Name: Phocaeicola vulgatus LRA 049 07 85
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 1601

Type strain:

Species: Phocaeicola vulgatus

Strain Designation: LRA 049 07 85

Culture col. no.: DSM 1447, ATCC 8482, CCUG 4940, JCM 5826, BCRC 12903, CIP 103714, IAM 14520, IFO 14291, LMG 7956, NBRC 14291, NCTC 11154

Strain history: CIP <- 1993, R. Mercier, bioMérieux, La Balme les Grottes, France: strain LRA 049 07 85 <- 1985, Analytab, Plainview, USA <- ATCC <- A.H. Eggerth

NCBI tax ID(s): 435590 (strain), 821 (species)

SI-ID 9749

LMG 17767, ATCC 8482, CCUG 4940, DSM 1447, LMG 7956, NCTC 11154, CIP 103714, JCM 5826, CCRC 12903, IFO 14291, NBIMCC 3541, NBRC 14291, BCRC 12903, CCT 2955, IAM 14520, CDBB 1092, ACM 3158, VTT E-001734

Special Collections

Other strains from Phocaeicola vulgatus

Section

Phocaeicola vulgatus LRA 049 07 85 is an anaerobe, Gram-negative human pathogen that was isolated from human faeces.

Gram-negative
anaerobe
human pathogen
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Bacteroidota*
	Class	*Bacteroidia*
	Order	*Bacteroidales*
	Family	*Bacteroidaceae*
	Genus	*Phocaeicola*
	Species	**Phocaeicola vulgatus**
	Full Scientific Name (LPSN)	Phocaeicola vulgatus (Eggerth and Gagnon 1933) García-López et al. 2020

Synonym

Bacteroides vulgatus

Information on morphological and physiological properties Morphology

[Ref.: #123893]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %94.174

[Ref.: #123893]	Cell shape	rod-shaped

[Ref.: #123893]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %90.595

[Ref.: #769]	Type of hemolysis	gamma
[Ref.: #769]	Incubation period	1-2 days

Information on culture and growth conditions Culture and growth conditions

[Ref.: #769]

Culture medium

FASTIDIOUS ANAEROBE BROTH (DSMZ Medium 1203a)

[Ref.: #769]

Culture medium growth

[Ref.: #769]

Culture medium link

Medium recipe at MediaDive

[Ref.: #769]

Culture medium composition

expand / minimize

[Ref.: #769]

Culture medium

CHOPPED MEAT MEDIUM (DSMZ Medium 78)

[Ref.: #769]

Culture medium growth

[Ref.: #769]

Culture medium link

Medium recipe at MediaDive

[Ref.: #769]

Culture medium composition

expand / minimize

[Ref.: #769]

Culture medium

COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)

[Ref.: #769]

Culture medium growth

[Ref.: #769]

Culture medium link

Medium recipe at MediaDive

[Ref.: #769]

Culture medium composition

expand / minimize

[Ref.: #34918]

Culture medium

MEDIUM 20 - for Anaerobic bacteria

[Ref.: #34918]

Culture medium growth

[Ref.: #34918]

Culture medium composition

expand / minimize

[Ref.: #123893]

Culture medium

CIP Medium 20

[Ref.: #123893]

Culture medium growth

[Ref.: #123893]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #769]	growth	37 °C
[Ref.: #34918]	growth	37 °C
[Ref.: #44810]	growth	37 °C
[Ref.: #67770]	growth	37 °C
[Ref.: #123893]	growth	37 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #769]	Oxygen tolerance	anaerobe
[Ref.: #44810]	Oxygen tolerance	anaerobe
[Ref.: #123893]	Oxygen tolerance	anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %93.809

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68380]	D-mannose ChEBI	+	fermentation	* from API rID32A
[Ref.: #123893]	esculin ChEBI	-	hydrolysis
[Ref.: #68380]	L-glutamate ChEBI	-	degradation	* from API rID32A
[Ref.: #123893]	nitrate ChEBI	-	reduction
[Ref.: #123893]	nitrate ChEBI	+	respiration
[Ref.: #68380]	nitrate ChEBI	-	reduction	* from API rID32A
[Ref.: #123893]	nitrite ChEBI	-	reduction
[Ref.: #68380]	raffinose ChEBI	+	fermentation	* from API rID32A
[Ref.: #68380]	tryptophan ChEBI	-	energy source	* from API rID32A
[Ref.: #68380]	urea ChEBI	-	hydrolysis	* from API rID32A

	Antibiotica	Metabolite	Antibiotic sensitivity	Antibiotic resistance
[Ref.: #123893]		metronidazole ChEBI	no	yes

	Metabolite production	Metabolite	Production
[Ref.: #123893]		indole ChEBI	no
[Ref.: #68380]		indole ChEBI	no	* from API rID32A

	Physiological tests	Metabolite	Indole test
[Ref.: #68380]		indole ChEBI	-	* from API rID32A

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #68380]	alanine arylamidase	+	3.4.11.2	* from API rID32A
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #68380]	alpha-arabinosidase	+	3.2.1.55	* from API rID32A
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	+	3.2.1.51	* from API zym, API rID32A
[Ref.: #68382]	alpha-galactosidase	+	3.2.1.22	* from API zym, API rID32A
[Ref.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym, API rID32A
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #123893]	amylase	-
[Ref.: #123893]	beta-galactosidase	+	3.2.1.23
[Ref.: #68382]	beta-galactosidase	+	3.2.1.23	* from API zym, API rID32A
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym, API rID32A
[Ref.: #68382]	beta-glucuronidase	+	3.2.1.31	* from API zym
[Ref.: #123893]	caseinase	+	3.4.21.50
[Ref.: #769]	catalase	-	1.11.1.6
[Ref.: #123893]	catalase	-	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #769]	cytochrome-c oxidase	-	1.9.3.1
[Ref.: #123893]	DNase	-
[Ref.: #68382]	esterase (C 4)	-		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	-		* from API zym
[Ref.: #123893]	gelatinase	-
[Ref.: #68380]	glutamate decarboxylase	-	4.1.1.15	* from API rID32A
[Ref.: #68380]	glutamyl-glutamate arylamidase	+		* from API rID32A
[Ref.: #68380]	glycin arylamidase	+		* from API rID32A
[Ref.: #68380]	histidine arylamidase	-		* from API rID32A
[Ref.: #68380]	L-arginine arylamidase	-		* from API rID32A
[Ref.: #123893]	lecithinase	-
[Ref.: #68382]	leucine arylamidase	-	3.4.11.1	* from API zym, API rID32A
[Ref.: #68380]	leucyl glycin arylamidase	+	3.4.11.1	* from API rID32A
[Ref.: #123893]	lipase	-
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	+	3.2.1.52	* from API zym, API rID32A
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #123893]	oxidase	-
[Ref.: #68380]	phenylalanine arylamidase	-		* from API rID32A
[Ref.: #68380]	proline-arylamidase	-	3.4.11.5	* from API rID32A
[Ref.: #123893]	protease	-
[Ref.: #68380]	pyrrolidonyl arylamidase	-	3.4.19.3	* from API rID32A
[Ref.: #68380]	serine arylamidase	-		* from API rID32A
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #68380]	tryptophan deaminase	-	4.1.99.1	* from API rID32A
[Ref.: #123893]	tween esterase	-
[Ref.: #68380]	tyrosine arylamidase	-		* from API rID32A
[Ref.: #123893]	urease	-	3.5.1.5
[Ref.: #68380]	urease	-	3.5.1.5	* from API rID32A
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® rID32A:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Urease/urea hydrolysisURE	Arginine dihydrolaseADH (Arg)	alpha-Galactosidasealpha GAL	beta-Galactosidasebeta GAL	beta-Galactosidase 6-phosphatebeta GP	alpha-Glucosidasealpha GLU	beta-Glucosidasebeta GLU	alpha-Arabinosidasealpha ARA	beta-Glucuronidasebeta GUR	beta-N-Acetyl-beta-glucosaminidasebeta NAG	Fermentation of D-mannoseMNE	Fermentation of raffinoseRAF	Glutamate decarboxylaseGDC	alpha-Fucosidasealpha FUC	Reduction of nitrateNIT	Indole productionIND	Alkaline phosphatasePAL	L-arginine arylamidaseArgA	Proline arylamidaseProA	Leucyl glycin arylamidaseLGA	Phenylalanine arylamidasePheA	Leucine arylamidaseLeuA	Pyrrolidonyl arylamidasePyrA	Tyrosine arylamidaseTyrA	Alanine arylamidaseAlaA	Glycin arylamidaseGlyA	Histidine arylamidaseHisA	Glutamyl-glutamate arylamidaseGGA	Serine arylamidaseSerA
[Ref.: #769]	12110	-	-	+	+	-	+	-	+	-	+	+	+	-	+	-	-	+	-	-	+	-	-	-	-	+	+	-	+	-
[Ref.: #769]	12109	-	-	+	+	+/-	+	-	+	+/-	+	+	+	-	+	-	-	+	-	-	+	-	-	-	-	+	+	-	+	-
[Ref.: #769]	12108	-	+	+	+	-	+	-	+	-	+	+	+	-	+	-	-	+	-	-	+	-	-	-	-	+	+	-	+	-
[Ref.: #769]	12107	-	-	+	+	-	+	-	+	+/-	+	+	+	-	+	-	-	+	-	-	+	-	-	-	-	+	+	-	+	-
[Ref.: #769]	12106	-	-	+	+	-	+	-	+	+	+	+	+	-	+	-	-	-	-	-	+	-	-	-	-	+	+	-	+	-

API® zym:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #123893]	7642	-	+	-	-	-	-	-	-	-	-	+	+	+	+	+	+	-	+	-	+

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	sulfopterin metabolism	100	4 of 4
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	vitamin K metabolism	100	5 of 5
[Ref.: #66794]	glycogen metabolism	100	5 of 5
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	L-lactaldehyde degradation	100	3 of 3
[Ref.: #66794]	gluconeogenesis	100	8 of 8
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	C4 and CAM-carbon fixation	100	8 of 8
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	tetrahydrofolate metabolism	92.86	13 of 14
[Ref.: #66794]	starch degradation	90	9 of 10
[Ref.: #66794]	valine metabolism	88.89	8 of 9
[Ref.: #66794]	lipid A biosynthesis	88.89	8 of 9
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	aspartate and asparagine metabolism	88.89	8 of 9
[Ref.: #66794]	isoleucine metabolism	87.5	7 of 8
[Ref.: #66794]	propanol degradation	85.71	6 of 7
[Ref.: #66794]	vitamin B1 metabolism	84.62	11 of 13
[Ref.: #66794]	vitamin B12 metabolism	82.35	28 of 34
[Ref.: #66794]	vitamin B6 metabolism	81.82	9 of 11
[Ref.: #66794]	pentose phosphate pathway	81.82	9 of 11
[Ref.: #66794]	propionate fermentation	80	8 of 10
[Ref.: #66794]	threonine metabolism	80	8 of 10
[Ref.: #66794]	flavin biosynthesis	80	12 of 15
[Ref.: #66794]	cellulose degradation	80	4 of 5
[Ref.: #66794]	Entner Doudoroff pathway	80	8 of 10
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	metabolism of amino sugars and derivatives	80	4 of 5
[Ref.: #66794]	pyrimidine metabolism	80	36 of 45
[Ref.: #66794]	photosynthesis	78.57	11 of 14
[Ref.: #66794]	serine metabolism	77.78	7 of 9
[Ref.: #66794]	d-mannose degradation	77.78	7 of 9
[Ref.: #66794]	NAD metabolism	77.78	14 of 18
[Ref.: #66794]	phenylalanine metabolism	76.92	10 of 13
[Ref.: #66794]	purine metabolism	76.6	72 of 94
[Ref.: #66794]	glycolysis	76.47	13 of 17
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	CMP-KDO biosynthesis	75	3 of 4
[Ref.: #66794]	biotin biosynthesis	75	3 of 4
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
[Ref.: #66794]	proline metabolism	72.73	8 of 11
[Ref.: #66794]	alanine metabolism	72.41	21 of 29
[Ref.: #66794]	histidine metabolism	72.41	21 of 29
[Ref.: #66794]	citric acid cycle	71.43	10 of 14
[Ref.: #66794]	glutamate and glutamine metabolism	71.43	20 of 28
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	isoprenoid biosynthesis	69.23	18 of 26
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	degradation of pentoses	64.29	18 of 28
[Ref.: #66794]	d-xylose degradation	63.64	7 of 11
[Ref.: #66794]	dTDPLrhamnose biosynthesis	62.5	5 of 8
[Ref.: #66794]	degradation of sugar alcohols	62.5	10 of 16
[Ref.: #66794]	lysine metabolism	61.9	26 of 42
[Ref.: #66794]	leucine metabolism	61.54	8 of 13
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	61.54	8 of 13
[Ref.: #66794]	non-pathway related	60.53	23 of 38
[Ref.: #66794]	methylglyoxal degradation	60	3 of 5
[Ref.: #66794]	hydrogen production	60	3 of 5
[Ref.: #66794]	arginine metabolism	58.33	14 of 24
[Ref.: #66794]	methionine metabolism	57.69	15 of 26
[Ref.: #66794]	ubiquinone biosynthesis	57.14	4 of 7
[Ref.: #66794]	degradation of sugar acids	56	14 of 25
[Ref.: #66794]	degradation of hexoses	55.56	10 of 18
[Ref.: #66794]	metabolism of disaccharids	54.55	6 of 11
[Ref.: #66794]	sulfate reduction	53.85	7 of 13
[Ref.: #66794]	oxidative phosphorylation	51.65	47 of 91
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	toluene degradation	50	2 of 4
[Ref.: #66794]	alginate biosynthesis	50	2 of 4
[Ref.: #66794]	adipate degradation	50	1 of 2
[Ref.: #66794]	heme metabolism	50	7 of 14
[Ref.: #66794]	pantothenate biosynthesis	50	3 of 6
[Ref.: #66794]	aminopropanol phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	50	6 of 12
[Ref.: #66794]	tryptophan metabolism	50	19 of 38
[Ref.: #66794]	cysteine metabolism	50	9 of 18
[Ref.: #66794]	butanoate fermentation	50	2 of 4
[Ref.: #66794]	glycolate and glyoxylate degradation	50	3 of 6
[Ref.: #66794]	lipid metabolism	45.16	14 of 31
[Ref.: #66794]	CO2 fixation in Crenarchaeota	44.44	4 of 9
[Ref.: #66794]	daunorubicin biosynthesis	44.44	4 of 9
[Ref.: #66794]	polyamine pathway	43.48	10 of 23
[Ref.: #66794]	reductive acetyl coenzyme A pathway	42.86	3 of 7
[Ref.: #66794]	glutathione metabolism	42.86	6 of 14
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	O-antigen biosynthesis	40	2 of 5
[Ref.: #66794]	lipoate biosynthesis	40	2 of 5
[Ref.: #66794]	glycine metabolism	40	4 of 10
[Ref.: #66794]	coenzyme M biosynthesis	40	4 of 10
[Ref.: #66794]	phenylpropanoid biosynthesis	38.46	5 of 13
[Ref.: #66794]	urea cycle	38.46	5 of 13
[Ref.: #66794]	ketogluconate metabolism	37.5	3 of 8
[Ref.: #66794]	ascorbate metabolism	36.36	8 of 22
[Ref.: #66794]	tyrosine metabolism	35.71	5 of 14
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	enterobactin biosynthesis	33.33	1 of 3
[Ref.: #66794]	molybdenum cofactor biosynthesis	33.33	3 of 9
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	cyanate degradation	33.33	1 of 3
[Ref.: #66794]	nitrate assimilation	33.33	3 of 9
[Ref.: #66794]	selenocysteine biosynthesis	33.33	2 of 6
[Ref.: #66794]	1,4-dihydroxy-6-naphthoate biosynthesis	33.33	2 of 6
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	3-phenylpropionate degradation	33.33	5 of 15
[Ref.: #66794]	4-hydroxyphenylacetate degradation	30	3 of 10
[Ref.: #66794]	myo-inositol biosynthesis	30	3 of 10
[Ref.: #66794]	arachidonic acid metabolism	27.78	5 of 18
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
[Ref.: #66794]	catecholamine biosynthesis	25	1 of 4
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	lactate fermentation	25	1 of 4
		Only first 10 entries are displayed. Click here to see all.

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #769]	Sample type/isolated from	human faeces

[Ref.: #67770]	Sample type/isolated from	Human feces
* marker position based on {}

Isolation sources categories

#Host	#Human	-
#Host Body Product	#Gastrointestinal tract	#Feces (Stool)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB510712 (>99% sequence identity) for Phocaeicola vulgatus subclade from Microbeatlas

Aquatic Samples	2761
Soil Samples	881
Animal Samples	148487
Plant Samples	380
Total Samples	152509

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #769]	Pathogenicity (human)	yes, in single cases
[Ref.: #769]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #123893]	Biosafety level	2	Risk group (French classification)

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Bacteroides vulgatus gene for 16S rRNA, partial sequence	AB050111	1397	GenBank ENA	821 tax ID
[Ref.: #769]	Bacteroides vulgatus gene for 16S ribosomal RNA, partial sequence, strain: JCM 5826	AB510712	1489	GenBank ENA	821 tax ID
[Ref.: #20218]	Bacteroides vulgatus 16S rRNA gene, strain ATCC 8482	AJ867050	1476	GenBank ENA	435590 tax ID	*
[Ref.: #20218]	Bacteroides vulgatus strain DSM 1447 16S ribosomal RNA gene, partial sequence	HQ012024	931	GenBank ENA	821 tax ID	*
[Ref.: #124043]	Bacteroides vulgatus strain BCRC12903 16S ribosomal RNA gene, partial sequence.	EU136687	1985	GenBank ENA	821 tax ID	*
[Ref.: #20218]	Bacteroides vulgatus 16S-23S rDNA intergenic spacer region	AF176693	426	GenBank ENA	435590 tax ID	*
[Ref.: #20218]	Bacteroides vulgatus 16S ribosomal RNA gene, partial sequence	M58762	1533	GenBank ENA	821 tax ID	*

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Phocaeicola vulgatus ATCC 8482	GCA_028538915	contig	GenBank ENA	435590 tax ID	*
[Ref.: #66792]	Bacteroides vulgatus ATCC 8482	435590.9	complete	PATRIC	435590 tax ID	*
[Ref.: #66792]	Bacteroides vulgatus ATCC 8482 strain Bacteroides vulgatus 81B11	435590.45	wgs	PATRIC	435590 tax ID	*
[Ref.: #66792]	Phocaeicola vulgatus strain FDAARGOS_1098	821.4031	complete	PATRIC	821 tax ID	*
[Ref.: #66792]	Phocaeicola vulgatus ATCC 8482	2886510283	draft	JGI IMG/M	435590 tax ID	*
[Ref.: #66792]	Phocaeicola vulgatus ATCC 8482	2510065017	draft	JGI IMG/M	435590 tax ID	*

[Ref.: #769]	GC-content	41.0 mol%	thermal denaturation, midpoint method (Tm)
[Ref.: #769]	GC-content	42.2 mol%	sequence analysis
[Ref.: #67770]	GC-content	41 mol%	thermal denaturation, midpoint method (Tm)

Data predicted using genome information as a basis Genome-based predictions

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Phocaeicola vulgatus ATCC 8482 ATCC 8482 NCBI: GCA_000012825.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	94.174	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	yes	93.809	no
[Ref.: #69480]	aerobic	aerobicⓘ	no	93.793	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	89.898	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	95.668	no
[Ref.: #69480]	flagellated	motile2+ⓘ	no	90.595	no

Availability in culture collections External links

[Ref.: #769]

Culture collection no.

DSM 1447, ATCC 8482, CCUG 4940, JCM 5826, BCRC 12903, CIP 103714, IAM 14520, IFO 14291, LMG 7956, NBRC 14291, NCTC 11154

[Ref.: #71246]

SI-ID 9749

Literature:

Only first 10 entries are displayed. Click here to see all.

Topic	Title	Authors	Journal	DOI	Year
Pathogenicity	Gut microbiota dysbiosis in Chinese children with type 1 diabetes mellitus: An observational study.	Liu X, Cheng YW, Shao L, Sun SH, Wu J, Song QH, Zou HS, Ling ZX	World J Gastroenterol	10.3748/wjg.v27.i19.2394	2021	*
Pathogenicity	Bacteroides vulgatus diminishes colonic microbiota dysbiosis ameliorating lumbar bone loss in ovariectomized mice.	Yuan S, Shen J	Bone	10.1016/j.bone.2020.115710	2020	*
Pathogenicity	Binary interactions between the yeast Candida albicans and two gut-associated Bacteroides species.	Valentine M, Benade E, Mouton M, Khan W, Botha A	Microb Pathog	10.1016/j.micpath.2019.103619	2019	*
Metabolism	The 'in vivo lifestyle' of bile acid 7alpha-dehydroxylating bacteria: comparative genomics, metatranscriptomic, and bile acid metabolomics analysis of a defined microbial community in gnotobiotic mice.	Ridlon JM, Devendran S, Alves JM, Doden H, Wolf PG, Pereira GV, Ly L, Volland A, Takei H, Nittono H, Murai T, Kurosawa T, Chlipala GE, Green SJ, Hernandez AG, Fields CJ, Wright CL, Kakiyama G, Cann I, Kashyap P, McCracken V, Gaskins HR	Gut Microbes	10.1080/19490976.2019.1618173	2019	*
Metabolism	The Biosynthesis of Lipooligosaccharide from Bacteroides thetaiotaomicron.	Jacobson AN, Choudhury BP, Fischbach MA	mBio	10.1128/mBio.02289-17	2018	*
Pathogenicity	The gut bacterium and pathobiont Bacteroides vulgatus activates NF-kappaB in a human gut epithelial cell line in a strain and growth phase dependent manner.	O Cuiv P, de Wouters T, Giri R, Mondot S, Smith WJ, Blottiere HM, Begun J, Morrison M	Anaerobe	10.1016/j.anaerobe.2017.06.002	2017	*
Metabolism	Anaerobic utilization of Fe(III)-xenosiderophores among Bacteroides species and the distinct assimilation of Fe(III)-ferrichrome by Bacteroides fragilis within the genus.	Rocha ER, Krykunivsky AS	Microbiologyopen	10.1002/mbo3.479	2017	*
Genetics	Extensive Mobilome-Driven Genome Diversification in Mouse Gut-Associated Bacteroides vulgatus mpk.	Lange A, Beier S, Steimle A, Autenrieth IB, Huson DH, Frick JS	Genome Biol Evol	10.1093/gbe/evw070	2016	*
Pathogenicity	Expression of arsenic resistance genes in the obligate anaerobe Bacteroides vulgatus ATCC 8482, a gut microbiome bacterium.	Li J, Mandal G, Rosen BP	Anaerobe	10.1016/j.anaerobe.2016.03.012	2016	*
Metabolism	Production of AI-2 is mediated by the S-ribosylhomocystein lyase gene luxS in Bacteroides fragilis and Bacteroides vulgatus.	Peixoto RJ, Miranda KR, Ferreira EO, de Paula GR, Rocha ER, Lobo LA, Domingues RM	J Basic Microbiol	10.1002/jobm.201300311	2013	*
Metabolism	Utilization of major fucosylated and sialylated human milk oligosaccharides by isolated human gut microbes.	Yu ZT, Chen C, Newburg DS	Glycobiology	10.1093/glycob/cwt065	2013	*
Pathogenicity	Structural characterization of BVU_3255, a methyltransferase from human intestine antibiotic resistant pathogen Bacteroides vulgatus.	Kumar V, Sivaraman J	J Struct Biol	10.1016/j.jsb.2011.08.007	2011	*
Phylogeny	Bacteroides chinchillae sp. nov. and Bacteroides rodentium sp. nov., isolated from chinchilla (Chinchilla lanigera) faeces.	Kitahara M, Tsuchida S, Kawasumi K, Amao H, Sakamoto M, Benno Y, Ohkuma M	Int J Syst Evol Microbiol	10.1099/ijs.0.024026-0	2010	*
Phylogeny	Bacteroides dorei sp. nov., isolated from human faeces.	Bakir MA, Sakamoto M, Kitahara M, Matsumoto M, Benno Y	Int J Syst Evol Microbiol	10.1099/ijs.0.64257-0	2006	*
Pathogenicity	Growth stimulator for bifidobacteria produced by Propionibacterium freudenreichii and several intestinal bacteria.	Kaneko T, Mori H, Iwata M, Meguro S	J Dairy Sci	10.3168/jds.S0022-0302(94)76965-4	1994	*
	Demonstration of bacteroides capsules by light microscopy and ultrastructural cytochemistry.	Strohm H, Payne CM, Ryan KJ	Am J Clin Pathol	10.1093/ajcp/79.5.591	1983	*

References

#769	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 1447

#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 )

#34918 ; Curators of the CIP;
#44810 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 4940

#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) .

#66794

Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#68380

Automatically annotated from API rID32A .

#68382

Automatically annotated from API zym .

#69479

João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.: MicrobeAtlas 1.0 beta .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#71246

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID9749.1 )

#123893 Collection of Institut Pasteur ; Curators of the CIP; CIP 103714

#124043

Dr. Isabel Schober, Dr. Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .

* These data were automatically processed and therefore are not curated

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Phocaeicola vulgatus ATCC 8482 ATCC 8482

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