Clostridium sardiniense (DSM 599, ATCC 27555, NCTC 10984)

Name: Clostridium sardiniense (DSM 599, ATCC 27555, NCTC 10984)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 2660

Type strain

Strain Designation HA 7103 (KZ), 10015, HA 7103

Culture col. no. DSM 599 ATCC 27555 NCTC 10984 HA 7103 (KZ) CIP 104302 5 more

NCBI tax ID(s) 29369

Special Collections DSMZ JCM CIP

History <- S. Nakamura, HA 7103 (KZ) <- M. Hayase ATCC 27555 <-- S. Nakamura HA-7103. CIP <- 1994, J.P. Carlier, Inst. Pasteur, Paris, France, Clostridium absonum: strain 10015 <- ATCC <- S. Nakamura: strain HA 7103 <- M. Hayase

Links

Clostridium sardiniense HA 7103 is an anaerobe bacterium that was isolated from soil.

anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 39061

ATCC 27555,ATCC 33571,CIP 104302,DSM 599,NCTC 10984,JCM 1381,CCRC 14510,BCRC 14510,NRRL B-41069,CNCTC 5359

@ref 20215

Last LPSN update 2026-02-09 11:18:20

Domain Bacteria

Phylum Bacillota

Class Clostridia

Order Eubacteriales

Family Clostridiaceae

Genus Clostridium

Species Clostridium sardiniense

Full scientific name Clostridium sardiniense corrig. Prévot 1938 (Approved Lists 1980)

Synonyms (2)

Clostridium sardiniensis
Clostridium absonum

BacDive ID	Other strains from **Clostridium sardiniense** (2)	Type strain
2662	C. sardiniense DSM 2632, ATCC 33455, VPI 2971 (type strain)
2661	C. sardiniense HA 9103 (KZ), DSM 600, ATCC 27635, NCTC 10985

Morphology

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
311	CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110)	Medium recipe at MediaDive	Name: CHOPPED MEAT MEDIUM WITH CARBOHYDRATES (DSMZ Medium 110) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l K2HPO4 5.0 g/l Yeast extract 5.0 g/l D-Glucose 4.0 g/l Starch 1.0 g/l Maltose 1.0 g/l Cellobiose 1.0 g/l L-Cysteine HCl 0.5 g/l Ethanol 0.19 g/l Vitamin K3 0.05 g/l Hemin 0.005 g/l Sodium resazurin 0.0005 g/l Vitamin K1 NaOH Distilled water
311	LIVER BROTH (Oxoid CM 77) (DSMZ Medium 77)	Medium recipe at MediaDive	Name: LIVER BROTH (Oxoid CM 77) (DSMZ Medium 77) Composition: LIVER BROTH
35162	MEDIUM 20 - for Anaerobic bacteria		Agar (15.000 g);Glucose (5.000 g);Yeast extract (20.000 g);Tryptone (30.000 g);Cysteine hydrochloride (0.500 g);distilled water (1000.000 ml);Hemin solution -M00149 (25.000 ml)
122489	CIP Medium 20	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
311	positive	growth	37
35162	positive	growth	37
67770	positive	growth	37

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
311	anaerobe
125439	anaerobe	99

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68371	27613 ChEBI	amygdalin	-	builds acid from	from API 50CH acid
68371	18305 ChEBI	arbutin	-	builds acid from	from API 50CH acid
68371	17057 ChEBI	cellobiose	-	builds acid from	from API 50CH acid
68371	17108 ChEBI	D-arabinose	-	builds acid from	from API 50CH acid
68371	18333 ChEBI	D-arabitol	-	builds acid from	from API 50CH acid
68371	15824 ChEBI	D-fructose	-	builds acid from	from API 50CH acid
68371	28847 ChEBI	D-fucose	-	builds acid from	from API 50CH acid
68371	12936 ChEBI	D-galactose	-	builds acid from	from API 50CH acid
68371	17634 ChEBI	D-glucose	-	builds acid from	from API 50CH acid
68371	62318 ChEBI	D-lyxose	-	builds acid from	from API 50CH acid
68371	16899 ChEBI	D-mannitol	-	builds acid from	from API 50CH acid
68371	16024 ChEBI	D-mannose	-	builds acid from	from API 50CH acid
68371	16988 ChEBI	D-ribose	-	builds acid from	from API 50CH acid
68371	17924 ChEBI	D-sorbitol	-	builds acid from	from API 50CH acid
68371	16443 ChEBI	D-tagatose	-	builds acid from	from API 50CH acid
68371	65327 ChEBI	D-xylose	-	builds acid from	from API 50CH acid
68371	17113 ChEBI	erythritol	-	builds acid from	from API 50CH acid
68371	4853 ChEBI	esculin	-	builds acid from	from API 50CH acid
68371	16813 ChEBI	galactitol	-	builds acid from	from API 50CH acid
68371	28066 ChEBI	gentiobiose	-	builds acid from	from API 50CH acid
68371	24265 ChEBI	gluconate	-	builds acid from	from API 50CH acid
68371	17754 ChEBI	glycerol	-	builds acid from	from API 50CH acid
68371	28087 ChEBI	glycogen	-	builds acid from	from API 50CH acid
68371	15443 ChEBI	inulin	-	builds acid from	from API 50CH acid
68371	30849 ChEBI	L-arabinose	-	builds acid from	from API 50CH acid
68371	18403 ChEBI	L-arabitol	-	builds acid from	from API 50CH acid
68371	18287 ChEBI	L-fucose	-	builds acid from	from API 50CH acid
68371	62345 ChEBI	L-rhamnose	-	builds acid from	from API 50CH acid
68371	17266 ChEBI	L-sorbose	-	builds acid from	from API 50CH acid
68371	65328 ChEBI	L-xylose	-	builds acid from	from API 50CH acid
68371	17716 ChEBI	lactose	-	builds acid from	from API 50CH acid
68371	17306 ChEBI	maltose	-	builds acid from	from API 50CH acid
68371	6731 ChEBI	melezitose	-	builds acid from	from API 50CH acid
68371	28053 ChEBI	melibiose	-	builds acid from	from API 50CH acid
68371	320061 ChEBI	methyl alpha-D-glucopyranoside	-	builds acid from	from API 50CH acid
68371	43943 ChEBI	methyl alpha-D-mannoside	-	builds acid from	from API 50CH acid
68371	74863 ChEBI	methyl beta-D-xylopyranoside	-	builds acid from	from API 50CH acid
68371	17268 ChEBI	myo-inositol	-	builds acid from	from API 50CH acid
68371	59640 ChEBI	N-acetylglucosamine	-	builds acid from	from API 50CH acid
68371		Potassium 2-ketogluconate	-	builds acid from	from API 50CH acid
68371		Potassium 5-ketogluconate	-	builds acid from	from API 50CH acid
68371	16634 ChEBI	raffinose	-	builds acid from	from API 50CH acid
68371	15963 ChEBI	ribitol	-	builds acid from	from API 50CH acid
68371	17814 ChEBI	salicin	-	builds acid from	from API 50CH acid
68371	28017 ChEBI	starch	-	builds acid from	from API 50CH acid
68371	17992 ChEBI	sucrose	-	builds acid from	from API 50CH acid
68371	27082 ChEBI	trehalose	-	builds acid from	from API 50CH acid
68371	32528 ChEBI	turanose	-	builds acid from	from API 50CH acid
68371	17151 ChEBI	xylitol	-	builds acid from	from API 50CH acid

API 50CHac

@ref	ControlQ	GLY	ERY	DARA	LARA	RIB	DXYL	LXYL	ADO	MDX	GAL	GLU	FRU	MNE	SBE	RHA	DUL	INO	MAN	SOR	MDM	MDG	NAG	AMY	ARB	ESC	SAL	CEL	MAL	LAC	MEL	SAC	TRE	INU	MLZ	RAF	AMD	GLYG	XLT	GEN	TUR	LYX	TAG	DFUC	LFUC	DARL	LARL	GNT	2KG	5KG
122489	not determinedn.d.	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type
311	soil
67770	Soil
122489	Environment, Soil

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
311	2	Risk group (German classification) According to TRBA 466
122489	2	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
124043	ASM3081502v1 assembly for Clostridium sardiniense DSM 599	contig	GCA_030815025	29369.15	2928349458	29369	67.45
66792	ASM1975379v1 assembly for Clostridium sardiniense DSM 599	contig	GCA_019753795	29369.10	8053544956	29369	62.28

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	Clostridium absonum 16S rRNA gene, strain DSM 599	X77842	1419		29369
67770	Clostridium sardiniense gene for 16S ribosomal RNA, partial sequence, strain: JCM 1381	LC036312	1476		29369

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Clostridium sardiniense DSM 599
NCBI: GCA_019753795

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	85.40	no
125439	motility	BacteriaNetⓘ	yes	82.30	no
125439	gram_stain	BacteriaNetⓘ	positive	85.40	no
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	99.00	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Clostridium sardiniense strain DSM 599
PATRIC: 29369.10

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	69.32	no
125438	anaerobic	anaerobicⓘ	yes	83.42	yes
125438	spore-forming	spore-formingⓘ	yes	79.89	no
125438	aerobic	aerobicⓘ	no	92.97	no
125438	thermophilic	thermophileⓘ	no	92.95	no
125438	flagellated	motile2+ⓘ	yes	60.35	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Metabolism	In vivo commensal control of Clostridioides difficile virulence.	Girinathan BP, DiBenedetto N, Worley JN, Peltier J, Arrieta-Ortiz ML, Immanuel SRC, Lavin R, Delaney ML, Cummins CK, Hoffman M, Luo Y, Gonzalez-Escalona N, Allard M, Onderdonk AB, Gerber GK, Sonenshein AL, Baliga NS, Dupuy B, Bry L.	Cell Host Microbe	10.1016/j.chom.2021.09.007	2021
	Biological synthesis of ursodeoxycholic acid.	Song P, Zhang X, Feng W, Xu W, Wu C, Xie S, Yu S, Fu R.	Front Microbiol	10.3389/fmicb.2023.1140662	2023
Metabolism	Increasing ursodeoxycholic acid in the enterohepatic circulation of pigs through the administration of living bacteria.	Lepercq P, Hermier D, David O, Michelin R, Gibard C, Beguet F, Relano P, Cayuela C, Juste C	Br J Nutr	10.1079/bjn20041386	2005
Phylogeny	Clostridium sardiniense Prevot 1938 and Clostridium absonum Nakamura et al. 1973 are heterotypic synonyms: evidence from phylogenetic analyses of phospholipase C and 16S rRNA sequences, and DNA relatedness.	Wang X, Maegawa T, Karasawa T, Ozaki E, Nakamura S	Int J Syst Evol Microbiol	10.1099/ijs.0.63271-0	2005
Metabolism	Metabolic changes in Clostridium absonum ATCC 27555 accompanying induction of epimerization of a primary bile acid.	Warchol M, Car L, Grill JP, Schneider F	Curr Microbiol	10.1007/s00284-003-3998-4	2003

References

#311	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 599
#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 )
#35162	; Curators of the CIP;
#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;
#68371	Automatically annotated from API 50CH acid .
#122489	Collection of Institut Pasteur ; Curators of the CIP; CIP 104302
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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 )

Rate our new design

Content

About us

Clostridium sardiniense (DSM 599, ATCC 27555, NCTC 10984)

Name and taxonomic classification

Morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Metabolite utilization

API 50CHac

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_030815025

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

Help

Social Media