Name: Clostridium cavendishii BL-28
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 2855

Type strain:

Species: Clostridium cavendishii

Strain Designation: BL-28

Culture col. no.: DSM 21758, KCTC 15122, NRRL B-51352

Strain history: <- DSM <- WM Moe, Louisiana State Univ, BL-28

NCBI tax ID(s): 1121302 (strain), 349931 (species)

SI-ID 398882

DSM 21758

Section

Clostridium cavendishii BL-28 is an anaerobe, spore-forming, mesophilic bacterium that was isolated from contaminated groundwater.

Gram-positive
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	*Clostridiaceae*
	Genus	*Clostridium*
	Species	**Clostridium cavendishii**
	Full Scientific Name (LPSN)	Clostridium cavendishii Bowman et al. 2010

Information on morphological and physiological properties Morphology

[Ref.: #29438]	Gram stain	positive
[Ref.: #67771]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #29438]	Cell length	6.1 µm

[Ref.: #29438]	Cell width	0.7 µm

[Ref.: #29438]	Cell shape	rod-shaped
[Ref.: #67771]	Cell shape	rod-shaped

[Ref.: #69480]	Motility	yes Confidence in %96.127

[Ref.: #29438]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #15921]

Culture medium

PY + X MEDIUM (DSMZ Medium 104b)

[Ref.: #15921]

Culture medium growth

[Ref.: #15921]

Culture medium link

Medium recipe at MediaDive

[Ref.: #15921]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #15921]	growth	35 °C
[Ref.: #29438]	growth	15-46 °C
[Ref.: #29438]	optimum	41.5 °C
[Ref.: #67771]	growth	35 °C

[Ref.: #15921]	Temperature range	mesophilic
[Ref.: #29438]	Temperature range	thermophilic
[Ref.: #67771]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #29438]			optimum	7.45
[Ref.: #29438]			growth	6-8.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #15921]	Oxygen tolerance	anaerobe
[Ref.: #29438]	Oxygen tolerance	facultative anaerobe
[Ref.: #67771]	Oxygen tolerance	anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %99.998

[Ref.: #67771]	Type of spore	spore
[Ref.: #67771]	Ability of spore formation	yes
[Ref.: #29438]	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

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #29438]		NaCl		growth	<3	%

	Metabolite utilization	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29438]		esculin ChEBI	+	hydrolysis

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	cellulose degradation	100	5 of 5
[Ref.: #66794]	teichoic acid biosynthesis	100	1 of 1
[Ref.: #66794]	gluconeogenesis	100	8 of 8
[Ref.: #66794]	C4 and CAM-carbon fixation	100	8 of 8
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	cardiolipin biosynthesis	100	7 of 7
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	chorismate metabolism	100	9 of 9
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	L-lactaldehyde degradation	100	3 of 3
[Ref.: #66794]	vitamin B1 metabolism	92.31	12 of 13
[Ref.: #66794]	threonine metabolism	90	9 of 10
[Ref.: #66794]	NAD metabolism	88.89	16 of 18
[Ref.: #66794]	aspartate and asparagine metabolism	88.89	8 of 9
[Ref.: #66794]	serine metabolism	88.89	8 of 9
[Ref.: #66794]	d-mannose degradation	88.89	8 of 9
[Ref.: #66794]	reductive acetyl coenzyme A pathway	85.71	6 of 7
[Ref.: #66794]	pyrimidine metabolism	84.44	38 of 45
[Ref.: #66794]	alanine metabolism	82.76	24 of 29
[Ref.: #66794]	purine metabolism	80.85	76 of 94
[Ref.: #66794]	starch degradation	80	8 of 10
[Ref.: #66794]	flavin biosynthesis	80	12 of 15
[Ref.: #66794]	hydrogen production	80	4 of 5
[Ref.: #66794]	Entner Doudoroff pathway	80	8 of 10
[Ref.: #66794]	glycogen metabolism	80	4 of 5
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	glycine betaine biosynthesis	80	4 of 5
[Ref.: #66794]	metabolism of amino sugars and derivatives	80	4 of 5
[Ref.: #66794]	photosynthesis	78.57	11 of 14
[Ref.: #66794]	CO2 fixation in Crenarchaeota	77.78	7 of 9
[Ref.: #66794]	valine metabolism	77.78	7 of 9
[Ref.: #66794]	phenylalanine metabolism	76.92	10 of 13
[Ref.: #66794]	glycolysis	76.47	13 of 17
[Ref.: #66794]	ppGpp biosynthesis	75	3 of 4
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	butanoate fermentation	75	3 of 4
[Ref.: #66794]	sulfopterin metabolism	75	3 of 4
[Ref.: #66794]	CMP-KDO biosynthesis	75	3 of 4
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	glutamate and glutamine metabolism	71.43	20 of 28
[Ref.: #66794]	propanol degradation	71.43	5 of 7
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	69.23	9 of 13
[Ref.: #66794]	urea cycle	69.23	9 of 13
[Ref.: #66794]	non-pathway related	68.42	26 of 38
[Ref.: #66794]	formaldehyde oxidation	66.67	2 of 3
[Ref.: #66794]	cyanate degradation	66.67	2 of 3
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	tetrahydrofolate metabolism	64.29	9 of 14
[Ref.: #66794]	pentose phosphate pathway	63.64	7 of 11
[Ref.: #66794]	isoleucine metabolism	62.5	5 of 8
[Ref.: #66794]	histidine metabolism	62.07	18 of 29
[Ref.: #66794]	methionine metabolism	61.54	16 of 26
[Ref.: #66794]	oxidative phosphorylation	60.44	55 of 91
[Ref.: #66794]	methylglyoxal degradation	60	3 of 5
[Ref.: #66794]	myo-inositol biosynthesis	60	6 of 10
[Ref.: #66794]	factor 420 biosynthesis	60	3 of 5
[Ref.: #66794]	arginine metabolism	58.33	14 of 24
[Ref.: #66794]	citric acid cycle	57.14	8 of 14
[Ref.: #66794]	aclacinomycin biosynthesis	57.14	4 of 7
[Ref.: #66794]	ubiquinone biosynthesis	57.14	4 of 7
[Ref.: #66794]	degradation of sugar alcohols	56.25	9 of 16
[Ref.: #66794]	lipid metabolism	54.84	17 of 31
[Ref.: #66794]	d-xylose degradation	54.55	6 of 11
[Ref.: #66794]	leucine metabolism	53.85	7 of 13
[Ref.: #66794]	tryptophan metabolism	52.63	20 of 38
[Ref.: #66794]	glycine metabolism	50	5 of 10
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	biotin biosynthesis	50	2 of 4
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	lysine metabolism	50	21 of 42
[Ref.: #66794]	alginate biosynthesis	50	2 of 4
[Ref.: #66794]	dTDPLrhamnose biosynthesis	50	4 of 8
[Ref.: #66794]	aminopropanol phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	glycolate and glyoxylate degradation	50	3 of 6
[Ref.: #66794]	resorcinol degradation	50	1 of 2
[Ref.: #66794]	selenocysteine biosynthesis	50	3 of 6
[Ref.: #66794]	4-hydroxyphenylacetate degradation	50	5 of 10
[Ref.: #66794]	phenylmercury acetate degradation	50	1 of 2
[Ref.: #66794]	ribulose monophosphate pathway	50	1 of 2
[Ref.: #66794]	tyrosine metabolism	50	7 of 14
[Ref.: #66794]	toluene degradation	50	2 of 4
[Ref.: #66794]	cysteine metabolism	50	9 of 18
[Ref.: #66794]	isoprenoid biosynthesis	46.15	12 of 26
[Ref.: #66794]	metabolism of disaccharids	45.45	5 of 11
[Ref.: #66794]	proline metabolism	45.45	5 of 11
[Ref.: #66794]	arachidonic acid metabolism	44.44	8 of 18
[Ref.: #66794]	degradation of pentoses	42.86	12 of 28
[Ref.: #66794]	glutathione metabolism	42.86	6 of 14
[Ref.: #66794]	heme metabolism	42.86	6 of 14
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
[Ref.: #66794]	vitamin B12 metabolism	41.18	14 of 34
[Ref.: #66794]	creatinine degradation	40	2 of 5
[Ref.: #66794]	propionate fermentation	40	4 of 10
[Ref.: #66794]	phenol degradation	40	8 of 20
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	O-antigen biosynthesis	40	2 of 5
[Ref.: #66794]	bacilysin biosynthesis	40	2 of 5
[Ref.: #66794]	phenylpropanoid biosynthesis	38.46	5 of 13
[Ref.: #66794]	ketogluconate metabolism	37.5	3 of 8
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	36.36	4 of 11
[Ref.: #66794]	cholesterol biosynthesis	36.36	4 of 11
[Ref.: #66794]	ascorbate metabolism	36.36	8 of 22
[Ref.: #66794]	vitamin B6 metabolism	36.36	4 of 11
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	degradation of hexoses	33.33	6 of 18
[Ref.: #66794]	molybdenum cofactor biosynthesis	33.33	3 of 9
[Ref.: #66794]	nitrate assimilation	33.33	3 of 9
[Ref.: #66794]	pantothenate biosynthesis	33.33	2 of 6
[Ref.: #66794]	lipid A biosynthesis	33.33	3 of 9
[Ref.: #66794]	enterobactin biosynthesis	33.33	1 of 3
[Ref.: #66794]	1,4-dihydroxy-6-naphthoate biosynthesis	33.33	2 of 6
[Ref.: #66794]	androgen and estrogen metabolism	31.25	5 of 16
[Ref.: #66794]	sulfate reduction	30.77	4 of 13
[Ref.: #66794]	polyamine pathway	30.43	7 of 23
[Ref.: #66794]	coenzyme M biosynthesis	30	3 of 10
[Ref.: #66794]	benzoyl-CoA degradation	28.57	2 of 7
[Ref.: #66794]	3-phenylpropionate degradation	26.67	4 of 15
[Ref.: #66794]	methanogenesis from CO2	25	3 of 12
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	catecholamine biosynthesis	25	1 of 4
[Ref.: #66794]	degradation of sugar acids	24	6 of 25
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Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #15921]	Sample type/isolated from	contaminated groundwater
[Ref.: #15921]	Geographic location (country and/or sea, region)	10 miles north of Baton Rouge
[Ref.: #15921]	Country	USA
[Ref.: #15921]	Country ISO 3 Code	USA
[Ref.: #15921]	Continent	North America

[Ref.: #67771]	Sample type/isolated from	From contaminated groundwater
[Ref.: #67771]	Geographic location (country and/or sea, region)	10 miles north of Baton Rouge
[Ref.: #67771]	Country	USA
[Ref.: #67771]	Country ISO 3 Code	USA
[Ref.: #67771]	Continent	North America
* marker position based on {}

Isolation sources categories

#Engineered	#Contamination	-
#Environmental	#Aquatic	#Groundwater

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence DQ196621 (>99% sequence identity) for Clostridium cavendishii subclade from Microbeatlas

Aquatic Samples	1743
Soil Samples	1089
Animal Samples	14027
Plant Samples	224
Total Samples	17083

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

[Ref.: #15921]

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.: #15921]	Clostridium cavendishii strain BL-28 16S ribosomal RNA gene, partial sequence	DQ196621	1454	ENA	1121302 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Clostridium cavendishii DSM 21758	GCA_900141845	scaffold	GenBank	1121302 tax ID	*
[Ref.: #66792]	Clostridium cavendishii DSM 21758	1121302.3	wgs	PATRIC	1121302 tax ID	*
[Ref.: #66792]	Clostridium cavendishii DSM 21758	2585428089	draft	JGI IMG/M	1121302 tax ID	*

[Ref.: #15921]	GC-content	28.5 mol%	high performance liquid chromatography (HPLC)
[Ref.: #29438]	GC-content	28.5 mol%

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: Clostridium cavendishii DSM 21758 DSM 21758 NCBI: GCA_900141845.1
[Ref.: #69481]	spore-forming	yes	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Clostridium cavendishii DSM 21758 DSM 21758 NCBI: GCA_900141845.1
[Ref.: #69480]	motile	yes	86.99	no
[Ref.: #69480]	flagellated	yes	63.805	no
[Ref.: #69480]	gram-positive	yes	82.59	yes
[Ref.: #69480]	anaerobic	yes	94.533	no
[Ref.: #69480]	aerobic	no	97.949	yes
[Ref.: #69480]	halophile	no	93.099	no
[Ref.: #69480]	spore-forming	yes	96.618	yes
[Ref.: #69480]	thermophile	no	96.258	no
[Ref.: #69480]	glucose-util	yes	92.019	no
[Ref.: #69480]	glucose-ferment	yes	58.223	no

Availability in culture collections External links

[Ref.: #15921]

Culture collection no.

DSM 21758, KCTC 15122, NRRL B-51352

[Ref.: #72379]

SI-ID 398882

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Clostridium hydrogeniformans sp. nov. and Clostridium cavendishii sp. nov., hydrogen-producing bacteria from chlorinated solvent-contaminated groundwater.	Bowman KS, Dupre RE, Rainey FA, Moe WM	Int J Syst Evol Microbiol	10.1099/ijs.0.013169-0	2009	*

References

#15921

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 21758

#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 )

#29438

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 #25844 (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) .

#66794

Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )

#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#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 )

#72379

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-ID398882.1 )

#25844

IJSEM 358 2010 ( DOI 10.1099/ijs.0.013169-0 , PubMed 19651721 )

* These data were automatically processed and therefore are not curated

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Clostridium cavendishii DSM 21758 DSM 21758

Clostridium cavendishii DSM 21758 DSM 21758

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