Bifidobacterium dentium (DSM 20436, ATCC 27534, B764)

Name: Bifidobacterium dentium (DSM 20436, ATCC 27534, B764)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 1704

Type strain

Strain Designation B764

Culture col. no. DSM 20436 ATCC 27534 B764 NCTC 11816 NCFB 2243 8 more

NCBI tax ID(s) 1150423 1689

Special Collections DSMZ CCUG JCM KCTC CIP

Links

Bifidobacterium dentium B764 is an anaerobe, mesophilic prokaryote that was isolated from dental caries.

anaerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 1248

LMG 10506,ATCC 27534,CCUG 17378,CCUG 18367,JCM 1195,LMG 11044,LMG 11045,NCFB 2243,NCTC 11816,CECT 687,LMG 10647,CIP 104176,CCRC 14662,NCIMB 702243,NCDO2243,KCTC 3222,AS 1.2188,CCM 7206,BCRC 14662,HAMBI 556,NCAIM B.02023,CGMCC 1.2188,VTT E-991438,DSM 20436

@ref 20215

Last LPSN update 2025-12-16 09:47:10

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Bifidobacteriales

Family Bifidobacteriaceae

Genus Bifidobacterium

Species Bifidobacterium dentium

Full scientific name Bifidobacterium dentium Scardovi and Crociani 1974 (Approved Lists 1980)

BacDive ID	Other strains from **Bifidobacterium dentium** (7)	Type strain
1702	B. dentium DSM 20084, ATCC 15423
1703	B. dentium B735, DSM 20221, JCM 7135, JCM 1258
143134	B. dentium CCUG 17365
143135	B. dentium CCUG 17366
151364	B. dentium CCUG 43878
151655	B. dentium CCUG 44545
153394	B. dentium CCUG 49431

Morphology

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
8812	BIFIDOBACTERIUM MEDIUM (DSMZ Medium 58)	Medium recipe at MediaDive	Name: BIFIDOBACTERIUM MEDIUM (DSMZ Medium 58) Composition: Glucose 10.0 g/l Casein peptone 10.0 g/l Bacto Soytone 5.0 g/l Meat extract 5.0 g/l Yeast extract 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l MnSO4 x H2O 0.05 g/l KH2PO4 0.04 g/l K2HPO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Tween 80 Resazurin Distilled water
34556	MEDIUM 20 - for Anaerobic bacteria		Agar (15.000 g);Glucose (5.000 g);Yeast extract (20.000 g);Tryptone (30.000 g);Cysteine hydrochloride (0.500 g);distilled water (1000.000 ml);Hemin solution -M00149 (25.000 ml)
8812	COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)	Medium recipe at MediaDive	Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
118913	CIP Medium 20	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
8812	positive	growth	37	mesophilic
34556	positive	growth	37	mesophilic
67770	positive	growth	37	mesophilic

Physiology and metabolism

Oxygen tolerance

8812

Oxygen toleranceanaerobe

Spore formation

@ref	Spore formation	Confidence
125439		97.4

Murein

@ref	Murein short key	Type
8812	A11.32	A4alpha L-Lys(L-Orn)-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
68380	29016 ChEBI	arginine	-	hydrolysis	from API rID32A
68371	17057 ChEBI	cellobiose	+	builds acid from	from API 50CH acid
68367	17057 ChEBI	cellobiose	+	builds acid from	from API 20A
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	12936 ChEBI	D-galactose	+	builds acid from	from API 50CH acid
68371	17634 ChEBI	D-glucose	+	builds acid from	from API 50CH acid
68367	17634 ChEBI	D-glucose	+	builds acid from	from API 20A
68371	62318 ChEBI	D-lyxose	-	builds acid from	from API 50CH acid
68371	16899 ChEBI	D-mannitol	+	builds acid from	from API 50CH acid
68367	16899 ChEBI	D-mannitol	+	builds acid from	from API 20A
68371	16024 ChEBI	D-mannose	+	builds acid from	from API 50CH acid
68380	16024 ChEBI	D-mannose	+	fermentation	from API rID32A
68367	16024 ChEBI	D-mannose	+	builds acid from	from API 20A
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	16443 ChEBI	D-tagatose	-	builds acid from	from API 50CH acid
68371	65327 ChEBI	D-xylose	+	builds acid from	from API 50CH acid
68367	65327 ChEBI	D-xylose	+	builds acid from	from API 20A
68371	17113 ChEBI	erythritol	-	builds acid from	from API 50CH acid
68371	4853 ChEBI	esculin	+	builds acid from	from API 50CH acid
68367	4853 ChEBI	esculin	+	hydrolysis	from API 20A
68371	16813 ChEBI	galactitol	-	builds acid from	from API 50CH acid
68367	5291 ChEBI	gelatin	-	hydrolysis	from API 20A
68371	28066 ChEBI	gentiobiose	+	builds acid from	from API 50CH acid
68371	17754 ChEBI	glycerol	-	builds acid from	from API 50CH acid
68367	17754 ChEBI	glycerol	+	builds acid from	from API 20A
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
68367	30849 ChEBI	L-arabinose	+	builds acid from	from API 20A
68371	18403 ChEBI	L-arabitol	-	builds acid from	from API 50CH acid
68371	18287 ChEBI	L-fucose	-	builds acid from	from API 50CH acid
68380	29985 ChEBI	L-glutamate	-	degradation	from API rID32A
68371	62345 ChEBI	L-rhamnose	-	builds acid from	from API 50CH acid
68367	62345 ChEBI	L-rhamnose	+	builds acid from	from API 20A
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	17716 ChEBI	lactose	+	builds acid from	from API 50CH acid
68367	17716 ChEBI	lactose	+	builds acid from	from API 20A
68371	17306 ChEBI	maltose	+	builds acid from	from API 50CH acid
68367	17306 ChEBI	maltose	+	builds acid from	from API 20A
68371	6731 ChEBI	melezitose	-	builds acid from	from API 50CH acid
68367	6731 ChEBI	melezitose	+	builds acid from	from API 20A
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
68380	17632 ChEBI	nitrate	-	reduction	from API rID32A
68371		Potassium 5-ketogluconate	-	builds acid from	from API 50CH acid
68380	16634 ChEBI	raffinose	+	fermentation	from API rID32A
68371	16634 ChEBI	raffinose	+	builds acid from	from API 50CH acid
68367	16634 ChEBI	raffinose	+	builds acid from	from API 20A
68371	15963 ChEBI	ribitol	-	builds acid from	from API 50CH acid
68371	17814 ChEBI	salicin	+	builds acid from	from API 50CH acid
68367	17814 ChEBI	salicin	+	builds acid from	from API 20A
68367	30911 ChEBI	sorbitol	+	builds acid from	from API 20A
68371	28017 ChEBI	starch	+	builds acid from	from API 50CH acid
68371	17992 ChEBI	sucrose	+	builds acid from	from API 50CH acid
68367	17992 ChEBI	sucrose	+	builds acid from	from API 20A
68371	27082 ChEBI	trehalose	-	builds acid from	from API 50CH acid
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
68371	32528 ChEBI	turanose	+	builds acid from	from API 50CH acid
68380	16199 ChEBI	urea	-	hydrolysis	from API rID32A
68367	16199 ChEBI	urea	-	hydrolysis	from API 20A
68371	17151 ChEBI	xylitol	-	builds acid from	from API 50CH acid

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
68380	alpha-galactosidase	+	3.2.1.22	from API rID32A
68380	alpha-glucosidase	+	3.2.1.20	from API rID32A
68380	arginine dihydrolase	-	3.5.3.6	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	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	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
8812	-	-	+	+	+	+	+	+	+	+	-	+	+	+	+	+	+	+	+	+	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.

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
8812	-	-	-	-	+	+	+	-	-	-	+	+	+	+	-	-	-	-	+	-	-	+	-	+	+	+	+	+	+	+	+	+	-	-	-	+	+	+	-	+	+	-	-	-	-	-	-	-	-	-
8812	-	-	-	-	+	+	+	-	-	-	+	+	+	+	-	-	-	-	+	-	-	+	-	+	+	+	+	+	+	+	+	+	-	-	-	+	+	+	-	+	+	-	-	-	-	-	-	+	+	-

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
8812	-	-	+	+	-	+	+	+	-	-	+	+	-	-	-	-	-	+	+	-	+	+/-	-	+	-	+	+	-	+/-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host Body-Site	#Oral cavity and airways	#Tooth

Isolation

@ref	Sample type
8812	dental caries
67770	Dental caries
118913	Human, Dental caries

Taxonmaps

69479

Global distribution of 16S sequence LC071795 (>99% sequence identity) for Bifidobacterium dentium subclade from Microbeatlas

Aquatic Samples	2127
Soil Samples	778
Animal Samples	98673
Plant Samples	241
Total Samples	101819

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
8812	2	Risk group (German classification) According to TRBA 466
118913	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
66792	49569_F01 assembly for Bifidobacterium dentium NCTC11816	complete	GCA_900637175	1689.18	8113767163	1689	98.53
67770	ASM104259v1 assembly for Bifidobacterium dentium JCM 1195 = DSM 20436	complete	GCA_001042595		2816332288	1150423	97.89
67770	IMG-taxon 2634166294 annotated assembly for Bifidobacterium dentium JCM 1195 = DSM 20436	contig	GCA_900105745	1150423.6	2634166294	1150423	75.01
67770	DSM-20436 assembly for Bifidobacterium dentium JCM 1195 = DSM 20436	contig	GCA_000771725	1150423.3	2700989376	1150423	72

Genome browser: GCA_900637175

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Bifidobacterium dentium gene for 16S rRNA, partial sequence, strain: ATCC 27534	D86183	1520	1150423
20218	Bifidobacterium dentium ATCC 27534 16S-23S rRNA intergenic spacer	U10434	494	1150423
20218	Bifidobacterium dentium gene for 16S rRNA, partial sequence, strain: JCM 1195	AB116299	479	1150423
20218	Bifidobacterium dentium gene for 16S rRNA, partial sequence, strain: JCM 1195	AB507095	668	1150423
20218	Bifidobacterium dentium strain KCTC 3222 16S ribosomal RNA gene, partial sequence	GU361819	1483	1150423
67770	Bifidobacterium dentium gene for 16S ribosomal RNA, partial sequence, strain: JCM 1195	LC071795	1420	1150423

GC content

@ref	GC-content (mol%)
8812	61.2
67770	61.2

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Bifidobacterium dentium strain NCTC11816
PATRIC: 1689.18

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	97.40	no
125439	motility	BacteriaNetⓘ	no	50.30	no
125439	gram_stain	BacteriaNetⓘ	negative	80.80	no
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	86.90	no

Literature

Title	Authors	Journal	DOI	Year
Genetic insights into the dark matter of the mammalian gut microbiota through targeted genome reconstruction.	Lugli GA, Alessandri G, Milani C, Viappiani A, Fontana F, Tarracchini C, Mancabelli L, Argentini C, Ruiz L, Margolles A, van Sinderen D, Turroni F, Ventura M.	Environ Microbiol	10.1111/1462-2920.15559	2021
The metabolic profile of Bifidobacterium dentium reflects its status as a human gut commensal.	Engevik MA, Danhof HA, Hall A, Engevik KA, Horvath TD, Haidacher SJ, Hoch KM, Endres BT, Bajaj M, Garey KW, Britton RA, Spinler JK, Haag AM, Versalovic J.	BMC Microbiol	10.1186/s12866-021-02166-6	2021
Decoding the Genomic Variability among Members of the Bifidobacterium dentium Species.	Lugli GA, Tarracchini C, Alessandri G, Milani C, Mancabelli L, Turroni F, Neuzil-Bunesova V, Ruiz L, Margolles A, Ventura M.	Microorganisms	10.3390/microorganisms8111720	2020
Bifidobacterium beta-Glucosidase Activity and Fermentation of Dietary Plant Glucosides Is Species and Strain Specific.	Modrackova N, Vlkova E, Tejnecky V, Schwab C, Neuzil-Bunesova V.	Microorganisms	10.3390/microorganisms8060839	2020
Bifidobacterium dentium Fortifies the Intestinal Mucus Layer via Autophagy and Calcium Signaling Pathways.	Engevik MA, Luk B, Chang-Graham AL, Hall A, Herrmann B, Ruan W, Endres BT, Shi Z, Garey KW, Hyser JM, Versalovic J.	mBio	10.1128/mbio.01087-19	2019
Human milk microbiota in sub-acute lactational mastitis induces inflammation and undergoes changes in composition, diversity and load.	Boix-Amoros A, Hernandez-Aguilar MT, Artacho A, Collado MC, Mira A.	Sci Rep	10.1038/s41598-020-74719-0	2020
Osteopontin adsorption to Gram-positive cells reduces adhesion forces and attachment to surfaces under flow.	Kristensen MF, Zeng G, Neu TR, Meyer RL, Baelum V, Schlafer S.	J Oral Microbiol	10.1080/20002297.2017.1379826	2017
Ratiometric imaging of extracellular pH in bacterial biofilms with C-SNARF-4.	Schlafer S, Garcia JE, Greve M, Raarup MK, Nyvad B, Dige I.	Appl Environ Microbiol	10.1128/aem.02831-14	2015
Bifidobacterial biofilm formation is a multifactorial adaptive phenomenon in response to bile exposure.	Kelly SM, Lanigan N, O'Neill IJ, Bottacini F, Lugli GA, Viappiani A, Turroni F, Ventura M, van Sinderen D.	Sci Rep	10.1038/s41598-020-68179-9	2020
Identification of species belonging to the Bifidobacterium genus by PCR-RFLP analysis of a hsp60 gene fragment.	Baffoni L, Stenico V, Strahsburger E, Gaggia F, Di Gioia D, Modesto M, Mattarelli P, Biavati B.	BMC Microbiol	10.1186/1471-2180-13-149	2013
Microbial Etiology and Prevention of Dental Caries: Exploiting Natural Products to Inhibit Cariogenic Biofilms.	Chen X, Daliri EB, Kim N, Kim JR, Yoo D, Oh DH.	Pathogens	10.3390/pathogens9070569	2020
In Vitro and In Vivo Activities of DS-2969b, a Novel GyrB Inhibitor, against Clostridium difficile.	Mathur T, Barman TK, Kumar M, Singh D, Kumar R, Khera MK, Yamada M, Inoue SI, Upadhyay DJ, Masuda N.	Antimicrob Agents Chemother	10.1128/aac.02157-17	2018
The role of 16S rRNA gene sequencing in identification of microorganisms misidentified by conventional methods.	Petti CA, Polage CR, Schreckenberger P.	J Clin Microbiol	10.1128/jcm.43.12.6123-6125.2005	2005
Diversity, ecology and intestinal function of bifidobacteria.	Bottacini F, Ventura M, van Sinderen D, O'Connell Motherway M.	Microb Cell Fact	10.1186/1475-2859-13-s1-s4	2014
Lifestyle, dietary factors, and antibody levels to oral bacteria in cancer-free participants of a European cohort study.	Michaud DS, Izard J, Rubin Z, Johansson I, Weiderpass E, Tjonneland A, Olsen A, Overvad K, Boutron-Ruault MC, Clavel-Chapelon F, Dossus L, Kaaks R, Katzke VA, Boeing H, Foerster J, Trichopoulou A, Naska A, Ziara G, Vineis P, Grioni S, Palli D, Tumino R, Mattiello A, Peeters PH, Siersema PD, Barricarte A, Huerta JM, Molina-Montes E, Dorronsoro M, Quiros JR, Duell EJ, Ohlsson B, Jeppsson B, Johansson A, Lif P, Khaw KT, Wareham N, Travis RC, Key TJ, Freisling H, Duarte-Salles T, Stepien M, Riboli E, Bueno-de-Mesquita HB.	Cancer Causes Control	10.1007/s10552-013-0265-2	2013
Species-specific oligonucleotide probes for five Bifidobacterium species detected in human intestinal microflora.	Yamamoto T, Morotomi M, Tanaka R.	Appl Environ Microbiol	10.1128/aem.58.12.4076-4079.1992	1992
Extracellular dextranase activity produced by human oral strains of the genus Bifidobacterium.	Kaster AG, Brown LR.	Infect Immun	10.1128/iai.42.2.716-720.1983	1983
Plasma antibodies to oral bacteria and risk of pancreatic cancer in a large European prospective cohort study.	Michaud DS, Izard J, Wilhelm-Benartzi CS, You DH, Grote VA, Tjonneland A, Dahm CC, Overvad K, Jenab M, Fedirko V, Boutron-Ruault MC, Clavel-Chapelon F, Racine A, Kaaks R, Boeing H, Foerster J, Trichopoulou A, Lagiou P, Trichopoulos D, Sacerdote C, Sieri S, Palli D, Tumino R, Panico S, Siersema PD, Peeters PH, Lund E, Barricarte A, Huerta JM, Molina-Montes E, Dorronsoro M, Quiros JR, Duell EJ, Ye W, Sund M, Lindkvist B, Johansen D, Khaw KT, Wareham N, Travis RC, Vineis P, Bueno-de-Mesquita HB, Riboli E.	Gut	10.1136/gutjnl-2012-303006	2013
Nutraceuticals in Periodontal Health: A Systematic Review on the Role of Vitamins in Periodontal Health Maintenance.	Varela-Lopez A, Navarro-Hortal MD, Giampieri F, Bullon P, Battino M, Quiles JL.	Molecules	10.3390/molecules23051226	2018
Bifidobacterium lactis DSM 10140: identification of the atp (atpBEFHAGDC) operon and analysis of its genetic structure, characteristics, and phylogeny.	Ventura M, Canchaya C, van Sinderen D, Fitzgerald GF, Zink R.	Appl Environ Microbiol	10.1128/aem.70.5.3110-3121.2004	2004
Bifidobacterial diversity in human feces detected by genus-specific PCR and denaturing gradient gel electrophoresis.	Satokari RM, Vaughan EE, Akkermans AD, Saarela M, de Vos WM.	Appl Environ Microbiol	10.1128/aem.67.2.504-513.2001	2001
Quantification of different Eubacterium spp. in human fecal samples with species-specific 16S rRNA-targeted oligonucleotide probes.	Schwiertz A, Le Blay G, Blaut M.	Appl Environ Microbiol	10.1128/aem.66.1.375-382.2000	2000
Rapid identification of Actinomycetaceae and related bacteria.	Kilian M.	J Clin Microbiol	10.1128/jcm.8.2.127-133.1978	1978
Oral Microbiota Composition and Its Association with Gastrointestinal and Developmental Abnormalities in Children with Autism Spectrum Disorder.	Lewandowska-Pietruszka Z, Figlerowicz M, Mazur-Melewska K.	Microorganisms	10.3390/microorganisms13081822	2025
Cross-ethnic evaluation of gut microbial signatures reveal increased colonization with oral pathobionts in the north Indian inflammatory bowel disease cohort.	Singh A, Juyal G, Gacesa R, Joshi MC, Midha V, Thelma BK, Weersma RK, Sood A.	Intest Res	10.5217/ir.2024.00216	2025
Metabolic diversity and competitive interactions of infant-derived bifidobacteria in human milk oligosaccharides and galacto-oligosaccharide utilization.	He S, Chen C, Cao L, Nauta A, Liu X, Chen H, Spoelstra J, Yang B.	J Dairy Sci	10.3168/jds.2025-26559	2025
Gestational administration of Bifidobacterium dentium results in intergenerational modulation of inflammatory, metabolic, and social behavior.	Galley JD, King MK, Rajasekera TA, Batabyal A, Woodke ST, Gur TL.	Brain Behav Immun	10.1016/j.bbi.2024.08.006	2024
Exploring bacterial metabolites in microbe-human host dialogue and their therapeutic potential in Alzheimer's diseases.	Singh SD, Bharali P, Nagamani S.	Mol Divers	10.1007/s11030-024-11028-y	2025
Identification of the bacterial phylotypes Bifidobacterium dentium, Actinomyces naeslundii, and Propionibacterium species in deep dental caries using fluorescence in situ hybridization.	Chandra MA, Pujar M, Bhat KG, Kumbhar V, Bhatt AA.	J Conserv Dent Endod	10.4103/jcde.jcde_409_24	2024
Are Bifidobacterium Species Key Players in the Progression of Type 1 Diabetes? A Systematic Review.	Vergoz V, Jeong D, Hamilton-Williams EE.	Endocrinol Diabetes Metab	10.1002/edm2.70120	2025
Microbiome-metabolome dysbiosis of bronchoalveolar lavage fluid of lung cancer patients.	Wang J, Su W, Chen Q, Zhou J, Wang X, Jiang R, Li J, Xing P.	Front Microbiol	10.3389/fmicb.2025.1669172	2025
A Metagenomics Approach to Frailty in Patients With Cirrhosis Undergoing a Multifactorial Intervention.	Vega-Abellaneda S, Roman E, Soler Z, Ortiz MA, Rossi G, Biagini L, Sanchez E, Pons-Tarin M, Laghi L, Mengucci C, Kaur N, Poca M, Cuyas B, Serrano-Gomez G, Alvarado E, Manichanh C, Soriano G.	Liver Int	10.1111/liv.70418	2025
Gene-trait matching among Bifidobacterium dentium strains reveals various glycan metabolism loci including a strain-specific fucosyllactose utilization cluster.	Catalano Gonzaga O, McKenna S, O'Neill I, Cotter PD, McAuliffe FM, Coffey A, van Sinderen D, Bottacini F.	Front Microbiol	10.3389/fmicb.2025.1584694	2025
Microbiota Association and Profiling of Gingival Sulci and Root Canals of Teeth with Primary or Secondary/Persistent Endodontic Infections.	Park DH, Park OJ, Yoo YJ, Perinpanayagam H, Cho EB, Kim K, Park J, Noblett WC, Kum KY, Han SH.	J Endod	10.1016/j.joen.2024.04.016	2024
The Impact of Bacterial-Fungal Interactions on Childhood Caries Pathogenesis.	Huang S, Wang H, Tian J, Qin M, Gao R, Zhao B, Wang J, Wu H, Xu H.	Pathogens	10.3390/pathogens14101033	2025
Comparative Analysis of Microbiological Profiles and Antibiotic Resistance Genes in Subjects with Colorectal Cancer and Healthy Individuals.	Li J, Zhu Y, Chang Q, Gong Y, Wan J, Xu S.	Pol J Microbiol	10.33073/pjm-2025-006	2025
Lymphocyte and neutrophil count combined with intestinal bacteria abundance predict the severity of COVID-19.	Chen L, Yin Z, Zhou D, Li X, Yu C, Luo C, Jin Y, Zhang L, Song J, Rasche L, Einsele H, Tu L, Zhou X, Bai T, Hou X.	Microbiol Spectr	10.1128/spectrum.03027-23	2024
Thoracic empyema caused by Alloscardovia omnicolens and Bifidobacteriumdentium.	Takiguchi Y, Nagayoshi M, Matsuura Y, Yokota S, Kajiwara Y, Akiba Y.	J Infect Chemother	10.1016/j.jiac.2022.07.021	2022
Healthy Ageing and Gut Microbiota: A Study on Longevity in Adults.	Deng L, Xu J, Xue Q, Wei Y, Wang J.	Microorganisms	10.3390/microorganisms13071657	2025
Linking peri-implantitis to microbiome changes in affected implants, healthy implants, and saliva: a cross-sectional pilot study.	Bessa LJ, Egas C, Pires C, Proenca L, Mascarenhas P, Pais RJ, Barroso H, Machado V, Botelho J, Alcoforado G, Mendes JJ, Alves R.	Front Cell Infect Microbiol	10.3389/fcimb.2025.1543100	2025
Evaluation of the Effect of Probiotic Supplementation on Intestinal Barrier Integrity and Epithelial Damage in Colitis Disease: A Systematic Review.	Sivri D, Seref B, Sare Bulut M, Gezmen Karadag M.	Nutr Rev	10.1093/nutrit/nuae180	2025
Interrogation of the mammalian gut-brain axis using LC-MS/MS-based targeted metabolomics with in vitro bacterial and organoid cultures and in vivo gnotobiotic mouse models.	Horvath TD, Haidacher SJ, Engevik MA, Luck B, Ruan W, Ihekweazu F, Bajaj M, Hoch KM, Oezguen N, Spinler JK, Versalovic J, Haag AM.	Nat Protoc	10.1038/s41596-022-00767-7	2023
Urine amino acid and gamma aminobutyric acid level in COVID 19 patients	Kazezoglu C, Irvem A, Sutasir Y, Cakiroglu B, Kirgiz B, Yilmaz H, Kocatas A.	Iran J Microbiol		2025
Effects of dietary supplementation of myristic acid on jejunal mucosa-associated microbiota, mucosal immunity, and growth performance of nursery pigs.	Choi H, Rocha GC, Kim SW.	Anim Sci J	10.1111/asj.70027	2025
Cervical and Vaginal Microbiomes in Early Miscarriages and Ongoing Pregnancy with and without Dydrogesterone Usage.	Gryaznova M, Kozarenko O, Smirnova Y, Burakova I, Syromyatnikov M, Maslov A, Lebedeva O.	Int J Mol Sci	10.3390/ijms241813836	2023
Maternal anxiety, depression and stress affects offspring gut microbiome diversity and bifidobacterial abundances.	Galley JD, Mashburn-Warren L, Blalock LC, Lauber CL, Carroll JE, Ross KM, Hobel C, Coussons-Read M, Dunkel Schetter C, Gur TL.	Brain Behav Immun	10.1016/j.bbi.2022.10.005	2023
Joint Bacterial Traces in the Gut and Oral Cavity of Obesity Patients Provide Evidence for Saliva as a Rich Microbial Biomarker Source.	Rehner J, Gund M, Becker SL, Hannig M, Rupf S, Schattenberg JM, Keller A, The Imagine Consortium, Molano LG, Keller V.	Nutrients	10.3390/nu17223527	2025
Children who develop celiac disease are predicted to exhibit distinct metabolic pathways among their gut microbiota years before diagnosis.	Kelley K, Dogru D, Huang Q, Yang Y, Palm NW, Altindis E, Ludvigsson J.	Microbiol Spectr	10.1128/spectrum.01468-24	2025
A Novel Frontier in Gut-Brain Axis Research: The Transplantation of Fecal Microbiota in Neurodegenerative Disorders.	Eslami M, Adampour Z, Fadaee Dowlat B, Yaghmayee S, Motallebi Tabaei F, Oksenych V, Naderian R.	Biomedicines	10.3390/biomedicines13040915	2025
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
MAGs-based genomic comparison of gut significantly enriched microbes in obese individuals pre- and post-bariatric surgery across diverse locations.	Shi H, Li J.	Front Cell Infect Microbiol	10.3389/fcimb.2025.1485048	2025
Probiotic Bifidobacterium reduces serum TMAO in unstable angina patients via the gut to liver to heart axis.	Zhou Z, Sun L, Zhou W, Gao W, Yuan X, Zhou H, Ren Y, Li B, Wu Y, She J.	Liver Res	10.1016/j.livres.2025.02.001	2025
Molecular analyses indicate profuse bacterial diversity in primary and post- treatment endodontic infections within a cohort from the United Arab Emirates-A preliminary study.	B Abraham S, Al-Marzooq F, Samaranayake L, Hamoudi RA, Himratul-Aznita WH, Aly Ahmed HM.	PLoS One	10.1371/journal.pone.0305537	2024
Active Bacteria in Carious Dentin of Mandibular Molars with Different Pulp Conditions: An In Vivo Study.	Selvakumar DR, Krishnamoorthy S, Venkatesan K, Ramanathan A, Abbott PV, Angambakkam Rajasekaran P.	J Endod	10.1016/j.joen.2021.08.018	2021
Origin of fecal contamination in lettuce and strawberries: From microbial indicators, molecular markers, and H. pylori.	Vesga FJ, Venegas C, Florez Martinez V, Sanchez-Alfonso AC, Trespalacios AA.	Heliyon	10.1016/j.heliyon.2024.e36526	2024
In Vitro Probiotic Modulation of Specific Dietary Complex Sugar Consumption in Fecal Cultures in Infants.	Mollova D, Baev V, Iliev I.	Microorganisms	10.3390/microorganisms13102352	2025
Metagenomic analysis of fecal samples in colorectal cancer Egyptians patients post colectomy: A pilot study.	Abo-Hammam RH, Salah M, Shabayek S, Hanora A, Zakeer S, Khattab RH.	AIMS Microbiol	10.3934/microbiol.2024008	2024
Culture-based characterization of gut microbiota in inflammatory bowel disease.	Park H, Yeo S, Lee T, Han Y, Ryu CB, Huh CS.	Front Microbiol	10.3389/fmicb.2025.1538620	2025
Supragingival plaque microbiota and caries risk factors among children with mixed dentition.	Opydo-Szymaczek J, Torlinska-Walkowiak N, Mackowiak K, Mizgier M, Pacholak K, Olejnik-Schmidt A, Schmidt M, Sniatala R.	BMC Oral Health	10.1186/s12903-025-06123-x	2025
Shotgun metagenomics of the vaginal microbiome in cervical shortening and preterm birth risk.	Lee KY, Shin SH, Park G, Kang SH, Kang HJ, Kim J, Lee JJ, Son GH, Hong JY.	Sci Rep	10.1038/s41598-025-23737-x	2025
Pharmaco-psychiatry and gut microbiome: a systematic review of effects of psychotropic drugs for bipolar disorder.	Bui TA, O'Croinin BR, Dennett L, Winship IR, Greenshaw AJ.	Microbiology (Reading)	10.1099/mic.0.001568	2025
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
Gut microbiome composition and metabolic activity in metabolic-associated fatty liver disease.	Zhang D, Wang Q, Li D, Chen S, Chen J, Zhu X, Bai F.	Virulence	10.1080/21505594.2025.2482158	2025
Unraveling the Pathophysiology of Irritable Bowel Syndrome: Mechanisms and Insights.	Aggeletopoulou I, Papantoniou K, Pastras P, Triantos C.	Int J Mol Sci	10.3390/ijms262110598	2025
A healthy Bifidobacterium dentium caramel cocktail.	Teze D, Svensson B.	J Biol Chem	10.1016/j.jbc.2021.101452	2022
Investigation of the nutritional and functional roles of a microencapsulated blend of botanicals on intestinal health and growth of nursery pigs challenged with F18+Escherichia coli.	Garavito-Duarte Y, Bonetti A, Tugnoli B, Choi H, Piva A, Grilli E, Kim SW.	J Anim Sci	10.1093/jas/skaf047	2025
Microbiome dysbiosis and immune checkpoint inhibitors: Dual targets in Hepatocellular carcinoma management.	Pamungkas KMN, Lesmana Dewi PIS, Alamsyah AZ, Dewi NLPY, Dewi NNGK, Mariadi IK, Sindhughosa DA.	World J Hepatol	10.4254/wjh.v17.i7.106810	2025
The effect of alcohol withdrawal therapy on gut microbiota in alcohol use disorder and its link to inflammation and craving.	Proskynitopoulos PJ, Woltemate S, Rhein M, Boke I, Molks J, Schroder S, Schneider HU, Bleich S, Frieling H, Geffers R, Glahn A, Vital M.	Alcohol Clin Exp Res (Hoboken)	10.1111/acer.70128	2025
The Gut and Skin Microbiome and Its Association with Aging Clocks	Min M, Egli C, Sivamani R.	Int J Mol Sci		2024
New connections of medication use and polypharmacy with the gut microbiota composition and functional potential in a large population.	Larsson A, Ericson U, Jonsson D, Miari M, Athanasiadis P, Baldanzi G, Brunkwall L, Hellstrand S, Klinge B, Melander O, Nilsson PM, Fall T, Maziarz M, Orho-Melander M.	Sci Rep	10.1038/s41598-024-71571-4	2024
The role of glycosylated mucins in maintaining intestinal homeostasis and gut health.	Cheng H, Li H, Li Z, Wang Y, Liu L, Wang J, Ma X, Tan B.	Anim Nutr	10.1016/j.aninu.2025.03.004	2025
Alterations of the intestinal mucus layer correlate with dysbiosis and immune dysregulation in human Type 1 Diabetes.	Lo Conte M, Cosorich I, Ferrarese R, Antonini Cencicchio M, Nobili A, Palmieri V, Massimino L, Lamparelli LA, Liang W, Riba M, Devecchi E, Bolla AM, Pedone E, Scavini M, Bosi E, Fasano A, Ungaro F, Diana J, Mancini N, Falcone M.	EBioMedicine	10.1016/j.ebiom.2023.104567	2023
Hydrolysis of Arabinoxylo-oligosaccharides by alpha-L-Arabinofuranosidases and beta-D-Xylosidase from Bifidobacterium dentium.	Lee MJ, Kang Y, Son BS, Kim MJ, Park TH, Park D, Kim TJ.	J Microbiol Biotechnol	10.4014/jmb.2112.12021	2022
Comprehensive Analysis of the Microbiome and Metabolome: Unveiling Interactions Between Intestinal Flora and Metabolites in Schizophrenia.	Chen L, Li W, Mo D, Meng X, Yao L, Zhang X, Liu H.	Neuropsychiatr Dis Treat	10.2147/ndt.s523570	2025
Exploring the dynamics of gut microbiota, antibiotic resistance, and chemotherapy impact in acute leukemia patients: A comprehensive metagenomic analysis.	Luo Y, Sheikh TMM, Li X, Yuan Y, Yao F, Wang M, Guo X, Wu J, Shafiq M, Xie Q, Jiao X.	Virulence	10.1080/21505594.2024.2428843	2024
Microbiological performance and adherence in blood culture protocols: The role of a second anaerobic bottle.	Vergara PC, Garcia C, Accini M, Franco L, Vanegas JM, Atehortua S.	Heliyon	10.1016/j.heliyon.2024.e35615	2024
Commensal Neisseria Inhibit Porphyromonas Gingivalis Invasion of Gingival Epithelial Cells.	Fukuda S, Akatsu T, Fujii A, Kawano S, Minegishi Y, Ota N.	Oral Health Prev Dent	10.3290/j.ohpd.b5866430	2024
Association between Salivary Hormones, Dental Caries, and Cariogenic Microorganisms during Pregnancy.	Yang R, Lu X, Alomeir N, Quataert S, Wu T, Xiao J.	J Clin Med	10.3390/jcm13113183	2024
Characteristics of bifidobacterial conjugated fatty acid and hydroxy fatty acid production and its potential application in fermented milk	Gao H, Yang B, Stanton C, Ross RP, Zhang H, Liu Z, Chen H, Chen W.	Lebensm Wiss Technol	10.1016/j.lwt.2019.108940	2020
DNA metabarcoding technology for the identification of the fecal microbiome in patients with chronic stress.	Perez Urruchi AE, Ramirez Elizalde LE, Zapata Cornejo FM, Matalinares Calvet ML, Baylon Cuba MV, Fabian Dominguez F.	Health Psychol Res	10.52965/001c.117647	2024
New methods to unveil host-microbe interaction mechanisms along the microbiota-gut-brain-axis.	Moradian H, Gabriel T, Barrau M, Roblin X, Paul S.	Gut Microbes	10.1080/19490976.2024.2351520	2024
The Role of the Gut Microbiome in Urinary Tract Infections: A Narrative Review.	Iqbal ZS, Halkjaer SI, Ghathian KSA, Heintz JE, Petersen AM.	Nutrients	10.3390/nu16213615	2024
Draft Genome Sequences of Two Strains of Bifidobacterium dentium Isolated from a Crude Fecal Extract Used for Fecal Microbiota Transplantation in the Republic of Korea.	Simpson E, Sanjar F, Wylie D, Park S, Koh H, Bae J, Kook SY, Kim S, Kim HJ.	Microbiol Resour Announc	10.1128/mra.00197-20	2020
Infant-gut associated Bifidobacterium dentium strains utilize the galactose moiety and release lacto-N-triose from the human milk oligosaccharides lacto-N-tetraose and lacto-N-neotetraose.	Moya-Gonzalvez EM, Rubio-Del-Campo A, Rodriguez-Diaz J, Yebra MJ.	Sci Rep	10.1038/s41598-021-02741-x	2021
Roxadustat alleviates the inflammatory status in patients receiving maintenance hemodialysis with erythropoiesis-stimulating agent resistance by increasing the short-chain fatty acids producing gut bacteria.	Zhao XN, Liu SX, Wang ZZ, Zhang S, You LL.	Eur J Med Res	10.1186/s40001-023-01179-3	2023
Extreme drought shapes the gut microbiota composition and function of common cranes (Grus grus) wintering in Poyang Lake.	Wang C, Zhang C, Cai H, Zhu Y, Sun J, Liu W, Wang Z, Li Y.	Front Microbiol	10.3389/fmicb.2024.1489906	2024
Characterization of the Small Bowel Microbiome Reveals Different Profiles in Human Subjects Who Are Overweight or Have Obesity.	Leite G, Barlow GM, Barlow GM, Rashid M, Hosseini A, Cohrs D, Parodi G, Morales W, Weitsman S, Weitsman S, Rezaie A, Rezaie A, Pimentel M, Mathur R.	Am J Gastroenterol	10.14309/ajg.0000000000002790	2024
A Comparative Study to Evaluate the Effects of Probiotic Curd on Streptococcus mutans, Bifidobacterium dentium, and pH of Saliva in Caries-free Children: An In Vivo Study.	Selvarajan NB, Vasaviah SK, Krishnan R.	J Pharm Bioallied Sci	10.4103/jpbs.jpbs_42_20	2020
Analysis of sputum microbial metagenome in COPD based on exacerbation frequency and lung function: a case control study.	Li W, Wang B, Tan M, Song X, Xie S, Wang C.	Respir Res	10.1186/s12931-022-02246-9	2022
Investigating bifidobacteria and human milk oligosaccharide composition of lactating mothers.	Lugli GA, Duranti S, Milani C, Mancabelli L, Turroni F, Alessandri G, Longhi G, Anzalone R, Viappinai A, Tarracchini C, Bernasconi S, Yonemitsu C, Bode L, Goran MI, Ossiprandi MC, van Sinderen D, Ventura M.	FEMS Microbiol Ecol	10.1093/femsec/fiaa049	2020
Microbiota-gut-brain Axis: Novel Potential Pathways for Developing Antiepileptogenic Drugs.	Li H, Lai H, Xing Y, Zou S, Yang X.	Curr Neuropharmacol	10.2174/1570159x23666250414094040	2025
A Chimeric EccB-MycP Fusion Protein is Functional and a Stable Component of the ESX-5 Type VII Secretion System Membrane Complex.	van Winden VJC, Bunduc CM, Ummels R, Bitter W, Houben ENG.	J Mol Biol	10.1016/j.jmb.2019.12.040	2020
Maternal antibiotic prophylaxis during cesarean section has a limited impact on the infant gut microbiome.	Sinha T, Prins JR, Fernandez-Pato A, Kruk M, Dierikx T, de Meij T, de Boer M, de Boer JF, Scherjon S, Kurilshikov A, Zhernakova A.	Cell Host Microbe	10.1016/j.chom.2024.07.010	2024
Disease-associated microbiome signature species in the gut.	Li J, Li J, O'Toole PW.	PNAS Nexus	10.1093/pnasnexus/pgae352	2024
Gut microbiome and clinical and lifestyle host factors associated with recurrent positive RT-PCR for SARS-CoV-2.	Jimenez-Arroyo C, Molinero N, Sabater C, Margolles A, Terron-Camero LC, Andres-Leon E, Ramos M, Del Val M, Moreno-Arribas MV.	Front Cell Infect Microbiol	10.3389/fcimb.2024.1494193	2024
Predicting the relationships between gut microbiota and mental disorders with knowledge graphs.	Liu T, Pan X, Wang X, Feenstra KA, Heringa J, Huang Z.	Health Inf Sci Syst	10.1007/s13755-020-00128-2	2021
Neurotransmitter Profiles Are Altered in the Gut and Brain of Mice Mono-Associated with Bifidobacterium dentium.	Luck B, Horvath TD, Engevik KA, Ruan W, Haidacher SJ, Hoch KM, Oezguen N, Spinler JK, Haag AM, Versalovic J, Engevik MA.	Biomolecules	10.3390/biom11081091	2021
A gut aging clock using microbiome multi-view profiles is associated with health and frail risk.	Wang H, Chen Y, Feng L, Lu S, Zhu J, Zhao J, Zhang H, Chen W, Lu W.	Gut Microbes	10.1080/19490976.2023.2297852	2024
Fecal Microbiota Transplantation Induces Sustained Gut Microbiome Changes in Pediatric Ulcerative Colitis: A Combined Randomized and Open-Label Study.	Le J, Hakimjavadi H, Parsana R, Chamala S, Michail S.	Gastro Hep Adv	10.1016/j.gastha.2025.100741	2025
A Novel Ginsenoside-Transforming alpha-L-Rhamnosidase from Bifidobacterium: Screening, Characterization and Application.	Cui CH, Shin D, Hurh BS, Im WT.	Biomolecules	10.3390/biom14121611	2024
Exploring cervicovaginal microbiome differences between single and multiple endometrial polyps: implications for non-invasive classification.	Sun T, Zheng Q, Huang R, Yang L, Liu Z, Zhang Z, Liu X, Yang H, Li X, Tong J, Zhu L.	mSystems	10.1128/msystems.00023-25	2025
Modelling of the Systemic Inflammatory Host Response in Relation to the Microbiome of the Endodontic Infection.	Georgiou AC, van der Ploeg GR, Westerhuis JA, van der Waal SV, Heintz-Buschart A, Smilde AK, Brandt BW.	Int Endod J	10.1111/iej.70023	2025
Differential Catabolism of an Anthocyanin-Rich Elderberry Extract by Three Gut Microbiota Bacterial Species.	Bresciani L, Angelino D, Vivas EI, Kerby RL, Garcia-Viguera C, Del Rio D, Rey FE, Mena P.	J Agric Food Chem	10.1021/acs.jafc.9b00247	2020
Oral microbiome changes in subjects with obesity following bariatric surgery compared to lean counterparts.	Kim KS, Na HS, Oh TJ, Han H, Kim J, Hong JS, Lee HJ, Park YS, Chung J.	Front Microbiol	10.3389/fmicb.2025.1553404	2025
Peribronchial Connective Tissue Infection Caused by Bifidobacterium longum and Veillonella Species Mimicking Lung Cancer.	Takiguchi Y, Nagayosi M, Matsuura Y, Akiba Y, Naito A.	Intern Med	10.2169/internalmedicine.5120-20	2021
Aging characteristics of colorectal cancer based on gut microbiota.	Wu Y, Zhuang J, Zhang Q, Zhao X, Chen G, Han S, Hu B, Wu W, Han S.	Cancer Med	10.1002/cam4.6414	2023
Degradation mechanism of difructose dianhydride III in Blautia species.	Ye T, Horigome A, Kaneko H, Odamaki T, Kitahara K, Fujita K.	Appl Microbiol Biotechnol	10.1007/s00253-024-13346-5	2024
Oral and gut microbiome profiles in people with early idiopathic Parkinson's disease.	Stagaman K, Kmiecik MJ, Wetzel M, Aslibekyan S, Sonmez TF, Fontanillas P, 23andMe Research Team, Tung J, Holmes MV, Walk ST, Houser MC, Norcliffe-Kaufmann L.	Commun Med (Lond)	10.1038/s43856-024-00630-8	2024
The gut microbiota modulates responses to anti-PD-1 and chemotherapy combination therapy and related adverse events in patients with advanced solid tumors.	Wu Z, Zhang S, Li L, Huang Z, Huang D, Hu Y.	Front Oncol	10.3389/fonc.2022.887383	2022
Establishment of the early gut microbiota in vaginally delivered infants: the influence of maternal gut microbiota outweighs vaginal microbiota.	Xie H, Meng L, Duan X, Liang X, Huang T, Ma G, Luo H, Tang X, Xiao X.	Microbiol Spectr	10.1128/spectrum.01775-25	2025
Changing Gastrointestinal Transit Time Alters Microbiome Composition and Bile Acid Metabolism: A Cross-Over Study in Healthy Volunteers.	Hillman EBM, Baumgartner M, Carson D, Amos GCA, Wazir I, Khan HA, Khan MA, Rijpkema S, Walters JRF, Wellington EMH, Arasaradnam R, Lewis SJ.	Neurogastroenterol Motil	10.1111/nmo.70075	2025
The convergent application of metabolites from Avena sativa and gut microbiota to ameliorate non-alcoholic fatty liver disease: a network pharmacology study.	Oh KK, Yoon SJ, Lee SB, Lee SY, Gupta H, Ganesan R, Sharma SP, Won SM, Jeong JJ, Kim DJ, Suk KT.	J Transl Med	10.1186/s12967-023-04122-6	2023
Patterns of Human Milk Oligosaccharides in Mature Milk Are Associated with Certain Gut Microbiota in Infants.	Mao S, Zhao A, Jiang H, Yan J, Zhong W, Xun Y, Zhang Y.	Nutrients	10.3390/nu16091287	2024
Gut microbiota dysbiosis in inflammatory bowel disease: interaction with intestinal barriers and microbiota-targeted treatment options.	Xie H, Yu S, Tang M, Xun Y, Shen Q, Wu G.	Front Cell Infect Microbiol	10.3389/fcimb.2025.1608025	2025
Identification of difructose dianhydride I synthase/hydrolase from an oral bacterium establishes a novel glycoside hydrolase family.	Kashima T, Okumura K, Ishiwata A, Kaieda M, Terada T, Arakawa T, Yamada C, Shimizu K, Tanaka K, Kitaoka M, Ito Y, Fujita K, Fushinobu S.	J Biol Chem	10.1016/j.jbc.2021.101324	2021
The gut microbiota in persistent post-operative pain following breast cancer surgery.	Masaud K, Collins JM, Rubio RC, Corrigan M, Cotter PD, O'Brien N, Bluett R, Jimenez CK, O'Mahony SM, Shorten GD.	Sci Rep	10.1038/s41598-024-62397-1	2024
Exploring the gut microbiota-Parkinson's disease link: preliminary insights from metagenomics and Mendelian randomization.	Liu J, Wang L, Su L, Chen J, Su R.	Front Microbiol	10.3389/fmicb.2025.1654418	2025
Correlation of the gut microbiome and immune-related adverse events in gastrointestinal cancer patients treated with immune checkpoint inhibitors.	Zhang Y, Cheng S, Zou H, Han Z, Xie T, Zhang B, Dai D, Yin X, Liang Y, Kou Y, Tan Y, Shen L, Peng Z.	Front Cell Infect Microbiol	10.3389/fcimb.2023.1099063	2023
Drugs Versus Microbiota: How Pharmacotherapy Affects Gut and Probiotic Bacteria.	Zawistowska-Rojek A, Tyski S.	Pharmaceuticals (Basel)	10.3390/ph18091372	2025
Salivary levels of five microorganisms of root caries in nursing home elderly: a preliminary investigation.	Chen L, Qin Y, Lin Y, Du M, Li Y, Fan M.	BMC Oral Health	10.1186/s12903-023-02953-9	2023
Functional Characterization of Endo- and Exo-Hydrolase Genes in Arabinan Degradation Gene Cluster of Bifidobacterium longum subsp. suis.	Kang Y, Choi CY, Kang J, Ju YR, Kim HB, Han NS, Kim TJ.	Int J Mol Sci	10.3390/ijms25063175	2024
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Efficacy of ground herb-based and essential oil-based phytobiotics on the intestinal health and performance of nursery pigs challenged with F18+Escherichia coli.	Garavito-Duarte Y, Duarte ME, Kim SW.	J Anim Sci	10.1093/jas/skaf018	2025
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The Gut Microbiome in the First One Thousand Days of Neurodevelopment: A Systematic Review from the Microbiome Perspective.	Naspolini NF, Schuroff PA, Figueiredo MJ, Sbardellotto GE, Ferreira FR, Fatori D, Polanczyk GV, Campos AC, Taddei CR.	Microorganisms	10.3390/microorganisms12030424	2024
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Bacterial profile of dentine caries and the impact of pH on bacterial population diversity.	Kianoush N, Adler CJ, Nguyen KA, Browne GV, Simonian M, Hunter N.	PLoS One	10.1371/journal.pone.0092940	2014
Quantitative real-time PCR assays to identify and quantify fecal Bifidobacterium species in infants receiving a prebiotic infant formula.	Haarman M, Knol J.	Appl Environ Microbiol	10.1128/aem.71.5.2318-2324.2005	2005
New molecular quantitative PCR assay for detection of host-specific Bifidobacteriaceae suitable for microbial source tracking.	Gomez-Donate M, Balleste E, Muniesa M, Blanch AR.	Appl Environ Microbiol	10.1128/aem.00895-12	2012
Longitudinal study of the dynamics of vaginal microflora during two consecutive menstrual cycles.	Santiago GL, Cools P, Verstraelen H, Trog M, Missine G, El Aila N, Verhelst R, Tency I, Claeys G, Temmerman M, Vaneechoutte M.	PLoS One	10.1371/journal.pone.0028180	2011
The salivary microbiome is altered in the presence of a high salivary glucose concentration.	Goodson JM, Hartman ML, Shi P, Hasturk H, Yaskell T, Vargas J, Song X, Cugini M, Barake R, Alsmadi O, Al-Mutawa S, Ariga J, Soparkar P, Behbehani J, Behbehani K.	PLoS One	10.1371/journal.pone.0170437	2017
Impact of short-chain galactooligosaccharides on the gut microbiome of lactose-intolerant individuals.	Azcarate-Peril MA, Ritter AJ, Savaiano D, Monteagudo-Mera A, Anderson C, Magness ST, Klaenhammer TR.	Proc Natl Acad Sci U S A	10.1073/pnas.1606722113	2017
Population dynamics of Bifidobacterium species in human feces during raffinose administration monitored by fluorescence in situ hybridization-flow cytometry.	Dinoto A, Marques TM, Sakamoto K, Fukiya S, Watanabe J, Ito S, Yokota A.	Appl Environ Microbiol	10.1128/aem.01777-06	2006
Prebiotic Oligosaccharides: Comparative Evaluation Using In Vitro Cultures of Infants' Fecal Microbiomes.	Stiverson J, Williams T, Chen J, Adams S, Hustead D, Price P, Guerrieri J, Deacon J, Yu Z.	Appl Environ Microbiol	10.1128/aem.02200-14	2014
Bifidobacteria exhibit social behavior through carbohydrate resource sharing in the gut.	Milani C, Lugli GA, Duranti S, Turroni F, Mancabelli L, Ferrario C, Mangifesta M, Hevia A, Viappiani A, Scholz M, Arioli S, Sanchez B, Lane J, Ward DV, Hickey R, Mora D, Segata N, Margolles A, van Sinderen D, Ventura M.	Sci Rep	10.1038/srep15782	2015
Microbial strain-level population structure and genetic diversity from metagenomes.	Truong DT, Tett A, Pasolli E, Huttenhower C, Segata N.	Genome Res	10.1101/gr.216242.116	2017
Exploring the diversity of the bifidobacterial population in the human intestinal tract.	Turroni F, Foroni E, Pizzetti P, Giubellini V, Ribbera A, Merusi P, Cagnasso P, Bizzarri B, de'Angelis GL, Shanahan F, van Sinderen D, Ventura M.	Appl Environ Microbiol	10.1128/aem.02216-08	2009
Clonal analysis of the microbiota of severe early childhood caries.	Kanasi E, Dewhirst FE, Chalmers NI, Kent R, Moore A, Hughes CV, Pradhan N, Loo CY, Tanner AC.	Caries Res	10.1159/000320158	2010
The exopolysaccharide matrix: a virulence determinant of cariogenic biofilm.	Koo H, Falsetta ML, Klein MI.	J Dent Res	10.1177/0022034513504218	2013
The microbiome in cancer.	Lin A, Xiong M, Jiang A, Huang L, Wong HZH, Feng S, Zhang C, Li Y, Chen L, Chi H, Zhang P, Ye B, Zhang H, Zhang N, Zhu L, Mou W, Shen J, Li K, Xu W, Ying H, Zhang C, Zeng D, Xie J, Deng X, Wang Q, Xu J, Shi W, Qi C, Qu C, Huang X, Hajdu A, Li C, Peng C, Cao X, Pei G, Zhang L, Huo Y, Xu J, Glaviano A, Szollosi AG, Bian S, Li Z, Tang H, Tang B, Liu Z, Zhang J, Miao K, Cheng Q, Wei T, Yuan S, Luo P.	Imeta	10.1002/imt2.70070	2025
Pneumolysin released during Streptococcus pneumoniae autolysis is a potent activator of intracellular oxygen radical production in neutrophils.	Martner A, Dahlgren C, Paton JC, Wold AE.	Infect Immun	10.1128/iai.01747-07	2008
The tracrRNA and Cas9 families of type II CRISPR-Cas immunity systems.	Chylinski K, Le Rhun A, Charpentier E.	RNA Biol	10.4161/rna.24321	2013
Beyond Streptococcus mutans: dental caries onset linked to multiple species by 16S rRNA community analysis.	Gross EL, Beall CJ, Kutsch SR, Firestone ND, Leys EJ, Griffen AL.	PLoS One	10.1371/journal.pone.0047722	2012
Bile-inducible efflux transporter from Bifidobacterium longum NCC2705, conferring bile resistance.	Gueimonde M, Garrigues C, van Sinderen D, de los Reyes-Gavilan CG, Margolles A.	Appl Environ Microbiol	10.1128/aem.00172-09	2009
Cyclodextrin complexes of reduced bromonoscapine in guar gum microspheres enhance colonic drug delivery.	Madan J, Gundala SR, Baruah B, Nagaraju M, Yates C, Turner T, Rangari V, Hamelberg D, Reid MD, Aneja R.	Mol Pharm	10.1021/mp500408n	2014
Bifidobacterium longum subsp. infantis ATCC 15697 alpha-fucosidases are active on fucosylated human milk oligosaccharides.	Sela DA, Garrido D, Lerno L, Wu S, Tan K, Eom HJ, Joachimiak A, Lebrilla CB, Mills DA.	Appl Environ Microbiol	10.1128/aem.06762-11	2012
Ribose utilization by the human commensal Bifidobacterium breve UCC2003.	Pokusaeva K, Neves AR, Zomer A, O'Connell-Motherway M, MacSharry J, Curley P, Fitzgerald GF, van Sinderen D.	Microb Biotechnol	10.1111/j.1751-7915.2009.00152.x	2010
Protein relative abundance patterns associated with sucrose-induced dysbiosis are conserved across taxonomically diverse oral microcosm biofilm models of dental caries.	Rudney JD, Jagtap PD, Reilly CS, Chen R, Markowski TW, Higgins L, Johnson JE, Griffin TJ.	Microbiome	10.1186/s40168-015-0136-z	2015
Relevance of Bacteroidales and F-specific RNA bacteriophages for efficient fecal contamination tracking at the level of a catchment in France.	Mauffret A, Caprais MP, Gourmelon M.	Appl Environ Microbiol	10.1128/aem.00315-12	2012
Characterization of two novel alpha-glucosidases from Bifidobacterium breve UCC2003.	Pokusaeva K, O'Connell-Motherway M, Zomer A, Fitzgerald GF, van Sinderen D.	Appl Environ Microbiol	10.1128/aem.02391-08	2009
Metabolism of a plant derived galactose-containing polysaccharide by Bifidobacterium breve UCC2003.	O'Connell Motherway M, Fitzgerald GF, van Sinderen D.	Microb Biotechnol	10.1111/j.1751-7915.2010.00218.x	2011
Rapid characterization of periodontal bacterial isolates by using fluorogenic substrate tests.	Maiden MF, Tanner A, Macuch PJ.	J Clin Microbiol	10.1128/jcm.34.2.376-384.1996	1996
Diet-induced metabolic improvements in a hamster model of hypercholesterolemia are strongly linked to alterations of the gut microbiota.	Martinez I, Wallace G, Zhang C, Legge R, Benson AK, Carr TP, Moriyama EN, Walter J.	Appl Environ Microbiol	10.1128/aem.00380-09	2009
Different fecal microbiotas and volatile organic compounds in treated and untreated children with celiac disease.	Di Cagno R, Rizzello CG, Gagliardi F, Ricciuti P, Ndagijimana M, Francavilla R, Guerzoni ME, Crecchio C, Gobbetti M, De Angelis M.	Appl Environ Microbiol	10.1128/aem.02793-08	2009
Maternal fucosyltransferase 2 status affects the gut bifidobacterial communities of breastfed infants.	Lewis ZT, Totten SM, Smilowitz JT, Popovic M, Parker E, Lemay DG, Van Tassell ML, Miller MJ, Jin YS, German JB, Lebrilla CB, Mills DA.	Microbiome	10.1186/s40168-015-0071-z	2015
Genetic and transcriptional organization of the clpC locus in Bifidobacterium breve UCC 2003.	Ventura M, Fitzgerald GF, van Sinderen D.	Appl Environ Microbiol	10.1128/aem.71.10.6282-6291.2005	2005
Cpl-7, a lysozyme encoded by a pneumococcal bacteriophage with a novel cell wall-binding motif.	Bustamante N, Campillo NE, Garcia E, Gallego C, Pera B, Diakun GP, Saiz JL, Garcia P, Diaz JF, Menendez M.	J Biol Chem	10.1074/jbc.m110.154559	2010
Detection of Lactobacillus, Pediococcus, Leuconostoc, and Weissella species in human feces by using group-specific PCR primers and denaturing gradient gel electrophoresis.	Walter J, Hertel C, Tannock GW, Lis CM, Munro K, Hammes WP.	Appl Environ Microbiol	10.1128/aem.67.6.2578-2585.2001	2001
Genome-Based Taxonomic Classification of the Phylum Actinobacteria.	Nouioui I, Carro L, Garcia-Lopez M, Meier-Kolthoff JP, Woyke T, Kyrpides NC, Pukall R, Klenk HP, Goodfellow M, Goker M.	Front Microbiol	10.3389/fmicb.2018.02007	2018
Therapeutic Anti-Depressant Potential of Microbial GABA Produced by Lactobacillus rhamnosus Strains for GABAergic Signaling Restoration and Inhibition of Addiction-Induced HPA Axis Hyperactivity.	Tette FM, Kwofie SK, Wilson MD.	Curr Issues Mol Biol	10.3390/cimb44040096	2022
Designing primers and evaluation of the efficiency of propidium monoazide - Quantitative polymerase chain reaction for counting the viable cells of Lactobacillus gasseri and Lactobacillus salivarius.	Lai CH, Wu SR, Pang JC, Ramireddy L, Chiang YC, Lin CK, Tsen HY.	J Food Drug Anal	10.1016/j.jfda.2016.10.004	2017
Acidogenicity of dual-species biofilms of bifidobacteria and Streptococcus mutans.	de Matos BM, Brighenti FL, Do T, Beighton D, Koga-Ito CY	Clin Oral Investig	10.1007/s00784-016-1958-1	2016
Complete Genome Sequence of Bifidobacterium dentium Strain JCM 1195T, Isolated from Human Dental Caries.	Toh H, Hayashi J, Oshima K, Nakano A, Takayama Y, Takanashi K, Morita H, Hattori M	Genome Announc	10.1128/genomeA.00284-15	2015
Genome characterisation and comparative analysis of Schaalia dentiphila sp. nov. and its subspecies, S. dentiphila subsp. denticola subsp. nov., from the human oral cavity.	Tian X, Teo WFA, Yang Y, Dong L, Wong A, Chen L, Ahmed H, Choo SW, Jakubovics NS, Tan GYA.	BMC Microbiol	10.1186/s12866-024-03346-w	2024
Bifidobacterium inopinatum sp. nov. and Bifidobacterium denticolens sp. nov., two new species isolated from human dental caries.	Crociani F, Biavati B, Alessandrini A, Chiarini C, Scardovi V.	Int J Syst Bacteriol	10.1099/00207713-46-2-564	1996
Catabacter hongkongensis gen. nov., sp. nov., isolated from blood cultures of patients from Hong Kong and Canada.	Lau SK, McNabb A, Woo GK, Hoang L, Fung AM, Chung LM, Woo PC, Yuen KY.	J Clin Microbiol	10.1128/jcm.01831-06	2007
Bifidobacteria in two-toed sloths (Choloepus didactylus): phylogenetic characterization of the novel taxon Bifidobacterium choloepi sp. nov.	Modesto M, Satti M, Watanabe K, Huang CH, Liou JS, Tamura T, Saito S, Mori K, Huang L, Sandri C, Spiezio C, Sgorbati B, Scarafile D, Camma C, Ancora M, Patavino C, Arita M, Mattarelli P	Int J Syst Evol Microbiol	10.1099/ijsem.0.004506	2020
Bifidobacterium kashiwanohense sp. nov., isolated from healthy infant faeces.	Morita H, Nakano A, Onoda H, Toh H, Oshima K, Takami H, Murakami M, Fukuda S, Takizawa T, Kuwahara T, Ohno H, Tanabe S, Hattori M	Int J Syst Evol Microbiol	10.1099/ijs.0.024521-0	2010

References

#8812	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 20436
#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 )
#34556	; Curators of the CIP;
#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 .
#68371	Automatically annotated from API 50CH acid .
#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 .
#118913	Collection of Institut Pasteur ; Curators of the CIP; CIP 104176
#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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Bifidobacterium dentium (DSM 20436, ATCC 27534, B764)

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