Name: Dorea formicigenerans DSM 3992
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 6354

Type strain:

Species: Dorea formicigenerans

Culture col. no.: DSM 3992, ATCC 27755, JCM 10342, KCTC 15690, VPI C8-13

Strain history: <- DSM <- ATCC <- LV Holdeman, VPI C8-13

NCBI tax ID(s): 411461 (strain), 39486 (species)

SI-ID 39158

ATCC 27755, JCM 9500, DSM 3992, JCM 10342

Other strains from Dorea formicigenerans

D. formicigenerans BSM-383-APC-5F, DSM 105840
D. formicigenerans JCM 31256

Section

Dorea formicigenerans DSM 3992 is an anaerobe, mesophilic, rod-shaped bacterium that was isolated from human faeces.

rod-shaped
anaerobe
mesophilic
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	*Bacillota*
	Class	*Clostridia*
	Order	*Eubacteriales*
	Family	*Lachnospiraceae*
	Genus	*Dorea*
	Species	**Dorea formicigenerans**
	Full Scientific Name (LPSN)	Dorea formicigenerans (Holdeman and Moore 1974) Taras et al. 2002

Synonym

Eubacterium formicigenerans

Information on morphological and physiological properties Morphology

[Ref.: #67771]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #67771]	Cell shape	rod-shaped

[Ref.: #67771]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %91.049

Information on culture and growth conditions Culture and growth conditions

[Ref.: #1562]

Culture medium

CHOPPED MEAT MEDIUM (DSMZ Medium 78)

[Ref.: #1562]

Culture medium growth

[Ref.: #1562]

Culture medium link

Medium recipe at MediaDive

[Ref.: #1562]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #1562]			growth	37 °C
[Ref.: #67771]			growth	37 °C

[Ref.: #1562]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #1562]	Oxygen tolerance	anaerobe
[Ref.: #67771]	Oxygen tolerance	anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %100

[Ref.: #67771]	Ability of spore formation	no
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.964

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68380]	arginine ChEBI	-	hydrolysis	* from API rID32A
[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]	alpha-glucosidase	+	3.2.1.20	* from API rID32A
[Ref.: #68380]	arginine dihydrolase	-	3.5.3.6	* 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]	glycin arylamidase	-		* from API rID32A
[Ref.: #68380]	histidine arylamidase	-		* from API rID32A
[Ref.: #68380]	L-arginine 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.: #1562]	12554	-	-	-	+	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-

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

[Ref.: #1562]	Sample type/isolated from	human faeces

[Ref.: #67771]	Sample type/isolated from	From human faeces
* 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.: #1562]

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]	Dorea formicigenerans strain ATCC 27755 16S ribosomal RNA gene, partial sequence	L34619	1479	ENA	39486 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]	Dorea formicigenerans ATCC 27755	GCA_000169235	contig	GenBank	411461 tax ID	*
[Ref.: #66792]	Dorea formicigenerans ATCC 27755	411461.4	wgs	PATRIC	411461 tax ID	*
[Ref.: #66792]	Dorea formicigenerans ATCC 27755	411461.20	wgs	PATRIC	411461 tax ID	*
[Ref.: #66792]	Dorea formicigenerans ATCC 27755	641736133	draft	JGI IMG/M	411461 tax ID	*
[Ref.: #66792]	Dorea formicigenerans ATCC 27755	GCA_025150245	complete	GenBank	39486 tax ID	*
[Ref.: #66792]	Dorea formicigenerans strain ATCC 27755	39486.544	complete	PATRIC	39486 tax ID	*

[Ref.: #67771]

GC-content

40-44 mol%

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Dorea formicigenerans ATCC 27755 PATRIC: 411461.20
[Ref.: #69481]	spore-forming	yes	51	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Dorea formicigenerans ATCC 27755 NCBI: GCA_025150245.1
[Ref.: #69480]	motile	no	89.912	no
[Ref.: #69480]	flagellated	no	96.441	yes
[Ref.: #69480]	gram-positive	yes	91.743	yes
[Ref.: #69480]	anaerobic	yes	99.999	yes
[Ref.: #69480]	aerobic	no	98.691	yes
[Ref.: #69480]	halophile	no	77.584	no
[Ref.: #69480]	spore-forming	no	70.244	no
[Ref.: #69480]	glucose-ferment	yes	71.474	no
[Ref.: #69480]	thermophile	no	98.068	yes
[Ref.: #69480]	glucose-util	yes	82.336	no

Availability in culture collections External links

[Ref.: #1562]

Culture collection no.

DSM 3992, ATCC 27755, JCM 10342, KCTC 15690, VPI C8-13

[Ref.: #75827]

SI-ID 39158

Literature:

Topic	Title	Authors	Journal	DOI	Year
Pathogenicity	Golden bifid might improve diarrhea-predominant irritable bowel syndrome via microbiota modulation.	Luo M, Liu Q, Xiao L, Xiong LS	J Health Popul Nutr	10.1186/s41043-022-00302-0	2022	*
Transcriptome	Identification and engraftment of new bacterial strains by shotgun metagenomic sequence analysis in patients with recurrent Clostridioides difficile infection before and after fecal microbiota transplantation and in healthy human subjects.	Verma S, Dutta SK, Firnberg E, Phillips L, Vinayek R, Nair PP	PLoS One	10.1371/journal.pone.0251590	2021	*
Phylogeny	Sporofaciens musculi gen. nov., sp. nov., a novel bacterium isolated from the caecum of an obese mouse.	Rasmussen TS, Streidl T, Hitch TCA, Wortmann E, Deptula P, Kofoed MVW, Riedel T, Neumann-Schaal M, Hansen M, Nielsen DS, Clavel T, Vogensen FK	Int J Syst Evol Microbiol	10.1099/ijsem.0.004673	2021	*

References

#1562

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 3992

#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 )

#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) .

#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#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 )

#75827

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-ID39158.1 )

* These data were automatically processed and therefore are not curated

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Dorea formicigenerans ATCC 27755

Dorea formicigenerans ATCC 27755

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