
68367	62345 ChEBI	L-rhamnose	+	builds acid from	from API 20A
68367	17716 ChEBI	lactose	+	builds acid from	from API 20A
68367	17306 ChEBI	maltose	+	builds acid from	from API 20A
29531	29864 ChEBI	mannitol	+	carbon source
68367	6731 ChEBI	melezitose	-	builds acid from	from API 20A
68380	17632 ChEBI	nitrate	-	reduction	from API rID32A
68380	16634 ChEBI	raffinose	+	fermentation	from API rID32A
68367	16634 ChEBI	raffinose	+	builds acid from	from API 20A
29531	26546 ChEBI	rhamnose	+	carbon source
29531	17814 ChEBI	salicin	+	carbon source
68367	17814 ChEBI	salicin	-	builds acid from	from API 20A
29531	30911 ChEBI	sorbitol	+	carbon source
68367	30911 ChEBI	sorbitol	-	builds acid from	from API 20A
68367	17992 ChEBI	sucrose	+	builds acid from	from API 20A
29531	27082 ChEBI	trehalose	+	carbon source
68367	27082 ChEBI	trehalose	-	builds acid from	from API 20A
68380	27897 ChEBI	tryptophan	+	energy source	from API rID32A
68367	27897 ChEBI	tryptophan	+	energy source	from API 20A
68380	16199 ChEBI	urea	-	hydrolysis	from API rID32A
68367	16199 ChEBI	urea	-	hydrolysis	from API 20A

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68380	35581 ChEBI	indole		from API rID32A
68367	35581 ChEBI	indole		from API 20A

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
68380	35581 ChEBI	indole	+	from API rID32A
68367	35581 ChEBI	indole	+	from API 20A

Enzymes

@ref	Value	Activity	Ec
68380	alanine arylamidase	+	3.4.11.2	from API rID32A
68380	alkaline phosphatase	+	3.1.3.1	from API rID32A
68380	alpha-arabinosidase	-	3.2.1.55	from API rID32A
68380	alpha-fucosidase	-	3.2.1.51	from API rID32A
29531	alpha-galactosidase	+	3.2.1.22
68380	alpha-galactosidase	+	3.2.1.22	from API rID32A
68380	alpha-glucosidase	+	3.2.1.20	from API rID32A
68380	beta-galactosidase	+	3.2.1.23	from API rID32A
68380	beta-Galactosidase 6-phosphate	-		from API rID32A
68380	beta-glucosidase	+	3.2.1.21	from API rID32A
68367	beta-glucosidase	+	3.2.1.21	from API 20A
68380	beta-glucuronidase	-	3.2.1.31	from API rID32A
68367	gelatinase	-		from API 20A
68380	glutamate decarboxylase	+	4.1.1.15	from API rID32A
68380	glutamyl-glutamate arylamidase	+		from API rID32A
68380	glycin arylamidase	+		from API rID32A
68380	histidine arylamidase	-		from API rID32A
68380	L-arginine arylamidase	-		from API rID32A
68380	leucine arylamidase	-	3.4.11.1	from API rID32A
68380	leucyl glycin arylamidase	+	3.4.11.1	from API rID32A
68380	N-acetyl-beta-glucosaminidase	+	3.2.1.52	from API rID32A
68380	phenylalanine arylamidase	-		from API rID32A
68380	proline-arylamidase	-	3.4.11.5	from API rID32A
68380	pyrrolidonyl arylamidase	-	3.4.19.3	from API rID32A
68380	serine arylamidase	-		from API rID32A
68380	tryptophan deaminase	+	4.1.99.1	from API rID32A
68380	tyrosine arylamidase	+		from API rID32A
68380	urease	-	3.5.1.5	from API rID32A
68367	urease	-	3.5.1.5	from API 20A

API 20A

@ref	IND	URE	GLU	MAN	LAC	SAC	MAL	SAL	XYL	ARA	GEL	ESC	GLY	CEL	MNE	MLZ	RAF	SOR	RHA	TRE	CAT	Spores presentSPOR	GramGRAM	Morphology coccus="+" rod="-"COCC
16376	+	-	+	-	+	+	+	-	+	-	-	+	-	+	+	-	+	-	+	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.

API rID32A

@ref	URE	ADH (Arg)	alpha GAL	beta GAL	beta-Galactosidase 6-phosphatebeta GP	alpha GLU	beta GLU	alpha ARA	beta GUR	beta-N-Acetyl-beta-glucosaminidasebeta NAG	MNE	RAF	GDC	alpha FUC	Reduction of nitrateNIT	IND	PAL	L-arginine arylamidaseArgA	ProA	LGA	Phenylalanine arylamidasePheA	Leucine arylamidaseLeuA	PyrA	Tyrosine arylamidaseTyrA	Alanine arylamidaseAlaA	Glycin arylamidaseGlyA	Histidine arylamidaseHisA	Glutamyl-glutamate arylamidaseGGA	Serine arylamidaseSerA
16376	-	+/-	+	+	-	+	+	-	-	+	+	+	+	-	-	+	+	-	-	+	-	-	-	+	+	+	-	+	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Human	#Male
#Host Body Product	#Gastrointestinal tract	#Feces (Stool)

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Sampling date
16376	human faeces (healthy Japanese adult male)	Tokyo	Japan	JPN	Asia
62494	Human feces,healthy adult man		Japan	JPN	Asia	2009
67770	Human feces

Taxonmaps

69479

Global distribution of 16S sequence AB547638 (>99% sequence identity) for Bacteroides clarus subclade from Microbeatlas

Aquatic Samples	805
Soil Samples	122
Animal Samples	23186
Plant Samples	15
Total Samples	24128

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
16376	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	IMG-taxon 2695420967 annotated assembly for Bacteroides clarus YIT 12056	contig	GCA_900129655	762984.10	2695420967	762984	76.18
67770	ASM19561v1 assembly for Bacteroides clarus YIT 12056	scaffold	GCA_000195615	762984.3	651324010	762984	72.07

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	Bacteroides clarus gene for 16S ribosomal RNA, partial sequence, strain: JCM 16067	AB547638	1488		762984
16376	Bacteroides clarus gene for 16S rRNA, partial sequence, strain: YIT 12056	AB490801	1479		762984

GC content

@ref	GC-content (mol%)	Method
16376	45.3	high performance liquid chromatography (HPLC)
29531	45.3

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Bacteroides clarus YIT 12056
NCBI: GCA_000195615

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	99.80	no
125439	motility	BacteriaNetⓘ	no	58.40	no
125439	gram_stain	BacteriaNetⓘ	negative	99.60	no
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	96.40	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Bacteroides clarus YIT 12056
PATRIC: 762984.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	94.05	yes
125438	anaerobic	anaerobicⓘ	yes	91.29	yes
125438	aerobic	aerobicⓘ	no	94.88	yes
125438	spore-forming	spore-formingⓘ	no	93.98	no
125438	thermophilic	thermophileⓘ	no	95.30	yes
125438	flagellated	motile2+ⓘ	no	89.50	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
	Heterologous expression and antimicrobial potential of class II bacteriocins.	Elisa Heesemann Rosenkilde C, Olsen Lutzhoft D, Vazquez-Uribe R, Otto Alexander Sommer M.	Gut Microbes	10.1080/19490976.2024.2369338	2024
Proteome	Three alginate lyases provide a new gut Bacteroides ovatus isolate with the ability to grow on alginate.	Ronne ME, Tandrup T, Madsen M, Hunt CJ, Myers PN, Moll JM, Holck J, Brix S, Strube ML, Aachmann FL, Wilkens C, Svensson B.	Appl Environ Microbiol	10.1128/aem.01185-23	2023
	Heterologous Expression and Characterization of Cellouronate (beta-1,4-Glucuronan) Lyase from a Human Intestinal Bacterium Bacteroides luhongzhouii.	Tanaka Y, Matsumura K, Ariga M, Konno N, Ogata M, Habu N.	J Appl Glycosci (1999)	10.5458/jag.7203102	2025
	Alginate oligosaccharide assimilation by gut microorganisms and the potential role in gut inflammation alleviation.	Ma X-Q, Wang B, Wei W, Tan F-C, Su H, Zhang J-Z, Zhao C-Y, Zheng H-J, Feng Y-Q, Shen W, Yang J-B, Li F-L.	Appl Environ Microbiol	10.1128/aem.00046-24	2024
Metabolism	Probiotics in human gut microbiota can degrade host glycosaminoglycans.	Kawai K, Kamochi R, Oiki S, Murata K, Hashimoto W.	Sci Rep	10.1038/s41598-018-28886-w	2018
	Clinical Significance of Gut Microbiota Community Types for Long-Term Response to Fecal Microbiota Transplantation in Patients With Psoriatic Arthritis.	Qin P, Kragsnaes MS, Holm DK, Horn HC, Nilsson AC, Kjeldsen J, Kristiansen K, Ellingsen T.	Arthritis Rheumatol	10.1002/art.43359	2025
	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
	Exploring the mediating role of the plasma lipidome in the pathway from the gut microbiota to dementia: a Mendelian randomization study.	Li B, Sun X, Luo X, Kan Y, Wang W, Wang T, Wu C, Hu Y, Bi X.	Arch Med Sci	10.5114/aoms/201447	2025
	Is there a difference in fecal microbiota of children with and without voiding dysfunction?	Akarken I, Tarhan H, Sener G, Deliktas H, Cengiz N, Sahin H.	Arch Ital Urol Androl	10.4081/aiua.2022.4.455	2022
	Synthetic beta-d-Glucuronides: Substrates for Exploring Glucuronide Degradation by Human Gut Bacteria.	Gorecka A, Schacht H, Fraser MK, Teriosina A, London JA, Barsukov IL, Powell AK, Cartmell A, Stachulski AV, Yates EA.	ACS Omega	10.1021/acsomega.4c09036	2025
	Perinatal depressive and anxiety symptoms are associated with gut microbiota in pregnant women with overweight and obesity.	Hieta J, Benchraka C, Parnanen K, Houttu N, Mokkala K, Lotankar M, Kataja EL, Lahti L, Laitinen K.	Brain Behav Immun Health	10.1016/j.bbih.2025.101042	2025
	Correlation of inflammatory biomarkers with the diversity of Bacteroidaceae, Bifidobacteriaceae, Prevotellaceae and Lactobacillaceae families in the intestinal microbiota of patients with end stage renal disease.	Asgharian M, Gholizadeh P, Samadi Kafil H, Ghojazadeh M, Samadi A, Soleymani J, Jouyban A, Tayebi Khosroshahi H.	Adv Med Sci	10.1016/j.advms.2022.07.004	2022
	Association of Gut Microbiota Composition with Stunting Incidence in Children under Five in Jakarta Slums.	Ratnayani, Hegar B, Sunardi D, Fadilah F, Gunardi H, Fahmida U, Vidiawati D.	Nutrients	10.3390/nu16203444	2024
	Akkermansia muciniphila is associated with normal muscle mass and Eggerthella is related with sarcopenia in cirrhosis.	Efremova I, Alieva A, Maslennikov R, Poluektova E, Zharkova M, Kudryavtseva A, Krasnov G, Zharikov Y, Nerestyuk Y, Karchevskaya A, Ivashkin V.	Front Nutr	10.3389/fnut.2024.1438897	2024
	Dietary inflammatory index and its relationship with gut microbiota in individuals with intestinal constipation: a cross-sectional study.	Costa LM, Mendes MM, Oliveira AC, Magalhaes KG, Shivappa N, Hebert JR, da Costa THM, Botelho PB.	Eur J Nutr	10.1007/s00394-021-02649-2	2022
Enzymology	Structural basis for the exolytic activity of polysaccharide lyase family 6 alginate lyase BcAlyPL6 from human gut microbe Bacteroides clarus.	Wang B, Dong S, Li FL, Ma XQ.	Biochem Biophys Res Commun	10.1016/j.bbrc.2021.02.040	2021
	The role of the gut microbiota in chemotherapy response, efficacy and toxicity: a systematic review.	Bohm D, Russ E, Guchelaar HJ, Ziemons J, Penders J, Smidt ML, van Best N, Deenen MJ.	NPJ Precis Oncol	10.1038/s41698-025-01034-0	2025
	The causal relationship between gut microbiota and alopecia areata: a Mendelian randomization analysis.	Bi D, Tey JT, Yao D, Cao Y, Qian M, Shi J, Guo S.	Front Microbiol	10.3389/fmicb.2024.1431646	2024
	Gut microbiota influence on lung cancer risk through blood metabolite mediation: from a comprehensive Mendelian randomization analysis and genetic analysis.	Du Y, Wang Q, Zheng Z, Zhou H, Han Y, Qi A, Jiao L, Gong Y.	Front Nutr	10.3389/fnut.2024.1425802	2024
	Assessing the gut microbiota composition in older adults: connections to physical activity and healthy ageing.	Ramos C, Magistro D, Walton GE, Whitham A, Camp N, Poveda C, Gibson GR, Hough J, Kinnear W, Hunter K.	Geroscience	10.1007/s11357-025-01605-w	2025
	Gut microbiota, blood metabolites, & pan-cancer: a bidirectional Mendelian randomization & mediation analysis.	Luan B, Yang Y, Yang Q, Li Z, Xu Z, Chen Y, Wang M, Chen W, Ge F.	AMB Express	10.1186/s13568-025-01866-w	2025
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
	Exploring Childhood Lower Urinary Tract Symptoms (LUTS), Urinary Tract Infections (UTIs) and the Microbiome-A Systematic Review.	Van den Ende M, Van de Steen L, Everaert K, Herve F, Bou Kheir G.	Life (Basel)	10.3390/life15050730	2025
	Association between gut microbiota and gastrointestinal cancer: a two-sample bi-directional Mendelian randomization study.	Su Q, Jin C, Bo Z, Yang Y, Wang J, Wang J, Zhou J, Chen Y, Zeng H, Chen G, Wang Y.	Front Microbiol	10.3389/fmicb.2023.1181328	2023
	Fermentation of Alginate and Its Oligosaccharides by the Human Gut Microbiota: Structure-Property Relationships and New Findings Focusing on Bacteroides xylanisolvens.	Li J, Lv Y, Shao M, Lv D, Fu Z, Guo P, Li Q, Shang Q.	Nutrients	10.3390/nu17091424	2025
	Diet- and sex-related changes of gut microbiota composition and functional profiles after 4 months of weight loss intervention.	Cuevas-Sierra A, Romo-Hualde A, Aranaz P, Goni L, Cuervo M, Martinez JA, Milagro FI, Riezu-Boj JI.	Eur J Nutr	10.1007/s00394-021-02508-0	2021
	Exploring the Relationship between Gut Microbiome Composition and Blood Indole-3-acetic Acid in Hemodialysis Patients.	Wu PH, Tseng YF, Liu W, Chuang YS, Tai CJ, Tung CW, Lai KY, Kuo MC, Chiu YW, Hwang SJ, Hung WC, Lin YT.	Biomedicines	10.3390/biomedicines12010148	2024
	A Probiotic Formula for Modulation of Colorectal Cancer Risk via Reducing CRC-Associated Bacteria.	Liang JQ, Zeng Y, Lau EYT, Sun Y, Huang Y, Zhou T, Xu Z, Yu J, Ng SC, Chan FKL.	Cells	10.3390/cells12091244	2023
	Gut microbiota links to histological damage in chronic HBV infection patients and aggravates fibrosis via fecal microbiota transplantation in mice.	Wang F, Wu Y, Ni J, Xie Q, Shen J, Chen H, Ma C, Yao Y, Wang J, Xu L, Xiang Q, Zhao Y, Chen Y, Li L.	Microbiol Spectr	10.1128/spectrum.00764-25	2025
	Novel microbiome signatures for non-invasive diagnosis of adenoma recurrence after colonoscopic polypectomy.	Liang JQ, Zeng Y, Kwok G, Cheung CP, Suen BY, Ching JYL, To KF, Yu J, Chan FKL, Ng SC.	Aliment Pharmacol Ther	10.1111/apt.16799	2022
Genetics	The Effect of a Planetary Health Diet on the Human Gut Microbiome: A Descriptive Analysis.	Rehner J, Schmartz GP, Kramer T, Keller V, Keller A, Becker SL.	Nutrients	10.3390/nu15081924	2023
	The Identification and Characterization of a Novel Alginate Lyase from Mesonia hitae R32 Exhibiting High Thermal Stability and Potent Antioxidant Oligosaccharide Production.	Ye Y, Li Z, Zhou Y, Gao X, Yan D.	Mar Drugs	10.3390/md23040176	2025
Phylogeny	Compositional alterations of the gut microbiota in acute myocardial infarction patients with type 2 diabetes mellitus.	Lei C, Zhang X, Chen E, Lin L, Zhou Z, Wang Z, Liu T, Liu Z.	Ann Transl Med	10.21037/atm-22-3521	2023
	Uncovering stage-specific neural and molecular progression in Alzheimer's disease: Implications for early screening.	Lin Y, Shi X, Mu J, Ren H, Jiang X, Zhu L, Cai X, Lian C, Pei Z, Zhang Y, Wang C, Hou G, Lin L, Nie C, Song C, Gao S, Zhao L, Wang J, Jiang X, Wang J, Guo Y.	Alzheimers Dement	10.1002/alz.70182	2025
Pathogenicity	Microbiome Modulation in Pediatric Leukemia: Impact on Graft-Versus-Host Disease and Treatment Outcomes: A Narrative Review.	Todor SB, Ichim C.	Children (Basel)	10.3390/children12020166	2025
Metabolism	Milk Formula Diet Alters Bacterial and Host Protein Profile in Comparison to Human Milk Diet in Neonatal Piglet Model.	Rosa F, Zybailov BL, Glazko GV, Rahmatallah Y, Byrum S, Mackintosh SG, Bowlin AK, Yeruva L.	Nutrients	10.3390/nu13113718	2021
	Inactivated Lactiplantibacillus plantarum Ps-8 enhances growth performance and intestinal health in broiler chickens via gut microbiota and serum metabolite modulation.	Jiao Y, Huang W, Zhang Q, Liu L, Zhao J, Chen Y.	Poult Sci	10.1016/j.psj.2025.105611	2025
	Evaluation of microbiome composition combined with serum untargeted metabolomic profiling in newly diagnosed children with inflammatory bowel disease.	Zdanowicz K, Pietrowska K, Lebensztejn DM, Ciborowski M, Godzien J, Kretowski A, Daniluk J, Daniluk U.	Arch Med Sci	10.5114/aoms/190623	2025
	Characterization of gut microbiota on gender and age groups bias in Thai patients with autism spectrum disorder.	Bhusri B, Sutheeworapong S, Kittichotirat W, Kusonmano K, Thammarongtham C, Lertampaiporn S, Prommeenate P, Praphanphoj V, Kittitharaphan W, Dulsawat S, Paenkaew P, Cheevadhanarak S.	Sci Rep	10.1038/s41598-025-86740-2	2025
	Comparative microbiome analysis of paired mucosal and fecal samples in Korean colorectal cancer patients	Kim Y, Kim M, Lee S.	Front Oncol		2025
	Potential application of pig (Sus scrofa domestica) skin peptide-iron chelates in the treatment of iron deficiency anemia and regulation of intestinal flora metabolism.	Huang S, Deng H, Liang K, Zhao X, Zhang J.	Front Nutr	10.3389/fnut.2025.1553668	2025
	The Use of a Non-Invasive Biomarker for Colorectal Cancer Screening: A Comparative Cost-Effectiveness Modeling Study.	Wong MCS, Huang J, Wong YY, Ko S, Chan VCW, Ng SC, Chan FKL.	Cancers (Basel)	10.3390/cancers15030633	2023
	Investigating volatile compounds in the Bacteroides secretome.	Shagaleeva OY, Kashatnikova DA, Kardonsky DA, Konanov DN, Efimov BA, Bagrov DV, Evtushenko EG, Chaplin AV, Silantiev AS, Filatova JV, Kolesnikova IV, Vanyushkina AA, Stimpson J, Zakharzhevskaya NB.	Front Microbiol	10.3389/fmicb.2023.1164877	2023
	Gut microbiome: New biomarkers in early screening of colorectal cancer.	Zhou P, Yang D, Sun D, Zhou Y.	J Clin Lab Anal	10.1002/jcla.24359	2022
Pathogenicity	Toxic microbiome and progression of chronic kidney disease: insights from a longitudinal CKD-Microbiome Study.	Laiola M, Koppe L, Larabi A, Thirion F, Lange C, Quinquis B, David A, Le Chatelier E, Benoit B, Sequino G, Chanon S, Vieille-Marchiset A, Herpe YE, Alvarez JC, Glorieux G, Krukowski H, Huys GR, Raes J, Fouque D, Massy ZA, Ehrlich SD, Stengel B, Wagner S, CKD-REIN Study collaborators.	Gut	10.1136/gutjnl-2024-334634	2025
	Changes in HLA-B27 Transgenic Rat Fecal Microbiota Following Tofacitinib Treatment and Ileocecal Resection Surgery: Implications for Crohn's Disease Management.	Blondeaux A, Valibouze C, Speca S, Rousseaux C, Dubuquoy C, Blanquart H, Zerbib P, Desreumaux P, Foligne B, Titecat M.	Int J Mol Sci	10.3390/ijms25042164	2024
	Effect of caffeic acid grafted chitosan loaded quercetin lyophilized powder formulation on avian colibacillosis and tissue distribution.	Ren X, Yuan S, Ren J, Ma L, Liu J, Wang G.	Front Vet Sci	10.3389/fvets.2024.1470781	2024
	Differences in diversity and composition of mucosa-associated colonic microbiota in colorectal cancer and non-colorectal cancer in Indonesia.	Darnindro N, Abdullah M, Sukartini N, Rumende CM, Pitarini A, Nursyirwan SA, Fauzi A, Makmun D, Nelwan EJ, Shatri H, Rinaldi I, Tanadi C.	World J Gastroenterol	10.3748/wjg.v31.i7.100051	2025
Metabolism	Impact of dietary protein and energy levels on fatty acid profile, gut microbiome and cecal metabolome in native growing chickens.	Zhou L, Wang D, Abouelezz K, Shi L, Cao T, Hou G.	Poult Sci	10.1016/j.psj.2024.103917	2024
	Fecal microbial DNA markers serve for screening colorectal neoplasm in asymptomatic subjects.	Liang JQ, Wong SH, Szeto CH, Chu ES, Lau HC, Chen Y, Fang J, Yu J, Sung JJ.	J Gastroenterol Hepatol	10.1111/jgh.15171	2021
	Dysregulated Immunity to Clostridioides difficile in IBD Patients Without a History of Recognized Infection.	Cook L, Wong MQ, Rees WD, Schick A, Lisko DJ, Lunken GR, Wang X, Peters H, Oliveira L, Lau T, Mah R, Bressler B, Levings MK, Steiner TS.	Inflamm Bowel Dis	10.1093/ibd/izad238	2024
Metabolism	Effects of compatibility of Clostridium butyricum and Bacillus subtilis on growth performance, lipid metabolism, antioxidant status and cecal microflora of broilers during the starter phase.	Zhao X, Zhuang J, Zhang F, Li H, Yu J, Wang C, Lv T, Li Q, Zhang J.	Anim Biosci	10.5713/ab.24.0132	2024
	Polyp and tumor microenvironment reprogramming in colorectal cancer: insights from mucosal bacteriome and metabolite crosstalk.	Feizi H, Kafil HS, Plotnikov A, Kataev V, Balkin A, Filonchikova E, Rezaee MA, Ghotaslou R, Sadrkabir M, Kadkhoda H, Kamounah FS, Nikitin S.	Ann Clin Microbiol Antimicrob	10.1186/s12941-025-00777-9	2025
	The causal relationship between gut microbiota and leukemia: a two-sample Mendelian randomization study.	Chen G, Kuang Z, Li F, Li J.	Front Microbiol	10.3389/fmicb.2023.1293333	2023
	Novel Thermostable Heparinase Based on the Genome of Bacteroides Isolated from Human Gut Microbiota.	Zhang C, Yu L, Zhai Q, Zhao R, Wang C, Zhao J, Zhang H, Chen W, Tian F.	Foods	10.3390/foods11101462	2022
	Human gut bacteria bioaccumulate per- and polyfluoroalkyl substances.	Lindell AE, Griesshammer A, Michaelis L, Papagiannidis D, Ochner H, Kamrad S, Guan R, Blasche S, Ventimiglia LN, Ramachandran B, Ozgur H, Zelezniak A, Beristain-Covarrubias N, Yam-Puc JC, Roux I, Barron LP, Richardson AK, Martin MG, Benes V, Morone N, Thaventhiran JED, Bharat TAM, Savitski MM, Maier L, Patil KR.	Nat Microbiol	10.1038/s41564-025-02032-5	2025
	Amino acid sequence associated with bacteriophage recombination site helps to reveal genes potentially acquired through horizontal gene transfer.	Daugavet MA, Shabelnikov SV, Podgornaya OI.	BMC Bioinformatics	10.1186/s12859-020-03599-y	2020
	Unveiling the connection between gut microbiome and metabolic health in individuals with chronic spinal cord injury.	Li J, Barnes S, Lefkowitz E, Yarar-Fisher C.	Physiol Genomics	10.1152/physiolgenomics.00107.2023	2024
	Fecal Bacteria Act as Novel Biomarkers for Noninvasive Diagnosis of Colorectal Cancer.	Liang Q, Chiu J, Chen Y, Huang Y, Higashimori A, Fang J, Brim H, Ashktorab H, Ng SC, Ng SSM, Zheng S, Chan FKL, Sung JJY, Yu J.	Clin Cancer Res	10.1158/1078-0432.ccr-16-1599	2017
	Comparative analysis of COVID-19 responses in Japan and Africa: diet, phytochemicals, vitamin D, and gut microbiota in reducing mortality-A systematic review and meta-analysis.	Santa K, Tamaki R, Watanabe K, Nagaoka I.	Front Nutr	10.3389/fnut.2024.1465324	2024
	Increased physical activity improves gut microbiota composition and reduces short-chain fatty acid concentrations in older adults with insomnia.	Magzal F, Shochat T, Haimov I, Tamir S, Asraf K, Tuchner-Arieli M, Even C, Agmon M.	Sci Rep	10.1038/s41598-022-05099-w	2022
	Development of an In Vitro Model of the Gut Microbiota Enriched in Mucus-Adhering Bacteria.	Calvigioni M, Panattoni A, Biagini F, Donati L, Mazzantini D, Massimino M, Daddi C, Celandroni F, Vozzi G, Ghelardi E.	Microbiol Spectr	10.1128/spectrum.00336-23	2023
	Colorectal cancer, Vitamin D and microbiota: A double-blind Phase II randomized trial (ColoViD) in colorectal cancer patients.	Bellerba F, Serrano D, Harriet J, Pozzi C, Segata N, NabiNejad A, Piperni E, Gnagnarella P, Macis D, Aristarco V, Accornero CA, Manghi P, Gonzaga AG, Biffi R, Bottiglieri L, Trovato C, Zampino MG, Corso F, Bellocco R, Raimondi S, Rescigno M, Gandini S.	Neoplasia	10.1016/j.neo.2022.100842	2022
Phylogeny	Microbial gut evaluation in an angolan paediatric population with sickle cell disease.	Delgadinho M, Ginete C, Santos B, Mendes J, Miranda A, Vasconcelos J, Brito M.	J Cell Mol Med	10.1111/jcmm.17402	2022
	Dynamics of the gut microbiome, IgA response, and plasma metabolome in the development of pediatric celiac disease.	Girdhar K, Dogru YD, Huang Q, Yang Y, Tolstikov V, Raisingani A, Chrudinova M, Oh J, Kelley K, Ludvigsson JF, Kiebish MA, Palm NW, Ludvigsson J, Altindis E.	Microbiome	10.1186/s40168-022-01429-2	2023
	Dysbiosis promotes recurrence of adenomatous polyps in the distal colorectum.	Yin LL, Qi PQ, Hu YF, Fu XJ, He RS, Wang MM, Deng YJ, Xiong SY, Yu QW, Hu JP, Zhou L, Zhou ZB, Xiong Y, Deng H.	World J Gastrointest Oncol	10.4251/wjgo.v16.i8.3600	2024
Metabolism	Role of intestinal flora in the development of nonalcoholic fatty liver disease in children.	Zhang J, Shi M, Zhao C, Liang G, Li C, Ge X, Pei C, Kong Y, Li D, Yang W, Cao B, Fu L, Yan Y, Wu J, Zhou J, Fang Y, Meng X, Li Y, Wang L, Wang L.	Microbiol Spectr	10.1128/spectrum.01006-23	2024
	Insights into putative alginate lyases from epipelagic and mesopelagic communities of the global ocean.	Lozada M, Dionisi HM.	Sci Rep	10.1038/s41598-025-92960-3	2025
	Non-Invasive Colorectal Cancer Screening: An Overview.	Tepus M, Yau TO.	Gastrointest Tumors	10.1159/000507701	2020
	Joint Asian Pacific Association of Gastroenterology (APAGE)-Asian Pacific Society of Digestive Endoscopy (APSDE) clinical practice guidelines on the use of non-invasive biomarkers for diagnosis of colorectal neoplasia.	Chan FKL, Wong MCS, Chan AT, East JE, Chiu HM, Makharia GK, Weller D, Ooi CJ, Limsrivilai J, Saito Y, Hang DV, Emery JD, Makmun D, Wu K, Ali RAR, Ng SC.	Gut	10.1136/gutjnl-2023-329429	2023
	Characterization of degradation patterns and enzymatic properties of a novel alkali-resistant alginate lyase AlyRm1 from Rubrivirga marina.	Zheng Y, Wang Y, Dan M, Li Y, Zhao G, Wang D.	Curr Res Food Sci	10.1016/j.crfs.2022.100414	2023
	Gut Microbiome-Based Analysis of Lipid A Biosynthesis in Individuals with Autism Spectrum Disorder: An In Silico Evaluation.	Maigoro AY, Lee S.	Nutrients	10.3390/nu13020688	2021
	Contact with adult hen affects development of caecal microbiota in newly hatched chicks.	Kubasova T, Kollarcikova M, Crhanova M, Karasova D, Cejkova D, Sebkova A, Matiasovicova J, Faldynova M, Pokorna A, Cizek A, Rychlik I.	PLoS One	10.1371/journal.pone.0212446	2019
	Sex Differences in Association Between Gut Microbiome and Essential Hypertension Based on Ambulatory Blood Pressure Monitoring.	Virwani PD, Qian G, Hsu MSS, Pijarnvanit TKKTS, Cheung CN, Chow YH, Tang LK, Tse YH, Xian JW, Lam SS, Lee CPI, Lo CCW, Liu RKC, Ho TL, Chow BY, Leung KS, Tsang HW, Lo EKK, Tung KTS, Chung SK, Yuen MF, Leung SY, Ip P, Hung IF, Louie JCY, El-Nezami H, Ho JWK, Lau KK.	Hypertension	10.1161/hypertensionaha.122.20752	2023
	Cancer and the Microbiome of the Human Body.	Herrera-Quintana L, Vazquez-Lorente H, Lopez-Garzon M, Cortes-Martin A, Plaza-Diaz J.	Nutrients	10.3390/nu16162790	2024
	Fecal Microbiota Alterations and Small Intestinal Bacterial Overgrowth in Functional Abdominal Bloating/Distention.	Noh CK, Lee KJ.	J Neurogastroenterol Motil	10.5056/jnm20080	2020
	Plasma and urine proteomics and gut microbiota analysis reveal potential factors affecting COVID-19 vaccination response.	Hu C, Hu W, Tang B, Bao Q, Jiang X, Tang L, Wang H, He L, Lv M, Xiao Y, Liu C, Li X, Liu Y, Li J, Huang G, Dong Z, Li Z, Guo T, Yang S.	iScience	10.1016/j.isci.2024.108851	2024
Phylogeny	Pediatric Acute Lymphoblastic Leukemia Patients Exhibit Distinctive Alterations in the Gut Microbiota.	Liu X, Zou Y, Ruan M, Chang L, Chen X, Wang S, Yang W, Zhang L, Guo Y, Chen Y, Zhang Y, He H, Gan Y, Wang K, Zhu X.	Front Cell Infect Microbiol	10.3389/fcimb.2020.558799	2020
	Holstein and Jersey Steers Differ in Rumen Microbiota and Enteric Methane Emissions Even Fed the Same Total Mixed Ration.	Islam M, Kim SH, Ramos SC, Mamuad LL, Son AR, Yu Z, Lee SS, Cho YI, Lee SS.	Front Microbiol	10.3389/fmicb.2021.601061	2021
	Gut Microbiota Profiles Differ among Individuals Depending on Their Region of Origin: An Italian Pilot Study.	Fontana A, Panebianco C, Picchianti-Diamanti A, Lagana B, Cavalieri D, Potenza A, Pracella R, Binda E, Copetti M, Pazienza V.	Int J Environ Res Public Health	10.3390/ijerph16214065	2019
	Major depletion of insulin sensitivity-associated taxa in the gut microbiome of persons living with HIV controlled by antiretroviral drugs.	Belda E, Capeau J, Zucker JD, Chatelier EL, Pons N, Onate FP, Quinquis B, Alili R, Fellahi S, Katlama C, Clement K, Feve B, Jaureguiberry S, Goujard C, Lambotte O, Dore J, Prifti E, Bastard JP.	BMC Med Genomics	10.1186/s12920-024-01978-5	2024
	Gut Microbiome of Patients With Breast Cancer in Vietnam.	Nguyen SM, Tran HTT, Long J, Shrubsole MJ, Cai H, Yang Y, Nguyen LM, Nguyen GH, Nguyen CV, Ta TV, Wu J, Cai Q, Zheng W, Tran TV, Shu XO.	JCO Glob Oncol	10.1200/go.23.00234	2024
Metabolism	A novel faecal Lachnoclostridium marker for the non-invasive diagnosis of colorectal adenoma and cancer.	Liang JQ, Li T, Nakatsu G, Chen YX, Yau TO, Chu E, Wong S, Szeto CH, Ng SC, Chan FKL, Fang JY, Sung JJY, Yu J.	Gut	10.1136/gutjnl-2019-318532	2020
	Impact of Mediterranean Diet on Disease Activity and Gut Microbiota Composition of Rheumatoid Arthritis Patients.	Picchianti Diamanti A, Panebianco C, Salerno G, Di Rosa R, Salemi S, Sorgi ML, Meneguzzi G, Mariani MB, Rai A, Iacono D, Sesti G, Pazienza V, Lagana B.	Microorganisms	10.3390/microorganisms8121989	2020
Genetics	Metagenome of Gut Microbiota of Children With Nonalcoholic Fatty Liver Disease.	Zhao Y, Zhou J, Liu J, Wang Z, Chen M, Zhou S.	Front Pediatr	10.3389/fped.2019.00518	2019
	Microbiota profile in new-onset pediatric Crohn's disease: data from a non-Western population.	El Mouzan MI, Winter HS, Assiri AA, Korolev KS, Al Sarkhy AA, Dowd SE, Al Mofarreh MA, Menon R.	Gut Pathog	10.1186/s13099-018-0276-3	2018
	Composition of fecal microbiota in low-set rectal cancer patients treated with FOLFOX.	Li J, Li J, Lyu N, Ma Y, Liu F, Feng Y, Yao L, Hou Z, Song X, Zhao H, Li X, Wang Y, Xiao C, Zhu B.	Ther Adv Chronic Dis	10.1177/2040622320904293	2020
	Diet, Microbes, and Cancer Across the Tree of Life: a Systematic Review.	Kapsetaki SE, Marquez Alcaraz G, Maley CC, Whisner CM, Aktipis A.	Curr Nutr Rep	10.1007/s13668-022-00420-5	2022
	Comparative Analysis of Fecal Microbiota Composition Between Rheumatoid Arthritis and Osteoarthritis Patients.	Lee JY, Mannaa M, Kim Y, Kim J, Kim GT, Seo YS.	Genes (Basel)	10.3390/genes10100748	2019
	Seasonal Influence on Rumen Microbiota, Rumen Fermentation, and Enteric Methane Emissions of Holstein and Jersey Steers under the Same Total Mixed Ration.	Islam M, Kim SH, Son AR, Ramos SC, Jeong CD, Yu Z, Kang SH, Cho YI, Lee SS, Cho KK, Lee SS.	Animals (Basel)	10.3390/ani11041184	2021
	Alterations of the Predominant Fecal Microbiota and Disruption of the Gut Mucosal Barrier in Patients with Early-Stage Colorectal Cancer.	Liu X, Cheng Y, Shao L, Ling Z.	Biomed Res Int	10.1155/2020/2948282	2020
	Impact of cigarette smoking on gut microbial dysbiosis: a structured literature review.	Imade EE, Obayagbona NO.	Gut Microbiome (Camb)	10.1017/gmb.2024.3	2024
	Effects of Glucosinolate-Enriched Red Radish (Raphanus sativus) on In Vitro Models of Intestinal Microbiota and Metabolic Syndrome-Related Functionalities.	Roses C, Garcia-Ibanez P, Agudelo A, Viadel B, Tomas-Cobos L, Gallego E, Carvajal M, Milagro FI, Barcelo A.	ACS Omega	10.1021/acsomega.2c08128	2023
Pathogenicity	Synbiotics Easing Renal Failure by Improving Gut Microbiology II (SYNERGY II): A Feasibility Randomized Controlled Trial.	McFarlane C, Krishnasamy R, Stanton T, Savill E, Snelson M, Mihala G, Kelly JT, Morrison M, Johnson DW, Campbell KL.	Nutrients	10.3390/nu13124481	2021
	Gut microbiota as a new target for anticancer therapy: from mechanism to means of regulation.	Sun J, Song S, Liu J, Chen F, Li X, Wu G.	NPJ Biofilms Microbiomes	10.1038/s41522-025-00678-x	2025
Pathogenicity	Quinones are growth factors for the human gut microbiota.	Fenn K, Strandwitz P, Stewart EJ, Dimise E, Rubin S, Gurubacharya S, Clardy J, Lewis K.	Microbiome	10.1186/s40168-017-0380-5	2017
Metabolism	Structural and Functional Characterization of the Gut Microbiota in Elderly Women With Migraine.	Chen J, Wang Q, Wang A, Lin Z.	Front Cell Infect Microbiol	10.3389/fcimb.2019.00470	2019
	The Microbial and Metabolic Signatures of Patients with Stable Coronary Artery Disease.	Zhong J, Wu D, Zeng Y, Wu G, Zheng N, Huang W, Li Y, Tao X, Zhu W, Sheng L, Shen X, Zhang W, Zhu R, Li H.	Microbiol Spectr	10.1128/spectrum.02467-22	2022
Pathogenicity	Effect of host breeds on gut microbiome and serum metabolome in meat rabbits.	Ye X, Zhou L, Zhang Y, Xue S, Gan QF, Fang S.	BMC Vet Res	10.1186/s12917-020-02732-6	2021
	Effects of enriched seafood sticks (heat-inactivated B. animalis subsp. lactis CECT 8145, inulin, omega-3) on cardiometabolic risk factors and gut microbiota in abdominally obese subjects: randomized controlled trial.	Companys J, Calderon-Perez L, Pla-Paga L, Llaurado E, Sandoval-Ramirez BA, Gosalbes MJ, Arregui A, Barandiaran M, Caimari A, Del Bas JM, Arola L, Valls RM, Sola R, Pedret A.	Eur J Nutr	10.1007/s00394-022-02904-0	2022
Metabolism	Ancient acquisition of "alginate utilization loci" by human gut microbiota.	Mathieu S, Touvrey-Loiodice M, Poulet L, Drouillard S, Vincentelli R, Henrissat B, Skjak-Braek G, Helbert W.	Sci Rep	10.1038/s41598-018-26104-1	2018
	Association of Flavonifractor plautii, a Flavonoid-Degrading Bacterium, with the Gut Microbiome of Colorectal Cancer Patients in India.	Gupta A, Dhakan DB, Maji A, Saxena R, P K VP, Mahajan S, Pulikkan J, Kurian J, Gomez AM, Scaria J, Amato KR, Sharma AK, Sharma VK.	mSystems	10.1128/msystems.00438-19	2019
	Human Gut Microbiome-Based Knowledgebase as a Biomarker Screening Tool to Improve the Predicted Probability for Colorectal Cancer.	Zhou Z, Ge S, Li Y, Ma W, Liu Y, Hu S, Zhang R, Ma Y, Du K, Syed A, Chen P.	Front Microbiol	10.3389/fmicb.2020.596027	2020
	Oral Administration of Compound Probiotics Improved Canine Feed Intake, Weight Gain, Immunity and Intestinal Microbiota.	Xu H, Huang W, Hou Q, Kwok LY, Laga W, Wang Y, Ma H, Sun Z, Zhang H.	Front Immunol	10.3389/fimmu.2019.00666	2019
	Gut Microbiome in Colorectal Cancer: Clinical Diagnosis and Treatment.	Liu Y, Lau HC, Cheng WY, Yu J.	Genomics Proteomics Bioinformatics	10.1016/j.gpb.2022.07.002	2023
	Cross-cohort gut microbiome associations with immune checkpoint inhibitor response in advanced melanoma.	Lee KA, Thomas AM, Bolte LA, Bjork JR, de Ruijter LK, Armanini F, Asnicar F, Blanco-Miguez A, Board R, Calbet-Llopart N, Derosa L, Dhomen N, Brooks K, Harland M, Harries M, Leeming ER, Lorigan P, Manghi P, Marais R, Newton-Bishop J, Nezi L, Pinto F, Potrony M, Puig S, Serra-Bellver P, Shaw HM, Tamburini S, Valpione S, Vijay A, Waldron L, Zitvogel L, Zolfo M, de Vries EGE, Nathan P, Fehrmann RSN, Bataille V, Hospers GAP, Spector TD, Weersma RK, Segata N.	Nat Med	10.1038/s41591-022-01695-5	2022
Pathogenicity	Gut Microbiota Markers and Dietary Habits Associated with Extreme Longevity in Healthy Sardinian Centenarians.	Palmas V, Pisanu S, Madau V, Casula E, Deledda A, Cusano R, Uva P, Loviselli A, Velluzzi F, Manzin A.	Nutrients	10.3390/nu14122436	2022
	Dietary ellagic acid ameliorated Clostridium perfringens-induced subclinical necrotic enteritis in broilers via regulating inflammation and cecal microbiota.	Tang Y, Zhang X, Wang Y, Guo Y, Zhu P, Li G, Zhang J, Ma Q, Zhao L.	J Anim Sci Biotechnol	10.1186/s40104-022-00694-3	2022
	Altered metabolome and microbiome features provide clues in understanding irritable bowel syndrome and depression comorbidity.	Han L, Zhao L, Zhou Y, Yang C, Xiong T, Lu L, Deng Y, Luo W, Chen Y, Qiu Q, Shang X, Huang L, Mo Z, Huang S, Huang S, Liu Z, Yang W, Zhai L, Ning Z, Lin C, Huang T, Cheng C, Zhong LLD, Li S, Li S, Bian Z, Fang X.	ISME J	10.1038/s41396-021-01123-5	2022
Metabolism	Vitamin Biosynthesis by Human Gut Butyrate-Producing Bacteria and Cross-Feeding in Synthetic Microbial Communities.	Soto-Martin EC, Warnke I, Farquharson FM, Christodoulou M, Horgan G, Derrien M, Faurie JM, Flint HJ, Duncan SH, Louis P.	mBio	10.1128/mbio.00886-20	2020
	Type VI secretion systems of human gut Bacteroidales segregate into three genetic architectures, two of which are contained on mobile genetic elements.	Coyne MJ, Roelofs KG, Comstock LE.	BMC Genomics	10.1186/s12864-016-2377-z	2016
	Ehrlichia chaffeensis tandem repeat proteins and Ank200 are type 1 secretion system substrates related to the repeats-in-toxin exoprotein family.	Wakeel A, den Dulk-Ras A, Hooykaas PJ, McBride JW.	Front Cell Infect Microbiol	10.3389/fcimb.2011.00022	2011
Phylogeny	Paraphocaeicola brunensis gen. nov., sp. nov., Carrying Two Variants of nimB Resistance Gene from Bacteroides fragilis, and Caecibacteroides pullorum gen. nov., sp. nov., Two Novel Genera Isolated from Chicken Caeca.	Kralova S, Davidova-Gerzova L, Valcek A, Bezdicek M, Rychlik I, Rezacova V, Cizek A.	Microbiol Spectr	10.1128/spectrum.01954-21	2022
Phylogeny	Bacteroides propionicigenes sp. nov., isolated from human faeces.	Sun XW, Abdugheni R, Huang HJ, Wang YJ, Jiang MZ, Liu C, Zhou N, Jiang H, Liu SJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.005397	2022
Phylogeny	Bacteroides clarus sp. nov., Bacteroides fluxus sp. nov. and Bacteroides oleiciplenus sp. nov., isolated from human faeces.	Watanabe Y, Nagai F, Morotomi M, Sakon H, Tanaka R	Int J Syst Evol Microbiol	10.1099/ijs.0.015107-0	2009

References

#16376	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 22519
#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 )
#25928	IJSEM 1864 2010 ( DOI 10.1099/ijs.0.015107-0 , PubMed 19767355 )
#29531	Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #25928
#62494	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 60911
#66792	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#68367	Automatically annotated from API 20A .
#68380	Automatically annotated from API rID32A .
#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 .
#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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Bacteroides clarus (DSM 22519, JCM 16067, CCUG 60911)

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