Bacteroides fragilis (DSM 103087, COR2-248-WT-1)

Name: Bacteroides fragilis (DSM 103087, COR2-248-WT-1)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 158881

Type strain

Strain Designation COR2-248-WT-1

Culture col. no. DSM 103087 COR2-248-WT-1

NCBI tax ID(s) 817

Special Collections DSMZ Pig DZIF

History <- D. Wylensek, TU Munich, Freising-Weihenstephan, Germany <- M. Kornbauer, TU Munich, Freising-Weihenstephan, Germany; COR2-248-WT-1

Links

Bacteroides fragilis COR2-248-WT-1 is a mesophilic human pathogen that was isolated from feces; pig, 10 month old, wild type.

mesophilic human pathogen genome sequence 16S sequence

Name and taxonomic classification

SI-ID 397996

DSM 103087

@ref 20215

Last LPSN update 2026-02-09 11:38:27

Domain Bacteria

Phylum Bacteroidota

Class Bacteroidia

Order Bacteroidales

Family Bacteroidaceae

Genus Bacteroides

Species Bacteroides fragilis

Full scientific name Bacteroides fragilis (Veillon and Zuber 1898) Castellani and Chalmers 1919 (Approved Lists 1980)

Synonyms (3)

"Bacteroides hominis"
"Bacillus fragilis"
Bacteroides hominis

BacDive ID	Other strains from **Bacteroides fragilis** (28)	Type strain
1585	B. fragilis EN-2, Onslow, DSM 2151, ATCC 25285, JCM 11019, ... (type strain)
1584	B. fragilis LRA 048 07 85, CCUG 25931, DSM 1396, ATCC ...
1586	B. fragilis mprl 1839, MPRL 1839/MH3, DSM 9668
1587	B. fragilis mprl 1842, DSM 9669
1589	B. fragilis mprl 1843, DSM 9671
134478	B. fragilis HSP 40, CIP 104785, ATCC 51477, JCM 11017
136722	B. fragilis CIP pIP417
136849	B. fragilis CIP pIP419
136850	B. fragilis CIP pIP421
136938	B. fragilis 638R, CIP 108284
137572	B. fragilis BF8, CIP 108277
138258	B. fragilis 10010, CIP 105891, ATCC 43858
138259	B. fragilis CIP 105892, ATCC 43859
147853	B. fragilis CCUG 34384
147901	B. fragilis CCUG 34457
148540	B. fragilis CCUG 35615
148584	B. fragilis CCUG 35671
149129	B. fragilis CCUG 36902
149142	B. fragilis CCUG 36926
149442	B. fragilis CCUG 37758
153390	B. fragilis CCUG 49424
154543	B. fragilis CCUG 54315
159983	B. fragilis 638R/pIP417(nimA), DSM 103646
159984	B. fragilis BF8, DSM 103647
162044	B. fragilis JCM 17585
162045	B. fragilis JCM 17586
162046	B. fragilis JCM 17587
174360	B. fragilis HM-216, 2/1/56, DSM 24895

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	91.404

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
65703	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
65703	FASTIDIOUS ANAEROBE AGAR (DSMZ Medium 1203)	Medium recipe at MediaDive	Name: FASTIDIOUS ANAEROBE AGAR (DSMZ Medium 1203) Composition: Horse blood 100.0 g/l Fastidious Anaerobe Agar 45.7 g/l Distilled water
65703	WILKINS-CHALGREN ANAEROBE BROTH (DSMZ Medium 339)	Medium recipe at MediaDive	Name: WILKINS-CHALGREN ANAEROBE BROTH (DSMZ Medium 339) Composition: dehydrated Wilkins-Chalgren medium 33.0 g/l L-Cysteine HCl 0.3 g/l Sodium resazurin 0.0005 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
65703	positive	growth	37	mesophilic

Physiology and metabolism

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68380	29016 ChEBI	arginine	-	hydrolysis	from API rID32A
68380	16024 ChEBI	D-mannose	+	fermentation	from API rID32A
68380	29985 ChEBI	L-glutamate	+	degradation	from API rID32A
68380	17632 ChEBI	nitrate	-	reduction	from API rID32A
68380	16634 ChEBI	raffinose	+	fermentation	from API rID32A
68380	27897 ChEBI	tryptophan	-	energy source	from API rID32A
68380	16199 ChEBI	urea	-	hydrolysis	from API rID32A

Metabolite production

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

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
68380	35581 ChEBI	indole	-	from API rID32A

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
68380	beta-glucuronidase	-	3.2.1.31	from API rID32A
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

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
65703	-	-	+	+	-	+	+	-	-	+	+	+	+	+	-	-	+	+	-	+	-	+	-	-	+	-	-	+	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host Body Product	#Gastrointestinal tract	#Feces (Stool)
#Host	#Mammals	#Suidae (Pig,Swine)

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
65703	feces; pig, 10 month old, wild type	Kranzberg (Bavaria)	Germany	DEU	Europe

Taxonmaps

69479

Global distribution of 16S sequence MN537460 (>99% sequence identity) for Bacteroides fragilis subclade from Microbeatlas

Aquatic Samples	7159
Soil Samples	2825
Animal Samples	211201
Plant Samples	810
Total Samples	221995

Interaction and safety

Risk assessment

@ref	Pathogenicity human	Pathogenicity animal	Biosafety level	Biosafety level comment
65703			2	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	NCBI tax ID	Score
66792	ASM1284410v1 assembly for Bacteroides fragilis COR2-248-WT-1	contig	GCA_012844105	817.1633	817	70.63

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
65703	Bacteroides fragilis strain DSM 103087 16S ribosomal RNA gene, partial sequence	MN537460	1479		817

Genome-based predictions

Predictions

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Bacteroides fragilis COR2-248-WT-1
NCBI: GCA_012844105.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	91.40	no
125438	anaerobic	anaerobicⓘ	yes	77.86	no
125438	aerobic	aerobicⓘ	no	85.95	no
125438	spore-forming	spore-formingⓘ	no	89.44	no
125438	thermophilic	thermophileⓘ	no	96.49	yes
125438	flagellated	motile2+ⓘ	no	87.50	no

Literature

References

#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 )
#65703	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 103087
#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) .
#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 )
#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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