Clostridium sardiniense (DSM 2632, ATCC 33455, VPI 2971)

Name: Clostridium sardiniense (DSM 2632, ATCC 33455, VPI 2971)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 2662

Type strain

Culture col. no. DSM 2632 ATCC 33455 VPI 2971

NCBI tax ID(s) 29369

Special Collections DSMZ

History <- ATCC <- VPI, 2971 <- A.R. Prévot

Links

Clostridium sardiniense DSM 2632 is an anaerobe, mesophilic prokaryote of the family Clostridiaceae.

anaerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 40504

ATCC 33455,DSM 2632,BCRC 14530,CCRC 14530

@ref 20215

Last LPSN update 2025-12-16 09:47:22

Domain Bacillati

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
2660	C. sardiniense HA 7103 (KZ), 10015, HA 7103, DSM 599, ATCC ...
2661	C. sardiniense HA 9103 (KZ), DSM 600, ATCC 27635, NCTC 10985

Morphology

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
1178	CHOPPED MEAT MEDIUM (DSMZ Medium 78)		Medium recipe at MediaDive	Name: CHOPPED MEAT MEDIUM (DSMZ Medium 78) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l Ethanol 9.5 g/l (optional) K2HPO4 5.0 g/l Yeast extract 5.0 g/l L-Cysteine HCl 0.5 g/l Haemin 0.005 g/l (optional) Resazurin 0.001 g/l Vitamin K3 0.0005 g/l (optional) Vitamin K1 (optional) NaOH (optional) Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
1178	positive	growth	37	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
1178	anaerobe
125439	anaerobe	99.3

Isolation, sampling and environmental information

Taxonmaps

69479

Global distribution of 16S sequence AB161368 (>99% sequence identity) for Clostridium baratii from Microbeatlas

Aquatic Samples	927
Soil Samples	585
Animal Samples	10123
Plant Samples	218
Total Samples	11853

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
1178	2	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	ASM1690799v1 assembly for Clostridium sardiniense DSM 2632	contig	GCA_016907995	29369.9	2901040167	29369	67.34

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Clostridium sardiniense 16S rRNA gene, strain DSM 2632	X73446	1510	29369
1178	Clostridium sardiniense gene for 16S rRNA, strain:DSM 2632, sub_clone:c1	AB161367	1519	29369
124043	Clostridium sardiniense strain DSM 2632 16S ribosomal RNA gene, partial sequence.	MH036336	266	29369

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Clostridium sardiniense DSM 2632
NCBI: GCA_016907995

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	81.10	no
125439	motility	BacteriaNetⓘ	yes	75.80	no
125439	gram_stain	BacteriaNetⓘ	positive	82.50	no
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	99.30	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Clostridium sardiniense strain DSM 2632
PATRIC: 29369.9

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	69.57	no
125438	anaerobic	anaerobicⓘ	yes	82.92	no
125438	spore-forming	spore-formingⓘ	yes	82.68	no
125438	thermophilic	thermophileⓘ	no	93.36	yes
125438	aerobic	aerobicⓘ	no	92.47	yes
125438	flagellated	motile2+ⓘ	yes	61.85	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Clostridium sardiniense Prévot 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
Enzymology	Comprehensive Laboratory Evaluation of a Specific Lateral Flow Assay for the Presumptive Identification of Francisella tularensis in Suspicious White Powders and Aerosol Samples.	Pillai SP, DePalma L, Prentice KW, Ramage JG, Chapman C, Sarwar J, Parameswaran N, Petersen J, Yockey B, Young J, Singh A, Pillai CA, Manickam G, Thirunavkkarasu N, Avila JR, Sharma S, Morse SA, Venkateswaran K, Anderson K, Hodge DR.	Health Secur	10.1089/hs.2019.0151	2020
Enzymology	Comprehensive Laboratory Evaluation of a Lateral Flow Assay for the Detection of Yersinia pestis.	Prentice KW, DePalma L, Ramage JG, Sarwar J, Parameswaran N, Petersen J, Yockey B, Young J, Joshi M, Thirunavvukarasu N, Singh A, Chapman C, Avila JR, Pillai CA, Manickam G, Sharma SK, Morse SA, Venkateswaran KV, Anderson K, Hodge DR, Pillai SP.	Health Secur	10.1089/hs.2019.0094	2019
Enzymology	Comprehensive Laboratory Evaluation of a Highly Specific Lateral Flow Assay for the Presumptive Identification of Bacillus anthracis Spores in Suspicious White Powders and Environmental Samples.	Ramage JG, Prentice KW, DePalma L, Venkateswaran KS, Chivukula S, Chapman C, Bell M, Datta S, Singh A, Hoffmaster A, Sarwar J, Parameswaran N, Joshi M, Thirunavkkarasu N, Krishnan V, Morse S, Avila JR, Sharma S, Estacio PL, Stanker L, Hodge DR, Pillai SP.	Health Secur	10.1089/hs.2016.0041	2016
Biotechnology	Chicken Manure as a Sustainable Bile Acid Source for Biotechnological Applications.	Holert J, Wilhelm R, Henker J, Reinker CA, Muller FM, Philipp B.	Microb Biotechnol	10.1111/1751-7915.70178	2025
	Size Distribution and Pathogenic Potential of Culturable Airborne Clostridium spp. in a Suburb of Toyama City, Japan.	Seki M, Iwamoto R, Hou J, Fujiyoshi S, Maruyama F, Furusawa Y, Kagaya S, Sakatoku A, Nakamura S, Tanaka D.	Microbes Environ	10.1264/jsme2.me24078	2025
	Effects of Selenium Application on Fermentation Quality, Chemical Composition, and Bacterial Community of Hybrid Pennisetum Silage.	Chen X, Qiu S, Huang L, Yang Y, Huang X, Huang X, Feng D.	Microorganisms	10.3390/microorganisms12112144	2024
Phylogeny	Investigating the gut bacteria structure and function of hibernating bats through 16S rRNA high-throughput sequencing and culturomics.	Zhou J, Liu Y, Gu T, Zhou J, Chen F, Li S.	mSystems	10.1128/msystems.01463-24	2025
	Can we microbe-manage our vitamin acquisition for better health?	Nysten J, Van Dijck P.	PLoS Pathog	10.1371/journal.ppat.1011361	2023
	Comparative analysis of gut microbiota between common (Macaca fascicularis fascicularis) and Burmese (M. f. aurea) long-tailed macaques in different habitats.	Muhammad R, Klomkliew P, Chanchaem P, Sawaswong V, Kaikaew T, Payungporn S, Malaivijitnond S.	Sci Rep	10.1038/s41598-023-42220-z	2023
Genetics	Multi-omics analysis reveals the core microbiome and biomarker for nutrition degradation in alfalfa silage fermentation.	Wang Y, Sun Y, Huang K, Gao Y, Lin Y, Yuan B, Wang X, Xu G, Nussio LG, Yang F, Ni K.	mSystems	10.1128/msystems.00682-24	2024
	Clostridioides difficile infection: microbe-microbe interactions and live biotherapeutics.	Wang R.	Front Microbiol	10.3389/fmicb.2023.1182612	2023
Metabolism	Cloning, expression, and biochemical characterization of a novel NADP⁺-dependent 7alpha-hydroxysteroid dehydrogenase from Clostridium difficile and its application for the oxidation of bile acids.	Bakonyi D, Hummel W.	Enzyme Microb Technol	10.1016/j.enzmictec.2016.12.006	2017
Metabolism	Clostridioides difficile exploits xanthine and uric acid as nutrients by utilizing a selenium-dependent catabolic pathway.	Johnstone MA, Self WT.	Microbiol Spectr	10.1128/spectrum.00844-24	2024
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
Metabolism	Butyrate enhances Clostridioides difficile sporulation in vitro.	Baldassare MA, Bhattacharjee D, Coles JD, Nelson S, McCollum CA, Seekatz AM.	J Bacteriol	10.1128/jb.00138-23	2023
Phylogeny	Studies on Trueperella pyogenes isolated from an okapi (Okapia johnstoni) and a royal python (Python regius).	Ahmed MFE, Alssahen M, Lammler C, Eisenberg T, Plotz M, Abdulmawjood A.	BMC Vet Res	10.1186/s12917-020-02508-y	2020
Enzymology	A green strategy to produce potential substitute resource for bear bile using engineered Saccharomyces cerevisiae.	Jin L, Yang L, Zhao S, Wang Z.	Bioresour Bioprocess	10.1186/s40643-022-00517-3	2022
Genetics	Metagenomic, metabolomic, and lipidomic shifts associated with fecal microbiota transplantation for recurrent Clostridioides difficile infection.	McMillan AS, Zhang G, Dougherty MK, McGill SK, Gulati AS, Baker ES, Theriot CM.	mSphere	10.1128/msphere.00706-24	2024
	Multi-omics analysis of hospital-acquired diarrhoeal patients reveals biomarkers of enterococcal proliferation and Clostridioides difficile infection.	Bosnjak M, Karpe AV, Van TTH, Kotsanas D, Jenkin GA, Costello SP, Johanesen P, Moore RJ, Beale DJ, Srikhanta YN, Palombo EA, Larcombe S, Lyras D.	Nat Commun	10.1038/s41467-023-43671-8	2023
Enzymology	Multidisciplinary evaluation of Clostridium butyricum clonality isolated from preterm neonates with necrotizing enterocolitis in South France between 2009 and 2017.	Hosny M, Bou Khalil JY, Caputo A, Abdallah RA, Levasseur A, Colson P, Cassir N, La Scola B.	Sci Rep	10.1038/s41598-019-38773-7	2019
	A commensal protozoan attenuates Clostridioides difficile pathogenesis in mice via arginine-ornithine metabolism and host intestinal immune response.	Yang H, Wu X, Li X, Zang W, Zhou Z, Zhou Y, Cui W, Kou Y, Wang L, Hu A, Wu L, Yin Z, Chen Q, Chen Y, Huang Z, Wang Y, Gu B.	Nat Commun	10.1038/s41467-024-47075-0	2024
Metabolism	NAD⁺ -Dependent Enzymatic Route for the Epimerization of Hydroxysteroids.	Tonin F, Otten LG, Arends IWCE.	ChemSusChem	10.1002/cssc.201801862	2019
Enzymology	Acid phosphatase test proves superior to standard phenotypic identification procedure for Clostridium perfringens strains isolated from water.	Ryzinska-Paier G, Sommer R, Haider JM, Knetsch S, Frick C, Kirschner AK, Farnleitner AH.	J Microbiol Methods	10.1016/j.mimet.2011.08.006	2011
	Trehalose-Induced Remodelling of the Human Microbiota Affects Clostridioides difficile Infection Outcome in an In Vitro Colonic Model: A Pilot Study.	Buckley AM, Moura IB, Arai N, Spittal W, Clark E, Nishida Y, Harris HC, Bentley K, Davis G, Wang D, Mitra S, Higashiyama T, Wilcox MH.	Front Cell Infect Microbiol	10.3389/fcimb.2021.670935	2021
Genetics	Probing Genomic Aspects of the Multi-Host Pathogen Clostridium perfringens Reveals Significant Pangenome Diversity, and a Diverse Array of Virulence Factors.	Kiu R, Caim S, Alexander S, Pachori P, Hall LJ.	Front Microbiol	10.3389/fmicb.2017.02485	2017
	Gut metabolites predict Clostridioides difficile recurrence.	Dawkins JJ, Allegretti JR, Gibson TE, McClure E, Delaney M, Bry L, Gerber GK.	Microbiome	10.1186/s40168-022-01284-1	2022
Pathogenicity	Predictive regulatory and metabolic network models for systems analysis of Clostridioides difficile.	Arrieta-Ortiz ML, Immanuel SRC, Turkarslan S, Wu WJ, Girinathan BP, Worley JN, DiBenedetto N, Soutourina O, Peltier J, Dupuy B, Bry L, Baliga NS.	Cell Host Microbe	10.1016/j.chom.2021.09.008	2021
	Negative interactions determine Clostridioides difficile growth in synthetic human gut communities.	Hromada S, Qian Y, Jacobson TB, Clark RL, Watson L, Safdar N, Amador-Noguez D, Venturelli OS.	Mol Syst Biol	10.15252/msb.202110355	2021
Phylogeny	Pyrosequencing of 16S rRNA genes in fecal samples reveals high diversity of hindgut microflora in horses and potential links to chronic laminitis.	Steelman SM, Chowdhary BP, Dowd S, Suchodolski J, Janecka JE.	BMC Vet Res	10.1186/1746-6148-8-231	2012
Phylogeny	A collection of bacterial isolates from the pig intestine reveals functional and taxonomic diversity.	Wylensek D, Hitch TCA, Riedel T, Afrizal A, Kumar N, Wortmann E, Liu T, Devendran S, Lesker TR, Hernandez SB, Heine V, Buhl EM, M D'Agostino P, Cumbo F, Fischoder T, Wyschkon M, Looft T, Parreira VR, Abt B, Doden HL, Ly L, Alves JMP, Reichlin M, Flisikowski K, Suarez LN, Neumann AP, Suen G, de Wouters T, Rohn S, Lagkouvardos I, Allen-Vercoe E, Sproer C, Bunk B, Taverne-Thiele AJ, Giesbers M, Wells JM, Neuhaus K, Schnieke A, Cava F, Segata N, Elling L, Strowig T, Ridlon JM, Gulder TAM, Overmann J, Clavel T.	Nat Commun	10.1038/s41467-020-19929-w	2020
	Clostridium chrysemydis sp. nov., isolated from the faecal material of a painted turtle.	Hunter KC, Lawson PA, Dowd SE, McLaughlin RW.	Int J Syst Evol Microbiol	10.1099/ijsem.0.005023	2021

References

#1178	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 2632
#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) .
#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 .
#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 )

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Clostridium sardiniense (DSM 2632, ATCC 33455, VPI 2971)

Name and taxonomic classification

Morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Isolation, sampling and environmental information

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_016907995

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

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