Name: Clostridium sulfidigenes SGB2
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 2852

Type strain:

Species: Clostridium sulfidigenes

Strain Designation: SGB2

Culture col. no.: DSM 18982, ATCC BAA–1538

Strain history: <- A. Sallam; SGB2

NCBI tax ID(s): 318464 (species)

SI-ID 396528

DSM 18982

Section

Clostridium sulfidigenes SGB2 is an anaerobe, spore-forming, mesophilic bacterium that was isolated from pond sediment.

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

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 sulfidigenes**
	Full Scientific Name (LPSN)	Clostridium sulfidigenes Sallam and Steinbüchel 2009

Information on morphological and physiological properties Morphology

[Ref.: #29052]	Gram stain	positive

[Ref.: #29052]	Cell shape	rod-shaped

[Ref.: #29052]	Motility	yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7813]

Culture medium

PY + X MEDIUM (DSMZ Medium 104b)

[Ref.: #7813]

Culture medium growth

[Ref.: #7813]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7813]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #7813]	growth	35 °C
[Ref.: #29052]	growth	18-48 °C
[Ref.: #29052]	optimum	34 °C

[Ref.: #7813]	Temperature range	mesophilic
[Ref.: #29052]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #29052]			optimum	6.6
[Ref.: #29052]			growth	5.5-9.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #7813]	Oxygen tolerance	anaerobe
[Ref.: #29052]	Oxygen tolerance	anaerobe

[Ref.: #29052]

Ability of spore formation

yes

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29052]	alanine ChEBI	+	carbon source
[Ref.: #29052]	arginine ChEBI	+	carbon source
[Ref.: #29052]	gelatin ChEBI	+	carbon source
[Ref.: #29052]	leucine ChEBI	+	carbon source
[Ref.: #29052]	ornithine ChEBI	+	carbon source
[Ref.: #29052]	phenylalanine ChEBI	+	carbon source
[Ref.: #29052]	proline ChEBI	+	carbon source
[Ref.: #29052]	pyruvate ChEBI	+	carbon source
[Ref.: #29052]	serine ChEBI	+	carbon source
[Ref.: #29052]	threonine ChEBI	+	carbon source

	Metabolite production	Metabolite	Production
[Ref.: #29052]		hydrogen sulfide ChEBI	yes

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	L-lactaldehyde degradation	100	3 of 3
[Ref.: #66794]	biotin biosynthesis	100	4 of 4
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	cyanate degradation	100	3 of 3
[Ref.: #66794]	C4 and CAM-carbon fixation	100	8 of 8
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	aspartate and asparagine metabolism	100	9 of 9
[Ref.: #66794]	teichoic acid biosynthesis	100	1 of 1
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	vitamin B1 metabolism	92.31	12 of 13
[Ref.: #66794]	gluconeogenesis	87.5	7 of 8
[Ref.: #66794]	purine metabolism	80.85	76 of 94
[Ref.: #66794]	lipoate biosynthesis	80	4 of 5
[Ref.: #66794]	threonine metabolism	80	8 of 10
[Ref.: #66794]	glycine betaine biosynthesis	80	4 of 5
[Ref.: #66794]	hydrogen production	80	4 of 5
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	vitamin B12 metabolism	79.41	27 of 34
[Ref.: #66794]	photosynthesis	78.57	11 of 14
[Ref.: #66794]	chorismate metabolism	77.78	7 of 9
[Ref.: #66794]	molybdenum cofactor biosynthesis	77.78	7 of 9
[Ref.: #66794]	d-mannose degradation	77.78	7 of 9
[Ref.: #66794]	NAD metabolism	77.78	14 of 18
[Ref.: #66794]	urea cycle	76.92	10 of 13
[Ref.: #66794]	glycolysis	76.47	13 of 17
[Ref.: #66794]	alanine metabolism	75.86	22 of 29
[Ref.: #66794]	pyrimidine metabolism	75.56	34 of 45
[Ref.: #66794]	glutamate and glutamine metabolism	75	21 of 28
[Ref.: #66794]	vitamin E metabolism	75	3 of 4
[Ref.: #66794]	ketogluconate metabolism	75	6 of 8
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	butanoate fermentation	75	3 of 4
[Ref.: #66794]	propanol degradation	71.43	5 of 7
[Ref.: #66794]	heme metabolism	71.43	10 of 14
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	reductive acetyl coenzyme A pathway	71.43	5 of 7
[Ref.: #66794]	phenylalanine metabolism	69.23	9 of 13
[Ref.: #66794]	selenocysteine biosynthesis	66.67	4 of 6
[Ref.: #66794]	serine metabolism	66.67	6 of 9
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	flavin biosynthesis	66.67	10 of 15
[Ref.: #66794]	glycolate and glyoxylate degradation	66.67	4 of 6
[Ref.: #66794]	formaldehyde oxidation	66.67	2 of 3
[Ref.: #66794]	methionine metabolism	65.38	17 of 26
[Ref.: #66794]	degradation of sugar alcohols	62.5	10 of 16
[Ref.: #66794]	cysteine metabolism	61.11	11 of 18
[Ref.: #66794]	factor 420 biosynthesis	60	3 of 5
[Ref.: #66794]	metabolism of amino sugars and derivatives	60	3 of 5
[Ref.: #66794]	oxidative phosphorylation	59.34	54 of 91
[Ref.: #66794]	CO2 fixation in Crenarchaeota	55.56	5 of 9
[Ref.: #66794]	lipid A biosynthesis	55.56	5 of 9
[Ref.: #66794]	non-pathway related	55.26	21 of 38
[Ref.: #66794]	lipid metabolism	54.84	17 of 31
[Ref.: #66794]	d-xylose degradation	54.55	6 of 11
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	50	4 of 8
[Ref.: #66794]	phenylmercury acetate degradation	50	1 of 2
[Ref.: #66794]	adipate degradation	50	1 of 2
[Ref.: #66794]	sulfopterin metabolism	50	2 of 4
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	aminopropanol phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	lysine metabolism	50	21 of 42
[Ref.: #66794]	citric acid cycle	50	7 of 14
[Ref.: #66794]	toluene degradation	50	2 of 4
[Ref.: #66794]	dTDPLrhamnose biosynthesis	50	4 of 8
[Ref.: #66794]	tetrahydrofolate metabolism	50	7 of 14
[Ref.: #66794]	1,4-dihydroxy-6-naphthoate biosynthesis	50	3 of 6
[Ref.: #66794]	isoleucine metabolism	50	4 of 8
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	glycogen biosynthesis	50	2 of 4
[Ref.: #66794]	mannosylglycerate biosynthesis	50	1 of 2
[Ref.: #66794]	glycine metabolism	50	5 of 10
[Ref.: #66794]	histidine metabolism	48.28	14 of 29
[Ref.: #66794]	isoprenoid biosynthesis	46.15	12 of 26
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	46.15	6 of 13
[Ref.: #66794]	proline metabolism	45.45	5 of 11
[Ref.: #66794]	nitrate assimilation	44.44	4 of 9
[Ref.: #66794]	ubiquinone biosynthesis	42.86	3 of 7
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
[Ref.: #66794]	arginine metabolism	41.67	10 of 24
[Ref.: #66794]	glycogen metabolism	40	2 of 5
[Ref.: #66794]	coenzyme M biosynthesis	40	4 of 10
[Ref.: #66794]	Entner Doudoroff pathway	40	4 of 10
[Ref.: #66794]	ethylmalonyl-CoA pathway	40	2 of 5
[Ref.: #66794]	methylglyoxal degradation	40	2 of 5
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	tryptophan metabolism	39.47	15 of 38
[Ref.: #66794]	pentose phosphate pathway	36.36	4 of 11
[Ref.: #66794]	polyamine pathway	34.78	8 of 23
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	degradation of hexoses	33.33	6 of 18
[Ref.: #66794]	pantothenate biosynthesis	33.33	2 of 6
[Ref.: #66794]	valine metabolism	33.33	3 of 9
[Ref.: #66794]	arachidonic acid metabolism	33.33	6 of 18
[Ref.: #66794]	degradation of pentoses	32.14	9 of 28
[Ref.: #66794]	ascorbate metabolism	31.82	7 of 22
[Ref.: #66794]	leucine metabolism	30.77	4 of 13
[Ref.: #66794]	phenylpropanoid biosynthesis	30.77	4 of 13
[Ref.: #66794]	sulfate reduction	30.77	4 of 13
[Ref.: #66794]	propionate fermentation	30	3 of 10
[Ref.: #66794]	aclacinomycin biosynthesis	28.57	2 of 7
[Ref.: #66794]	tyrosine metabolism	28.57	4 of 14
[Ref.: #66794]	vitamin B6 metabolism	27.27	3 of 11
[Ref.: #66794]	CMP-KDO biosynthesis	25	1 of 4
[Ref.: #66794]	ginsenoside metabolism	25	4 of 16
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	methanogenesis from CO2	25	3 of 12
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	4-hydroxymandelate degradation	22.22	2 of 9
[Ref.: #66794]	glutathione metabolism	21.43	3 of 14
		Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #7813]	Sample type/isolated from	pond sediment
[Ref.: #7813]	Geographic location (country and/or sea, region)	Münster
[Ref.: #7813]	Country	Germany
[Ref.: #7813]	Country ISO 3 Code	DEU
[Ref.: #7813]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Pond (small)
#Environmental	#Aquatic	#Sediment

What are isolation sources categories?

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

[Ref.: #7813]

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.: #7813]	Clostridium sulfidigenes strain SGB2 16S ribosomal RNA gene, complete sequence	EF199998	1504	ENA	318464 tax ID

[Ref.: #7813]	GC-content	32.3 mol%	high performance liquid chromatography (HPLC)
[Ref.: #29052]	GC-content	32.3 mol%

Availability in culture collections External links

[Ref.: #7813]

Culture collection no.

DSM 18982, ATCC BAA–1538

[Ref.: #72376]

SI-ID 396528

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Clostridium punense sp. nov., an obligate anaerobe isolated from healthy human faeces.	Lanjekar VB, Marathe NP, Shouche YS, Ranade DR	Int J Syst Evol Microbiol	10.1099/ijsem.0.000644	2015	*
Phylogeny	Clostridium huakuii sp. nov., an anaerobic, acetogenic bacterium isolated from methanogenic consortia.	Ruan Z, Wang Y, Zhang C, Song J, Zhai Y, Zhuang Y, Wang H, Chen X, Li Y, Zhao B, Zhao B	Int J Syst Evol Microbiol	10.1099/ijs.0.062711-0	2014	*
Phylogeny	Clostridium sulfidigenes sp. nov., a mesophilic, proteolytic, thiosulfate- and sulfur-reducing bacterium isolated from pond sediment.	Sallam A, Steinbuchel A	Int J Syst Evol Microbiol	10.1099/ijs.0.004986-0	2009	*

References

#7813

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 18982

#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 )

#29052

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 #25482 (see below)

#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 )

#72376

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-ID396528.1 )

#25482

IJSEM 1661 2009 ( DOI 10.1099/ijs.0.004986-0 , PubMed 19542123 )

* These data were automatically processed and therefore are not curated

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