Ruminococcus champanellensis (DSM 18848, JCM 17042, 18P13)

Name: Ruminococcus champanellensis (DSM 18848, JCM 17042, 18P13)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 17686

Type strain

Strain Designation 18P13

Culture col. no. DSM 18848 JCM 17042 18P13 KCTC 15320

NCBI tax ID(s) 213810 1161942

Special Collections DSMZ JCM KCTC Literature strains

Links

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

Gram-positive coccus-shaped anaerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 399845

JCM 17042,DSM 18848

@ref 20215

Last LPSN update 2025-12-16 09:51:09

Domain Bacillati

Phylum Bacillota

Class Clostridia

Order Eubacteriales

Family Oscillospiraceae

Genus Ruminococcus

Species Ruminococcus champanellensis

Full scientific name Ruminococcus champanellensis Chassard et al. 2012

Morphology

Cell morphology

@ref	Gram stain	Cell width	Cell shape	Motility
29951	positive	0.9-1.3 µm	coccus-shaped

Colony morphology

@ref	Incubation period
7740	3-7 days
26320	1 day

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
7740	RUMINOCOCCUS ALBUS MEDIUM (DSMZ Medium 436)		Medium recipe at MediaDive	Name: RUMINOCOCCUS ALBUS MEDIUM (DSMZ Medium 436) Composition: Tryptone 5.0 g/l Na2CO3 4.0 g/l Glucose 3.0 g/l Yeast extract 2.0 g/l Cellobiose 2.0 g/l (NH4)2SO4 0.8 g/l L-Cysteine HCl x H2O 0.5 g/l NaCl 0.48 g/l K2HPO4 0.24 g/l KH2PO4 0.24 g/l MgSO4 x 7 H2O 0.1 g/l CaCl2 x 7 H2O 0.064 g/l Resazurin 0.001 g/l Isovaleric acid 2-Methylbutyric acid Isobutyric acid Distilled water
26320	BC medium with cellobiose

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
7740	positive	growth	37	mesophilic
26320	positive	optimum	39	mesophilic
26320	positive	growth	33-39	mesophilic
29951	positive	growth	33-39	mesophilic
29951	positive	optimum	39	mesophilic
67770	positive	growth	37	mesophilic

Culture pH

@ref	Ability	Type	PH
29951	positive	optimum	6.8
26320	positive	optimum	6.8
29951	positive	growth	6.5-6.8
26320	positive	growth	6.5-6.8

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
7740	anaerobe
29951	anaerobe
26320	obligate anaerobe
125438	anaerobe
125439	obligate anaerobe

Spore formation

@ref	Spore formation
29951
26320

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
26320	27613 ChEBI	amygdalin	-	builds acid from
26320	22605 ChEBI	arabinitol	-	builds acid from
26320	22599 ChEBI	arabinose	-	growth
68380	29016 ChEBI	arginine	-	hydrolysis	from API rID32A
29951	17057 ChEBI	cellobiose	+	carbon source
26320	17057 ChEBI	cellobiose	+	hydrolysis
26320	62968 ChEBI	cellulose	+	hydrolysis
26320	62318 ChEBI	D-lyxose	-	builds acid from
68380	16024 ChEBI	D-mannose	-	fermentation	from API rID32A
26320	16443 ChEBI	D-tagatose	-	builds acid from
26320	17113 ChEBI	erythritol	-	builds acid from
29951	4853 ChEBI	esculin	+	hydrolysis
26320	4853 ChEBI	esculin	+	hydrolysis
26320	28757 ChEBI	fructose	-	growth
26320	33984 ChEBI	fucose	-	growth
26320	33984 ChEBI	fucose	-	builds acid from
26320	16813 ChEBI	galactitol	-	builds acid from
26320	28260 ChEBI	galactose	-	growth
26320	24175 ChEBI	galacturonate	-	growth
26320	5291 ChEBI	gelatin	-	hydrolysis
26320	28066 ChEBI	gentiobiose	-	builds acid from
26320	17234 ChEBI	glucose	-	growth
26320	17754 ChEBI	glycerol	-	builds acid from
26320	15443 ChEBI	inulin	-	builds acid from
68380	29985 ChEBI	L-glutamate	-	degradation	from API rID32A
26320	62345 ChEBI	L-rhamnose	-	builds acid from
26320	17266 ChEBI	L-sorbose	-	builds acid from
26320	17716 ChEBI	lactose	-	growth
26320	6359 ChEBI	lactulose	-	growth
26320	17306 ChEBI	maltose	-	growth
26320	29864 ChEBI	mannitol	-	growth
26320	37684 ChEBI	mannose	-	growth
26320	28053 ChEBI	melibiose	-	growth
26320	28053 ChEBI	melibiose	-	builds acid from
26320	17268 ChEBI	myo-inositol	-	growth
26320	506227 ChEBI	N-acetylglucosamine	-	builds acid from
68380	17632 ChEBI	nitrate	-	reduction	from API rID32A
26320	17309 ChEBI	pectin	-	hydrolysis
26320	16634 ChEBI	raffinose	-	growth
68380	16634 ChEBI	raffinose	-	fermentation	from API rID32A
26320	15963 ChEBI	ribitol	-	builds acid from
26320	33942 ChEBI	ribose	-	growth
26320	17814 ChEBI	salicin	-	growth
26320	30911 ChEBI	sorbitol	-	growth
26320	28017 ChEBI	starch	-	hydrolysis
26320	17992 ChEBI	sucrose	-	growth
26320	27082 ChEBI	trehalose	-	growth
26320	27897 ChEBI	tryptophan	-	energy source
68380	27897 ChEBI	tryptophan	-	energy source	from API rID32A
26320	32528 ChEBI	turanose	-	builds acid from
68380	16199 ChEBI	urea	-	hydrolysis	from API rID32A
26320	37166 ChEBI	xylan	+	hydrolysis
26320	17151 ChEBI	xylitol	-	builds acid from
26320	18222 ChEBI	xylose	-	growth

Metabolite production

@ref	Chebi-ID	Metabolite
26320	30089 ChEBI	acetate
26320	35581 ChEBI	indole
68380	35581 ChEBI	indole	from API rID32A
26320	30031 ChEBI	succinate

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
26320	35581 ChEBI	indole	-
68380	35581 ChEBI	indole	-	from API rID32A

Enzymes

@ref	Value	Activity	Ec
26320	acid phosphatase	-	3.1.3.2
68380	alanine arylamidase	-	3.4.11.2	from API rID32A
29951	alkaline phosphatase	+	3.1.3.1
26320	alkaline phosphatase	+	3.1.3.1
68380	alkaline phosphatase	-	3.1.3.1	from API rID32A
68380	alpha-arabinosidase	-	3.2.1.55	from API rID32A
26320	alpha-chymotrypsin	-	3.4.21.1
26320	alpha-fucosidase	-	3.2.1.51
68380	alpha-fucosidase	-	3.2.1.51	from API rID32A
26320	alpha-galactosidase	+	3.2.1.22
68380	alpha-galactosidase	+	3.2.1.22	from API rID32A
26320	alpha-glucosidase	-	3.2.1.20
68380	alpha-glucosidase	+	3.2.1.20	from API rID32A
26320	alpha-mannosidase	-	3.2.1.24
68380	arginine dihydrolase	-	3.5.3.6	from API rID32A
26320	beta-galactosidase	+	3.2.1.23
68380	beta-galactosidase	+	3.2.1.23	from API rID32A
68380	beta-Galactosidase 6-phosphate	-		from API rID32A
26320	beta-glucosidase	+	3.2.1.21
68380	beta-glucosidase	+	3.2.1.21	from API rID32A
26320	beta-glucuronidase	-	3.2.1.31
68380	beta-glucuronidase	-	3.2.1.31	from API rID32A
26320	cystine arylamidase	-	3.4.11.3
26320	esterase	+
26320	esterase Lipase (C 8)	+
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
26320	leucine arylamidase	-	3.4.11.1
68380	leucine arylamidase	-	3.4.11.1	from API rID32A
68380	leucyl glycin arylamidase	-	3.4.11.1	from API rID32A
26320	lipase	-
26320	N-acetyl-beta-glucosaminidase	-	3.2.1.52
68380	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API rID32A
26320	naphthol-AS-BI-phosphohydrolase	+
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
26320	trypsin	-	3.4.21.4
26320	tryptophan deaminase	-	4.1.99.1
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
26320	valine arylamidase	-

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
7740	-	-	+	+	-	+	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2
#Host	#Human
#Host Body Product	#Gastrointestinal tract

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
7740	human faeces of a methane-excreting healthy individual	INRA Clermont-Ferrand/Theix	France	FRA	Europe
26320	human faeces of a methane excreting healthy individual at the INRA centre of Clermont Ferrand-Theix, Auvergne	France	France	FRA	Europe
67770	Human feces

Taxonmaps

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

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
7740	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM21009v1 assembly for Ruminococcus champanellensis 18P13 = JCM 17042 type strain: 18P13	chromosome	GCA_000210095	213810.4	650377969	213810	66.14
66792	ASM131282v1 assembly for Ruminococcus champanellensis 18P13 = JCM 17042	contig	GCA_001312825	213810.11	2734481917	213810	13.59

Genome browser: GCA_000210095

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	Ruminococcus champanellensis gene for 16S ribosomal RNA, partial sequence	AB910742	1467		213810
7740	Ruminococcus champanellensis 18P13 = JCM 17042 partial 16S rRNA gene, type strain 18P13T	AJ515913	1368		213810

GC content

@ref	GC-content (mol%)
7740	53.05
29951	52.35-53.75
26320	53.07
67770	53.05

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Ruminococcus champanellensis 18P13 = JCM 17042
NCBI: GCA_001312825

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	54.30	no
125439	motility	BacteriaNetⓘ	yes	55.50	no
125439	gram_stain	BacteriaNetⓘ	variable	74.00	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate anaerobe	97.10	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Ruminococcus champanellensis 18P13
PATRIC: 213810.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	76.97	yes
125438	anaerobic	anaerobicⓘ	yes	96.96	yes
125438	spore-forming	spore-formingⓘ	no	69.14	yes
125438	aerobic	aerobicⓘ	no	99.64	yes
125438	thermophilic	thermophileⓘ	no	82.37	no
125438	flagellated	motile2+ⓘ	no	85.56	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Cellulolytic bacteria in the large intestine of mammals.	Froidurot A, Julliand V.	Gut Microbes	10.1080/19490976.2022.2031694	2022
	Important roles of Ruminococcaceae in the human intestine for resistant starch utilization.	Kim YJ, Jung DH, Park CS.	Food Sci Biotechnol	10.1007/s10068-024-01621-0	2024
	Common miRNA Patterns of Alzheimer's Disease and Parkinson's Disease and Their Putative Impact on Commensal Gut Microbiota.	Hewel C, Kaiser J, Wierczeiko A, Linke J, Reinhardt C, Endres K, Gerber S.	Front Neurosci	10.3389/fnins.2019.00113	2019
Metabolism	Multi-omic Directed Discovery of Cellulosomes, Polysaccharide Utilization Loci, and Lignocellulases from an Enriched Rumen Anaerobic Consortium.	Tomazetto G, Pimentel AC, Wibberg D, Dixon N, Squina FM.	Appl Environ Microbiol	10.1128/aem.00199-20	2020
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 .
#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 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#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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Ruminococcus champanellensis (DSM 18848, JCM 17042, 18P13)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API rID32A

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000210095

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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