Clostridium aciditolerans (DSM 17425, ATCC BAA-1220, JW/4JL B3)

Name: Clostridium aciditolerans (DSM 17425, ATCC BAA-1220, JW/4JL B3)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 2833

Type strain

Strain Designation JW/4JL B3

Culture col. no. DSM 17425 ATCC BAA-1220 JW/4JL B3

NCBI tax ID(s) 339861

Special Collections DSMZ Literature strains

History DSMZ <- J. Wiegel and Y.-J. Lee, Univ. of Georgia, Athens, USA; JW/4JL B3

Links

Clostridium aciditolerans JW/4JL B3 is an anaerobe, spore-forming, Gram-positive bacterium that was isolated from sediment sample.

spore-forming Gram-positive motile rod-shaped anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 297144

ATCC BAA-1220,DSM 17425

@ref 20215

Last LPSN update 2026-05-29 08:25:33

Domain Bacteria

Phylum Bacillota

Class Clostridia

Order Eubacteriales

Family Clostridiaceae

Genus Clostridium

Species Clostridium aciditolerans

Full scientific name Clostridium aciditolerans Lee et al. 2007

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility
31879	positive	6 µm	0.75 µm	rod-shaped

Pigmentation

31879

Productionno

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
6960	PY + X MEDIUM (DSMZ Medium 104b)		Medium recipe at MediaDive	Name: PY + X MEDIUM (DSMZ Medium 104b) Composition: Yeast extract 10.0 g/l D-Glucose 5.0 g/l Trypticase peptone 5.0 g/l Meat peptone 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l KH2PO4 0.04 g/l K2HPO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Sodium resazurin 0.0005 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
6960	positive	growth	37
31879	positive	growth	20-45
31879	positive	optimum	35

Culture pH

@ref	Ability	Type	PH	PH range
31879	positive	optimum	7.25
31879	positive	growth	3.8-8.9	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
6960	anaerobe
31879	anaerobe
125439	facultative anaerobe	95.417

Spore formation

31879

Spore formationyes

Halophily

@ref	Salt	Growth	Tested relation	Concentration
31879	NaCl	positive	growth	0-1.5 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
31879	17057 ChEBI	cellobiose	+	carbon source
31879	28757 ChEBI	fructose	+	carbon source
31879	28260 ChEBI	galactose	+	carbon source
31879	5291 ChEBI	gelatin	+	carbon source
31879	17234 ChEBI	glucose	+	carbon source
31879	29987 ChEBI	glutamate	+	carbon source
31879	17716 ChEBI	lactose	+	carbon source
31879	17306 ChEBI	maltose	+	carbon source
31879	37684 ChEBI	mannose	+	carbon source
31879	15361 ChEBI	pyruvate	+	carbon source
31879	16634 ChEBI	raffinose	+	carbon source
31879	33942 ChEBI	ribose	+	carbon source
31879	17992 ChEBI	sucrose	+	carbon source
31879	18222 ChEBI	xylose	+	carbon source

Enzymes

@ref	Value	Activity	Ec
31879	acid phosphatase	+	3.1.3.2
31879	alkaline phosphatase	+	3.1.3.1
31879	gelatinase	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Sediment
#Environmental	#Aquatic	#Sediment

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
6960	sediment sample	Aiken	USA	USA	North America

Taxonmaps

69479

Global distribution of 16S sequence DQ114945 (>99% sequence identity) for Clostridium from Microbeatlas

Aquatic Samples	317
Soil Samples	1133
Animal Samples	289
Plant Samples	117
Total Samples	1856

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
6960	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	ASM1631692v1 assembly for Clostridium aciditolerans DSM 17425	scaffold	GCA_016316925	339861.3	2997094410	339861	46.67

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
6960	Clostridium aciditolerans strain JW/YJL-B3 16S ribosomal RNA gene, partial sequence	DQ114945	1391		339861

GC content

31879

GC-content (mol%)30.8

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM1631692v1 assembly for Clostridium aciditolerans DSM 17425
NCBI: GCA_016316925

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	95.42	no
125439	gram_stain	BacteriaNetⓘ	variable	50.43	no
125439	motility	BacteriaNetⓘ	yes	72.24	no
125439	spore_formation	BacteriaNetⓘ	yes	70.48	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Clostridium aciditolerans DSM 17425
NCBI: GCA_016316925.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	65.13	yes
125438	anaerobic	anaerobicⓘ	yes	86.25	yes
125438	aerobic	aerobicⓘ	no	93.78	yes
125438	spore-forming	spore-formingⓘ	yes	85.97	yes
125438	thermophilic	thermophileⓘ	no	90.40	no
125438	flagellated	motile2+ⓘ	yes	72.05	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Clostridium thailandense sp. nov., a novel CO2-reducing acetogenic bacterium isolated from peatland soil.	Chaikitkaew S, In-Chan S, Singkhala A, Tukanghan W, Mamimin C, Reungsang A, Birkeland NK, O-Thong S	Int J Syst Evol Microbiol	10.1099/ijsem.0.005254	2022
Phylogeny	Clostridium aciditolerans sp. nov., an acid-tolerant spore-forming anaerobic bacterium from constructed wetland sediment.	Lee YJ, Romanek CS, Wiegel J	Int J Syst Evol Microbiol	10.1099/ijs.0.64583-0	2007

References

#6960	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17425
#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 )
#28139	IJSEM 311 2007 ( DOI 10.1099/ijs.0.64583-0 , PubMed 17267970 )
#31879	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 #28139
#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 .
#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 aciditolerans (DSM 17425, ATCC BAA-1220, JW/4JL B3)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_016316925

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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