Name: Bacteroides fragilis HSP 40
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 134478

Type strain:

Species: Bacteroides fragilis

Strain Designation: HSP 40

Culture col. no.: CIP 104785, ATCC 51477, JCM 11017

Strain history: CIP <- 1996, ATCC <- R.M. Araujo Boira and J. Jofre: strain HSP 40

NCBI tax ID(s): 1235816 (strain), 817 (species)

SI-ID 43008

ATCC 51477, CIP 104785, JCM 11017

Special Collections

Other strains from Bacteroides fragilis

Section

Bacteroides fragilis HSP 40 is an anaerobe, Gram-negative bacterium of the family Bacteroidaceae.

Gram-negative
anaerobe
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	*Bacteroides*
	Species	**Bacteroides fragilis**
	Full Scientific Name (LPSN)	Bacteroides fragilis (Veillon and Zuber 1898) Castellani and Chalmers 1919 (Approved Lists 1980)

Synonym

"Bacillus fragilis"

Information on morphological and physiological properties Morphology

[Ref.: #32824]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %90.359

[Ref.: #32824]	Cell shape	rod-shaped

[Ref.: #32824]	Motility	no

Information on culture and growth conditions Culture and growth conditions

[Ref.: #32824]

Culture medium

MEDIUM 6 - Columbia agar with 10 % horse blood

[Ref.: #32824]

Culture medium growth

[Ref.: #32824]

Culture medium composition

expand / minimize

[Ref.: #32824]

Culture medium

CIP Medium 6

[Ref.: #32824]

Culture medium growth

[Ref.: #32824]

Culture medium link

Medium recipe provided by DSMZ

	Temperatures	Kind of temperature		Temperature
[Ref.: #32824]			growth	37 °C
[Ref.: #67770]			growth	37 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #32824]

Oxygen tolerance

anaerobe

[Ref.: #69481]

Ability of spore formation

no Confidence in %100

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32824]	cellobiose ChEBI	-	degradation
[Ref.: #32824]	D-fructose ChEBI	+	degradation
[Ref.: #32824]	D-glucose ChEBI	+	degradation
[Ref.: #32824]	D-xylose ChEBI	+	degradation
[Ref.: #32824]	esculin ChEBI	+	hydrolysis
[Ref.: #32824]	lactose ChEBI	+	degradation
[Ref.: #32824]	maltose ChEBI	+	degradation
[Ref.: #32824]	nitrate ChEBI	-	reduction
[Ref.: #32824]	nitrate ChEBI	+	respiration
[Ref.: #32824]	nitrite ChEBI	-	reduction
[Ref.: #32824]	salicin ChEBI	-	degradation
[Ref.: #32824]	sucrose ChEBI	+	degradation
	Only first 10 entries are displayed. Click here to see all.

	Antibiotica	Metabolite	Antibiotic sensitivity	Antibiotic resistance
[Ref.: #32824]		metronidazole ChEBI	no	yes

	Metabolite production	Metabolite	Production
[Ref.: #32824]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	+	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	+	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	+	3.2.1.24	* from API zym
[Ref.: #32824]	amylase	-
[Ref.: #32824]	beta-galactosidase	+	3.2.1.23
[Ref.: #68382]	beta-galactosidase	+	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	+	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	+	3.2.1.31	* from API zym
[Ref.: #32824]	caseinase	+	3.4.21.50
[Ref.: #32824]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #32824]	DNase	-
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #32824]	gelatinase	-
[Ref.: #32824]	lecithinase	-
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #32824]	lipase	-
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	+	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #32824]	oxidase	-
[Ref.: #32824]	protease	-
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #32824]	tween esterase	-
[Ref.: #32824]	urease	-	3.5.1.5
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

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.: #32824]	8194	-	+	+	+	-	+	-	-	-	-	+	+	+	+	+	+	+	+	+	+

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

[Ref.: #32824]	Sample type/isolated from	Human, Peritoneal exudate
[Ref.: #32824]	Geographic location (country and/or sea, region)	Barcelona
[Ref.: #32824]	Country	Spain
[Ref.: #32824]	Country ISO 3 Code	ESP
[Ref.: #32824]	Continent	Europe

[Ref.: #32824]	Geographic location (country and/or sea, region)	Barcelona
[Ref.: #32824]	Country	Spain
[Ref.: #32824]	Country ISO 3 Code	ESP
[Ref.: #32824]	Continent	Europe
* marker position based on {}

[Ref.: #69479]

Global distribution of 16S sequence AB542764 (>99% sequence identity) for Bacteroides fragilis subclade from Microbeatlas

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

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

[Ref.: #32824]

Biosafety level

Risk group (French classification)

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

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Bacteroides fragilis gene for 16S ribosomal RNA, partial sequence, strain: JCM 11017	AB542764	1490	GenBank ENA	817 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Bacteroides fragilis JCM 11017	GCA_000613425	contig	GenBank ENA	1235816 tax ID	*
[Ref.: #66792]	Bacteroides fragilis JCM 11017	1235816.3	wgs	PATRIC	1235816 tax ID	*
[Ref.: #66792]	Bacteroides fragilis JCM 11017	2585427861	draft	JGI IMG/M	1235816 tax ID	*

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Bacteroides fragilis JCM 11017 PATRIC: 1235816.3
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Bacteroides fragilis JCM 11017 PATRIC: 1235816.3
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	90.359	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	yes	77.905	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	87.956	no
[Ref.: #69480]	aerobic	aerobicⓘ	no	87.514	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	97.105	no
[Ref.: #69480]	flagellated	motile2+ⓘ	no	88.5	no

Availability in culture collections External links

[Ref.: #32824]

Culture collection no.

CIP 104785, ATCC 51477, JCM 11017

[Ref.: #91998]

SI-ID 43008

Literature:

Topic	Title	Authors	Journal	DOI	Year
Pathogenicity	The capability of non-native strains of Bacteroides bacteria to detect bacteriophages as faecal indicators in a tropical area.	Sirikanchana K, Wangkahad B, Mongkolsuk S	J Appl Microbiol	10.1111/jam.12646	2014	*
Genetics	Genome sequence of the Bacteroides fragilis phage ATCC 51477-B1.	Hawkins SA, Layton AC, Ripp S, Williams D, Sayler GS	Virol J	10.1186/1743-422X-5-97	2008	*

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 )

#32824 Collection of Institut Pasteur ; Curators of the CIP; CIP 104785

#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;

#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) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#91998

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-ID43008.1 )

* These data were automatically processed and therefore are not curated

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