Name: Ruminiclostridium cellobioparum Cc
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 2567

Type strain:

Species: Ruminiclostridium cellobioparum

Strain Designation: Cc

Culture col. no.: DSM 1351, ATCC 15832, NCIMB 10669, JCM 1422, LMG 5589, BCRC 14495, KCTC 15225, KCTC 3044, VPI 3359

Strain history: ATCC 15832 <-- L. V. Holdeman VIP 3359 <-- L. S. McClung and R. H. McBee <-- R. E. Hungate strain Cc.

NCBI tax ID(s): 29355 (species)

SI-ID 1955

LMG 5589, ATCC 15832, DSM 1351, NCIB 10669, NCIMB 10669, KCTC 3044, BCRC 14495, CCRC 14495, JCM 1422

Section

Ruminiclostridium cellobioparum Cc is an anaerobe, spore-forming, mesophilic bacterium that was isolated from bovine rumen.

Gram-variable
motile
rod-shaped
spore-forming
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	*Oscillospiraceae*
	Genus	*Ruminiclostridium*
	Species	**Ruminiclostridium cellobioparum**
	Full Scientific Name (LPSN)	Ruminiclostridium cellobioparum (Hungate 1944) Zhang et al. 2018

Synonym

Clostridium cellobioparum

Information on morphological and physiological properties Morphology

[Ref.: #66689]	Gram stain	variable
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #66689]	Cell length	1.4-3.3 µm

[Ref.: #66689]	Cell width	0.5-0.6 µm

[Ref.: #66689]	Cell shape	rod-shaped

[Ref.: #66689]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %92.817

Information on culture and growth conditions Culture and growth conditions

[Ref.: #637]

Culture medium

RUMINICLOSTRIDIUM MEDIUM (DSMZ Medium 140)

[Ref.: #637]

Culture medium growth

[Ref.: #637]

Culture medium link

Medium recipe at MediaDive

[Ref.: #637]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #637]	growth	37 °C
[Ref.: #66689]	growth	25-45 °C
[Ref.: #66689]	optimum	30-37 °C
[Ref.: #67770]	growth	37 °C

[Ref.: #637]	Temperature range	mesophilic
[Ref.: #66689]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #66689]			optimum	7-7.5
[Ref.: #66689]			growth	5-8.2

Information on physiology and metabolism Physiology and metabolism

[Ref.: #637]	Oxygen tolerance	anaerobe
[Ref.: #66689]	Oxygen tolerance	obligate anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %98.65

[Ref.: #66689]	Spore description	peritrichous, oval spores swelling the cell.
[Ref.: #66689]	Type of spore	spore
[Ref.: #66689]	Ability of spore formation	yes
[Ref.: #69481]	Ability of spore formation	yes Confidence in %100
[Ref.: #69480]	Ability of spore formation	yes Confidence in %100

[Ref.: #66689]

Observation

End products of fermentation are acetate, ethanol, H2 and CO2 . No growth factors are required, but addition of rumen fluids, yeast extract, biotrypcase or vitamins stimulates growth.

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #66689]	cellobiose ChEBI	+	assimilation
[Ref.: #66689]	cellulose ChEBI	+	assimilation
[Ref.: #66689]	fructose ChEBI	+	assimilation
[Ref.: #66689]	galactose ChEBI	+	assimilation
[Ref.: #66689]	lactose ChEBI	+	assimilation
[Ref.: #66689]	mannose ChEBI	+	assimilation
[Ref.: #66689]	raffinose ChEBI	-	assimilation
[Ref.: #66689]	sucrose ChEBI	-	assimilation
[Ref.: #66689]	xylose ChEBI	+	assimilation

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

[Ref.: #637]	Sample type/isolated from	bovine rumen

[Ref.: #66689]	Sample type/isolated from	mixture of bovine rumen and human faeces

[Ref.: #67770]	Sample type/isolated from	Bovine rumen
* marker position based on {}

Isolation sources categories

#Host	#Mammals	#Bovinae (Cow, Cattle)
#Host Body-Site	#Organ	#Rumen

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence X71856 (>99% sequence identity) for Ruminiclostridium cellobioparum subclade from Microbeatlas

Aquatic Samples	189
Soil Samples	819
Animal Samples	126
Plant Samples	68
Total Samples	1202

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

[Ref.: #637]

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.: #637]	C.cellobioparum gene for 16S ribosomal RNA	X71856	1510	ENA	1121303 tax ID
[Ref.: #20218]	Clostridium cellobioparum gene for 16S ribosomal RNA, partial sequence, strain: JCM 1422	AB627030	1484	ENA	1121303 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Ruminiclostridium cellobioparum DSM 1351 = ATCC 15832	GCA_000621505	scaffold	GenBank	1121303 tax ID
[Ref.: #66792]	[Clostridium] cellobioparum DSM 1351 = ATCC 15832	1121303.3	wgs	PATRIC	1121303 tax ID	*
[Ref.: #66792]	Clostridium cellobioparum ATCC 15832	2556921656	draft	JGI IMG/M	1121303 tax ID	*

[Ref.: #637]	GC-content	41.0 mol%	sequence analysis
[Ref.: #66689]	GC-content	41 mol%	genome sequence analysis

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: Ruminiclostridium cellobioparum DSM 1351 = ATCC 15832 ATCC 15832 NCBI: GCA_000621505.1
[Ref.: #69481]	spore-forming	yes	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: [Clostridium] cellobioparum DSM 1351 = ATCC 15832 PATRIC: 1121303.3
[Ref.: #69480]	motile	yes	84.936	no
[Ref.: #69480]	flagellated	yes	50.823	no
[Ref.: #69480]	gram-positive	no	65.854	yes
[Ref.: #69480]	anaerobic	yes	97.698	no
[Ref.: #69480]	aerobic	no	97.327	no
[Ref.: #69480]	halophile	no	97.503	no
[Ref.: #69480]	spore-forming	yes	95.368	yes
[Ref.: #69480]	thermophile	no	89.403	yes
[Ref.: #69480]	glucose-util	yes	91.464	no
[Ref.: #69480]	glucose-ferment	yes	60.303	no

Availability in culture collections External links

[Ref.: #637]

Culture collection no.

DSM 1351, ATCC 15832, NCIMB 10669, JCM 1422, LMG 5589, BCRC 14495, KCTC 15225, KCTC 3044, VPI 3359

[Ref.: #72100]

SI-ID 1955

References

#637	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 1351

#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 )

#66689

Xue Zhang, Bo Tu, Li-rong Dai, Paul A. Lawson, Zhen-zhen Zheng, Lai-Yan Liu, Yu Deng, Hui Zhang, Lei Cheng: Petroclostridium xylanilyticum gen. nov., sp. nov., a xylan-degrading bacterium isolated from an oilfield, and reclassification of clostridial cluster III members into four novel genera in a new Hungateiclostridiaceae fam. nov.. IJSEM 68: 3197 - 3211 2018 ( DOI 10.1099/ijsem.0.002966 , PubMed 30124399 )

#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;

#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 )

#72100

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-ID1955.1 )

* These data were automatically processed and therefore are not curated

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Ruminiclostridium cellobioparum DSM 1351 = ATCC 15832 ATCC 15832

[Clostridium] cellobioparum DSM 1351 = ATCC 15832

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