Name: Ruminococcus champanellensis 18P13
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 17686

Type strain:

Species: Ruminococcus champanellensis

Strain Designation: 18P13

Culture col. no.: DSM 18848, JCM 17042, KCTC 15320

Strain history: A. Bernalier-Donadille 18P13.

NCBI tax ID(s): 213810 (strain), 1161942 (species)

SI-ID 399845

DSM 18848

Special Collections

Section

Ruminococcus champanellensis 18P13 is an anaerobe, Gram-positive, coccus-shaped bacterium that was isolated from human faeces of a methane-excreting healthy individual.

coccus-shaped
Gram-positive
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	*Bacillota*
	Class	*Clostridia*
	Order	*Eubacteriales*
	Family	*Oscillospiraceae*
	Genus	*Ruminococcus*
	Species	**Ruminococcus champanellensis**
	Full Scientific Name (LPSN)	Ruminococcus champanellensis Chassard et al. 2012

Information on morphological and physiological properties Morphology

[Ref.: #29951]	Gram stain	positive

[Ref.: #29951]	Cell width	0.9-1.3 µm

[Ref.: #29951]	Cell shape	coccus-shaped

[Ref.: #29951]	Motility	no

[Ref.: #26320]	Colony size	1.5-2.5 mm
[Ref.: #26320]	Colony color	white with a brown centre
[Ref.: #26320]	Colony shape	circular
[Ref.: #26320]	Incubation period	1 day
[Ref.: #26320]	Cultivation medium used	BC medium with cellobiose

[Ref.: #7740]	Incubation period	3-7 days

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7740]

Culture medium

RUMINOCOCCUS ALBUS MEDIUM (DSMZ Medium 436)

[Ref.: #7740]

Culture medium growth

[Ref.: #7740]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7740]

Culture medium composition

expand / minimize

[Ref.: #26320]

Culture medium

BC medium with cellobiose

[Ref.: #26320]

Culture medium growth

		Temperature
[Ref.: #7740]	growth	37 °C
[Ref.: #26320]	optimum	39 °C
[Ref.: #26320]	growth	33-39 °C
[Ref.: #29951]	growth	33-39 °C
[Ref.: #29951]	optimum	39 °C
[Ref.: #67770]	growth	37 °C

		pH
[Ref.: #29951]	optimum	6.8
[Ref.: #26320]	optimum	6.8
[Ref.: #29951]	growth	6.5-6.8
[Ref.: #26320]	growth	6.5-6.8

Information on physiology and metabolism Physiology and metabolism

[Ref.: #7740]	Oxygen tolerance	anaerobe
[Ref.: #29951]	Oxygen tolerance	anaerobe
[Ref.: #26320]	Oxygen tolerance	obligate anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %96.956

[Ref.: #26320]	Type of spore	endospore
[Ref.: #26320]	Ability of spore formation	no
[Ref.: #29951]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #26320]	amygdalin ChEBI	-	builds acid from
[Ref.: #26320]	arabinitol ChEBI	-	builds acid from
[Ref.: #26320]	arabinose ChEBI	-	growth
[Ref.: #68380]	arginine ChEBI	-	hydrolysis	* from API rID32A
[Ref.: #29951]	cellobiose ChEBI	+	carbon source
[Ref.: #26320]	cellobiose ChEBI	+	hydrolysis
[Ref.: #26320]	cellulose ChEBI	+	hydrolysis
[Ref.: #26320]	D-lyxose ChEBI	-	builds acid from
[Ref.: #68380]	D-mannose ChEBI	-	fermentation	* from API rID32A
[Ref.: #26320]	D-tagatose ChEBI	-	builds acid from
[Ref.: #26320]	erythritol ChEBI	-	builds acid from
[Ref.: #29951]	esculin ChEBI	+	hydrolysis
[Ref.: #26320]	esculin ChEBI	+	hydrolysis
[Ref.: #26320]	fructose ChEBI	-	growth
[Ref.: #26320]	fucose ChEBI	-	growth
[Ref.: #26320]	fucose ChEBI	-	builds acid from
[Ref.: #26320]	galactitol ChEBI	-	builds acid from
[Ref.: #26320]	galactose ChEBI	-	growth
[Ref.: #26320]	galacturonate ChEBI	-	growth
[Ref.: #26320]	gelatin ChEBI	-	hydrolysis
[Ref.: #26320]	gentiobiose ChEBI	-	builds acid from
[Ref.: #26320]	glucose ChEBI	-	growth
[Ref.: #26320]	glycerol ChEBI	-	builds acid from
[Ref.: #26320]	inulin ChEBI	-	builds acid from
[Ref.: #68380]	L-glutamate ChEBI	-	degradation	* from API rID32A
[Ref.: #26320]	L-rhamnose ChEBI	-	builds acid from
[Ref.: #26320]	L-sorbose ChEBI	-	builds acid from
[Ref.: #26320]	lactose ChEBI	-	growth
[Ref.: #26320]	lactulose ChEBI	-	growth
[Ref.: #26320]	maltose ChEBI	-	growth
[Ref.: #26320]	mannitol ChEBI	-	growth
[Ref.: #26320]	mannose ChEBI	-	growth
[Ref.: #26320]	melibiose ChEBI	-	growth
[Ref.: #26320]	melibiose ChEBI	-	builds acid from
[Ref.: #26320]	myo-inositol ChEBI	-	growth
[Ref.: #26320]	N-acetylglucosamine ChEBI	-	builds acid from
[Ref.: #68380]	nitrate ChEBI	-	reduction	* from API rID32A
[Ref.: #26320]	pectin ChEBI	-	hydrolysis
[Ref.: #26320]	raffinose ChEBI	-	growth
[Ref.: #68380]	raffinose ChEBI	-	fermentation	* from API rID32A
[Ref.: #26320]	ribitol ChEBI	-	builds acid from
[Ref.: #26320]	ribose ChEBI	-	growth
[Ref.: #26320]	salicin ChEBI	-	growth
[Ref.: #26320]	sorbitol ChEBI	-	growth
[Ref.: #26320]	starch ChEBI	-	hydrolysis
[Ref.: #26320]	sucrose ChEBI	-	growth
[Ref.: #26320]	trehalose ChEBI	-	growth
[Ref.: #26320]	tryptophan ChEBI	-	energy source
[Ref.: #68380]	tryptophan ChEBI	-	energy source	* from API rID32A
[Ref.: #26320]	turanose ChEBI	-	builds acid from
[Ref.: #68380]	urea ChEBI	-	hydrolysis	* from API rID32A
[Ref.: #26320]	xylan ChEBI	+	hydrolysis
[Ref.: #26320]	xylitol ChEBI	-	builds acid from
[Ref.: #26320]	xylose ChEBI	-	growth
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #26320]	acetate ChEBI	yes
[Ref.: #26320]	indole ChEBI	no
[Ref.: #26320]	succinate ChEBI	yes
[Ref.: #68380]	indole ChEBI	no	* from API rID32A

	Physiological tests	Metabolite	Indole test
[Ref.: #26320]		indole ChEBI	-
[Ref.: #68380]		indole ChEBI	-	* from API rID32A

	Enzyme	Enzyme activity	EC number
[Ref.: #26320]	acid phosphatase	-	3.1.3.2
[Ref.: #68380]	alanine arylamidase	-	3.4.11.2	* from API rID32A
[Ref.: #29951]	alkaline phosphatase	+	3.1.3.1
[Ref.: #26320]	alkaline phosphatase	+	3.1.3.1
[Ref.: #68380]	alkaline phosphatase	-	3.1.3.1	* from API rID32A
[Ref.: #68380]	alpha-arabinosidase	-	3.2.1.55	* from API rID32A
[Ref.: #26320]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #26320]	alpha-fucosidase	-	3.2.1.51
[Ref.: #68380]	alpha-fucosidase	-	3.2.1.51	* from API rID32A
[Ref.: #26320]	alpha-galactosidase	+	3.2.1.22
[Ref.: #68380]	alpha-galactosidase	+	3.2.1.22	* from API rID32A
[Ref.: #26320]	alpha-glucosidase	-	3.2.1.20
[Ref.: #68380]	alpha-glucosidase	+	3.2.1.20	* from API rID32A
[Ref.: #26320]	alpha-mannosidase	-	3.2.1.24
[Ref.: #68380]	arginine dihydrolase	-	3.5.3.6	* from API rID32A
[Ref.: #26320]	beta-galactosidase	+	3.2.1.23
[Ref.: #68380]	beta-galactosidase	+	3.2.1.23	* from API rID32A
[Ref.: #68380]	beta-Galactosidase 6-phosphate	-		* from API rID32A
[Ref.: #26320]	beta-glucosidase	+	3.2.1.21
[Ref.: #68380]	beta-glucosidase	+	3.2.1.21	* from API rID32A
[Ref.: #26320]	beta-glucuronidase	-	3.2.1.31
[Ref.: #68380]	beta-glucuronidase	-	3.2.1.31	* from API rID32A
[Ref.: #26320]	cystine arylamidase	-	3.4.11.3
[Ref.: #26320]	esterase	+
[Ref.: #26320]	esterase Lipase (C 8)	+
[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.: #26320]	leucine arylamidase	-	3.4.11.1
[Ref.: #68380]	leucine arylamidase	-	3.4.11.1	* from API rID32A
[Ref.: #68380]	leucyl glycin arylamidase	-	3.4.11.1	* from API rID32A
[Ref.: #26320]	lipase	-
[Ref.: #26320]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #68380]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API rID32A
[Ref.: #26320]	naphthol-AS-BI-phosphohydrolase	+
[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.: #26320]	trypsin	-	3.4.21.4
[Ref.: #26320]	tryptophan deaminase	-	4.1.99.1
[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
[Ref.: #26320]	valine arylamidase	-
	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.: #7740]	12670	-	-	+	+	-	+	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-

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

[Ref.: #7740]	Sample type/isolated from	human faeces of a methane-excreting healthy individual
[Ref.: #7740]	Geographic location (country and/or sea, region)	INRA Clermont-Ferrand/Theix
[Ref.: #7740]	Country	France
[Ref.: #7740]	Country ISO 3 Code	FRA
[Ref.: #7740]	Continent	Europe

[Ref.: #26320]	Sample type/isolated from	human faeces of a methane excreting healthy individual at the INRA centre of Clermont Ferrand-Theix, Auvergne
[Ref.: #26320]	Geographic location (country and/or sea, region)	France
[Ref.: #26320]	Country	France
[Ref.: #26320]	Country ISO 3 Code	FRA
[Ref.: #26320]	Continent	Europe

[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 AB910742 (>99% sequence identity) for Ruminococcus champanellensis subclade from Microbeatlas

Aquatic Samples	445
Soil Samples	125
Animal Samples	18929
Plant Samples	95
Total Samples	19594

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

[Ref.: #7740]

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.: #7740]	Ruminococcus champanellensis 18P13 = JCM 17042 partial 16S rRNA gene, type strain 18P13T	AJ515913	1368	GenBank ENA	213810 tax ID
[Ref.: #20218]	Ruminococcus champanellensis gene for 16S ribosomal RNA, partial sequence	AB910742	1467	GenBank ENA	213810 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Ruminococcus champanellensis 18P13 = JCM 17042 type strain: 18P13	GCA_000210095	chromosome	GenBank ENA	213810 tax ID	*
[Ref.: #66792]	Ruminococcus champanellensis 18P13 = JCM 17042	GCA_001312825	contig	GenBank ENA	213810 tax ID	*
[Ref.: #66792]	Ruminococcus champanellensis 18P13	213810.4	complete	PATRIC	213810 tax ID	*
[Ref.: #66792]	Ruminococcus champanellensis 18P13 = JCM 17042	213810.11	wgs	PATRIC	213810 tax ID	*
[Ref.: #66792]	Ruminococcus champanellensis JCM 17042	2734481917	draft	JGI IMG/M	213810 tax ID	*

[Ref.: #7740]	GC-content	53.05 mol%
[Ref.: #29951]	GC-content	52.35-53.75 mol%
[Ref.: #26320]	GC-content	53.07 mol%	high performance liquid chromatography (HPLC)
[Ref.: #67770]	GC-content	53.05 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: Ruminococcus champanellensis 18P13 = JCM 17042 type strain: 18P13 NCBI: GCA_000210095.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Ruminococcus champanellensis 18P13 PATRIC: 213810.4
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	76.965	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	yes	96.956	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	69.135	yes
[Ref.: #69480]	aerobic	aerobicⓘ	no	99.635	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	82.372	no
[Ref.: #69480]	flagellated	motile2+ⓘ	no	85.56	yes

Availability in culture collections External links

[Ref.: #7740]

Culture collection no.

DSM 18848, JCM 17042, KCTC 15320

[Ref.: #86677]

SI-ID 399845

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Ruminococcus champanellensis sp. nov., a cellulose-degrading bacterium from human gut microbiota.	Chassard C, Delmas E, Robert C, Lawson PA, Bernalier-Donadille A	Int J Syst Evol Microbiol	10.1099/ijs.0.027375-0	2011	*

References

#7740

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 18848

#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 )

#26320

IJSEM 138 2012 ( DOI 10.1099/ijs.0.027375-0 , PubMed 21357460 )

#29951

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #26320 (see below)

#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 .

#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 )

#86677

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-ID399845.1 )

#26320

IJSEM 138 2012 ( DOI 10.1099/ijs.0.027375-0 , PubMed 21357460 )

* These data were automatically processed and therefore are not curated

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Ruminococcus champanellensis 18P13 = JCM 17042 type strain: 18P13

Ruminococcus champanellensis 18P13

Change proposal

Change proposal