Name: Collinsella aerofaciens CCUG 28087
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 3044

Type strain:

Species: Collinsella aerofaciens

Culture col. no.: CCUG 28087, JCM 10188, DSM 3979, ATCC 25986, VPI 1003, KCTC 3647, NCTC 11838

Strain history: T. Mitsuoka V-61 <-- Takeda Chem. Ind., Ltd.; 1442 <-- ATCC 25986 <-- VPI 1003.

NCBI tax ID(s): 411903 (strain), 74426 (species)

SI-ID 38740

ATCC 25986, DSM 3979, JCM 10188, CCUG 28087, KCTC 3647, NCTC 11838, BCRC 16136, CCRC 16136, VTT E-052787

Special Collections

Other strains from Collinsella aerofaciens

Section

Collinsella aerofaciens CCUG 28087 is an anaerobe bacterium that was isolated from human faeces.

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	*Actinomycetota*
	Class	*Coriobacteriia*
	Order	*Coriobacteriales*
	Family	*Coriobacteriaceae*
	Genus	*Collinsella*
	Species	**Collinsella aerofaciens**
	Full Scientific Name (LPSN)	Collinsella aerofaciens (Eggerth 1935) Kageyama et al. 1999

	Synonym	"Bacteroides* aerofaciens"*
	Synonym	Eubacterium aerofaciens

Information on culture and growth conditions Culture and growth conditions

[Ref.: #1537]

Culture medium

CHOPPED MEAT MEDIUM (DSMZ Medium 78)

[Ref.: #1537]

Culture medium growth

[Ref.: #1537]

Culture medium link

Medium recipe at MediaDive

[Ref.: #1537]

Culture medium composition

expand / minimize

[Ref.: #1537]

Culture medium

FASTIDIOUS ANAEROBE BROTH (DSMZ Medium 1203a)

[Ref.: #1537]

Culture medium growth

[Ref.: #1537]

Culture medium link

Medium recipe at MediaDive

[Ref.: #1537]

Culture medium composition

expand / minimize

[Ref.: #1537]

Culture medium

FASTIDIOUS ANAEROBE AGAR (DSMZ Medium 1203)

[Ref.: #1537]

Culture medium growth

[Ref.: #1537]

Culture medium link

Medium recipe at MediaDive

[Ref.: #1537]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #1537]			growth	37 °C
[Ref.: #67770]			growth	37 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #1537]

Oxygen tolerance

anaerobe

[Ref.: #69481]

Ability of spore formation

no Confidence in %100

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68380]	D-mannose ChEBI	-	fermentation	* from API rID32A
[Ref.: #68380]	L-glutamate ChEBI	-	degradation	* from API rID32A
[Ref.: #68380]	nitrate ChEBI	-	reduction	* from API rID32A
[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

	Metabolite production	Metabolite	Production
[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.: #68380]	alanine arylamidase	-	3.4.11.2	* from API rID32A
[Ref.: #68380]	alkaline phosphatase	-	3.1.3.1	* from API rID32A
[Ref.: #68380]	alpha-arabinosidase	-	3.2.1.55	* from API rID32A
[Ref.: #68380]	alpha-fucosidase	-	3.2.1.51	* from API rID32A
[Ref.: #68380]	alpha-galactosidase	-	3.2.1.22	* from API rID32A
[Ref.: #68380]	beta-galactosidase	+	3.2.1.23	* from API rID32A
[Ref.: #68380]	beta-Galactosidase 6-phosphate	-		* from API rID32A
[Ref.: #68380]	beta-glucosidase	-	3.2.1.21	* from API rID32A
[Ref.: #68380]	beta-glucuronidase	-	3.2.1.31	* from API rID32A
[Ref.: #68380]	glutamate decarboxylase	-	4.1.1.15	* from API rID32A
[Ref.: #68380]	glutamyl-glutamate arylamidase	-		* from API rID32A
[Ref.: #68380]	leucine arylamidase	-	3.4.11.1	* from API rID32A
[Ref.: #68380]	leucyl glycin arylamidase	-	3.4.11.1	* from API rID32A
[Ref.: #68380]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API rID32A
[Ref.: #68380]	phenylalanine arylamidase	-		* from API rID32A
[Ref.: #68380]	proline-arylamidase	+	3.4.11.5	* from API rID32A
[Ref.: #68380]	pyrrolidonyl arylamidase	-	3.4.19.3	* from API rID32A
[Ref.: #68380]	serine arylamidase	-		* from API rID32A
[Ref.: #68380]	tryptophan deaminase	-	4.1.99.1	* from API rID32A
[Ref.: #68380]	tyrosine arylamidase	-		* from API rID32A
[Ref.: #68380]	urease	-	3.5.1.5	* from API rID32A
	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.: #1537]	13167	-	+	-	+	-	+	-	-	-	-	-	-	-	-	-	-	-	+/-	+	-	-	-	-	-	-	-	+/-	-	-
[Ref.: #1537]	12547	-	+	-	+	-	+/-	-	-	-	-	-	-	-	-	-	-	-	+	+	-	-	-	-	-	-	-	-	-	-
[Ref.: #1537]	12546	-	+	-	+	-	+	-	-	-	-	-	-	-	-	-	-	-	+	+	-	-	-	-	-	-	-	-	-	-
[Ref.: #1537]	13404	-	-	-	+	-	+	-	-	-	-	-	-	-	-	-	-	-	+	+	-	-	-	-	-	-	+/-	+	-	-

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

[Ref.: #1537]	Sample type/isolated from	human faeces

[Ref.: #49090]	Sample type/isolated from	Human feces

[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?

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

[Ref.: #1537]

Biosafety level

Risk group (German classification)
According to TRBA 466

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.: #20218]	Eubacterium aerofaciens gene for 16S rRNA, partial sequence	AB011816	1463	GenBank ENA	411903 tax ID	*
[Ref.: #20218]	Collinsella aerofaciens gene for 16S ribosomal RNA, partial sequence, strain: JCM 10188	AB616131	1467	GenBank ENA	74426 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.: #67770]	Collinsella aerofaciens NCTC11838	GCA_900461335	contig	GenBank ENA	74426 tax ID
[Ref.: #67770]	Collinsella aerofaciens ATCC 25986	GCA_000169035	contig	GenBank ENA	411903 tax ID
[Ref.: #66792]	Collinsella aerofaciens ATCC 25986	411903.6	wgs	PATRIC	411903 tax ID	*
[Ref.: #66792]	Collinsella aerofaciens ATCC 25986 strain JCM 10188	411903.30	complete	PATRIC	411903 tax ID	*
[Ref.: #66792]	Collinsella aerofaciens strain NCTC11838	74426.133	wgs	PATRIC	74426 tax ID	*
[Ref.: #66792]	Collinsella aerofaciens ATCC 25986	640612206	draft	JGI IMG/M	411903 tax ID	*

[Ref.: #67770]

GC-content

61 mol%

high performance liquid chromatography (HPLC)

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: Collinsella aerofaciens ATCC 25986 JCM 10188 NCBI: GCA_010509075.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Collinsella aerofaciens ATCC 25986 JCM 10188 NCBI: GCA_010509075.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	82.73	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	yes	89.31	no
[Ref.: #69480]	aerobic	aerobicⓘ	no	98.201	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	78.302	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	92.471	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	86.096	no

Availability in culture collections External links

[Ref.: #1537]

Culture collection no.

CCUG 28087, JCM 10188, DSM 3979, ATCC 25986, VPI 1003, KCTC 3647, NCTC 11838

[Ref.: #72564]

SI-ID 38740

Literature:

Topic	Title	Authors	Journal	DOI	Year
Genetics	Complete Genome Sequence of Collinsella aerofaciens JCM 10188(T).	Tourlousse DM, Sakamoto M, Miura T, Narita K, Ohashi A, Uchino Y, Yamazoe A, Kameyama K, Terauchi J, Ohkuma M, Kawasaki H, Sekiguchi Y	Microbiol Resour Announc	10.1128/MRA.00134-20	2020	*
Phylogeny	Characterization a Novel Butyric Acid-Producing Bacterium Collinsella aerofaciens Subsp. Shenzhenensis Subsp. Nov.	Qin P, Zou Y, Dai Y, Luo G, Zhang X, Xiao L	Microorganisms	10.3390/microorganisms7030078	2019	*
Enzymology	Identification, cloning, heterologous expression, and characterization of a NADPH-dependent 7beta-hydroxysteroid dehydrogenase from Collinsella aerofaciens.	Liu L, Aigner A, Schmid RD	Appl Microbiol Biotechnol	10.1007/s00253-010-3052-y	2010	*
Phylogeny	Phylogenetic and phenotypic evidence for the transfer of Eubacterium aerofaciens to the genus Collinsella as Collinsella aerofaciens gen. nov., comb. nov.	Kageyama A, Benno Y, Nakase T	Int J Syst Bacteriol	10.1099/00207713-49-2-557	1999	*
Enzymology	Characterization of NADP-dependent 7 beta-hydroxysteroid dehydrogenases from Peptostreptococcus productus and Eubacterium aerofaciens.	Hirano S, Masuda N	Appl Environ Microbiol	10.1128/aem.43.5.1057-1063.1982	1982	*

References

#1537

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 3979

#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 )

#49090 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 28087

#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;

#68380

Automatically annotated from API rID32A .

#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 )

#72564

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-ID38740.1 )

* These data were automatically processed and therefore are not curated

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Collinsella aerofaciens ATCC 25986 JCM 10188

Collinsella aerofaciens ATCC 25986 JCM 10188

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