Name: Megalodesulfovibrio gigas DSM 1382
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 4083

Type strain:

Species: Megalodesulfovibrio gigas

Culture col. no.: DSM 1382, ATCC 19364, NCIMB 9332, VKM B-1759

Strain history: <- H. Biebl, Institut für Mikrobiologie GSF, Göttingen, Germany; NCIMB 9332 <- J. Le Gall, Centre National de la Recherche Scientifique, Marseille, France

NCBI tax ID(s): 879 (species)

SI-ID 36958

ATCC 19364, NCIB 9332, CCUG 33215, DSM 1382, VKM B-1759, NCIMB 9332, KCTC 2483

Section

Megalodesulfovibrio gigas DSM 1382 is an anaerobe, mesophilic, motile bacterium that was isolated from water.

motile
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	*Pseudomonadota*
	Class	*Deltaproteobacteria*
	Order	*Desulfovibrionales*
	Family	*Desulfovibrionaceae*
	Genus	*Megalodesulfovibrio*
	Species	**Megalodesulfovibrio gigas**
	Full Scientific Name (LPSN)	Megalodesulfovibrio gigas (Le Gall 1963) Waite et al. 2020

Synonym

Desulfovibrio gigas

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %99.993

[Ref.: #69480]	Motility	yes Confidence in %98.253

Information on culture and growth conditions Culture and growth conditions

[Ref.: #757]

Culture medium

DESULFOVIBRIO GIGAS MEDIUM (DSMZ Medium 149)

[Ref.: #757]

Culture medium growth

[Ref.: #757]

Culture medium link

Medium recipe at MediaDive

[Ref.: #757]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #757]			growth	35 °C

[Ref.: #757]

Temperature range

mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #757]	Oxygen tolerance	anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %100

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.865

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	1,4-dihydroxy-6-naphthoate biosynthesis	100	6 of 6
[Ref.: #66794]	chorismate metabolism	100	9 of 9
[Ref.: #66794]	acetoin degradation	100	3 of 3
[Ref.: #66794]	reductive acetyl coenzyme A pathway	100	7 of 7
[Ref.: #66794]	valine metabolism	100	9 of 9
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	sulfopterin metabolism	100	4 of 4
[Ref.: #66794]	L-lactaldehyde degradation	100	3 of 3
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	methylglyoxal degradation	100	5 of 5
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	palmitate biosynthesis	90.91	20 of 22
[Ref.: #66794]	aspartate and asparagine metabolism	88.89	8 of 9
[Ref.: #66794]	ubiquinone biosynthesis	85.71	6 of 7
[Ref.: #66794]	vitamin B1 metabolism	84.62	11 of 13
[Ref.: #66794]	pentose phosphate pathway	81.82	9 of 11
[Ref.: #66794]	methionine metabolism	80.77	21 of 26
[Ref.: #66794]	glycogen metabolism	80	4 of 5
[Ref.: #66794]	threonine metabolism	80	8 of 10
[Ref.: #66794]	starch degradation	80	8 of 10
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	vitamin B12 metabolism	79.41	27 of 34
[Ref.: #66794]	tetrahydrofolate metabolism	78.57	11 of 14
[Ref.: #66794]	photosynthesis	78.57	11 of 14
[Ref.: #66794]	nitrate assimilation	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]	purine metabolism	77.66	73 of 94
[Ref.: #66794]	alanine metabolism	75.86	22 of 29
[Ref.: #66794]	ppGpp biosynthesis	75	3 of 4
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	biotin biosynthesis	75	3 of 4
[Ref.: #66794]	CMP-KDO biosynthesis	75	3 of 4
[Ref.: #66794]	isoleucine metabolism	75	6 of 8
[Ref.: #66794]	flavin biosynthesis	73.33	11 of 15
[Ref.: #66794]	proline metabolism	72.73	8 of 11
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	glutamate and glutamine metabolism	71.43	20 of 28
[Ref.: #66794]	phenylalanine metabolism	69.23	9 of 13
[Ref.: #66794]	sulfate reduction	69.23	9 of 13
[Ref.: #66794]	formaldehyde oxidation	66.67	2 of 3
[Ref.: #66794]	NAD metabolism	66.67	12 of 18
[Ref.: #66794]	cyanate degradation	66.67	2 of 3
[Ref.: #66794]	pyrimidine metabolism	66.67	30 of 45
[Ref.: #66794]	glycolate and glyoxylate degradation	66.67	4 of 6
[Ref.: #66794]	selenocysteine biosynthesis	66.67	4 of 6
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	serine metabolism	66.67	6 of 9
[Ref.: #66794]	heme metabolism	64.29	9 of 14
[Ref.: #66794]	oxidative phosphorylation	63.74	58 of 91
[Ref.: #66794]	vitamin B6 metabolism	63.64	7 of 11
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
[Ref.: #66794]	C4 and CAM-carbon fixation	62.5	5 of 8
[Ref.: #66794]	isoprenoid biosynthesis	61.54	16 of 26
[Ref.: #66794]	non-pathway related	60.53	23 of 38
[Ref.: #66794]	hydrogen production	60	3 of 5
[Ref.: #66794]	glycolysis	58.82	10 of 17
[Ref.: #66794]	citric acid cycle	57.14	8 of 14
[Ref.: #66794]	propanol degradation	57.14	4 of 7
[Ref.: #66794]	degradation of sugar alcohols	56.25	9 of 16
[Ref.: #66794]	cysteine metabolism	55.56	10 of 18
[Ref.: #66794]	CO2 fixation in Crenarchaeota	55.56	5 of 9
[Ref.: #66794]	metabolism of disaccharids	54.55	6 of 11
[Ref.: #66794]	leucine metabolism	53.85	7 of 13
[Ref.: #66794]	lysine metabolism	52.38	22 of 42
[Ref.: #66794]	polyamine pathway	52.17	12 of 23
[Ref.: #66794]	histidine metabolism	51.72	15 of 29
[Ref.: #66794]	glutathione metabolism	50	7 of 14
[Ref.: #66794]	dTDPLrhamnose biosynthesis	50	4 of 8
[Ref.: #66794]	glycine metabolism	50	5 of 10
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	tryptophan metabolism	50	19 of 38
[Ref.: #66794]	phenylmercury acetate degradation	50	1 of 2
[Ref.: #66794]	aminopropanol phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	suberin monomers biosynthesis	50	1 of 2
[Ref.: #66794]	vitamin E metabolism	50	2 of 4
[Ref.: #66794]	ketogluconate metabolism	50	4 of 8
[Ref.: #66794]	butanoate fermentation	50	2 of 4
[Ref.: #66794]	adipate degradation	50	1 of 2
[Ref.: #66794]	gluconeogenesis	50	4 of 8
[Ref.: #66794]	urea cycle	46.15	6 of 13
[Ref.: #66794]	arginine metabolism	45.83	11 of 24
[Ref.: #66794]	lipid A biosynthesis	44.44	4 of 9
[Ref.: #66794]	tyrosine metabolism	42.86	6 of 14
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	factor 420 biosynthesis	40	2 of 5
[Ref.: #66794]	propionate fermentation	40	4 of 10
[Ref.: #66794]	lipoate biosynthesis	40	2 of 5
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	38.46	5 of 13
[Ref.: #66794]	lipid metabolism	35.48	11 of 31
[Ref.: #66794]	methanogenesis from CO2	33.33	4 of 12
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	pantothenate biosynthesis	33.33	2 of 6
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	myo-inositol biosynthesis	30	3 of 10
[Ref.: #66794]	coenzyme M biosynthesis	30	3 of 10
[Ref.: #66794]	Entner Doudoroff pathway	30	3 of 10
[Ref.: #66794]	mevalonate metabolism	28.57	2 of 7
[Ref.: #66794]	degradation of hexoses	27.78	5 of 18
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	carnitine metabolism	25	2 of 8
[Ref.: #66794]	ascorbate metabolism	22.73	5 of 22
[Ref.: #66794]	degradation of pentoses	21.43	6 of 28
		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.: #757]	Sample type/isolated from	water
[Ref.: #757]	Geographic location (country and/or sea, region)	Etang de Berre near MarseilIe
[Ref.: #757]	Country	France
[Ref.: #757]	Country ISO 3 Code	FRA
[Ref.: #757]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Environmental

#Aquatic

What are isolation sources categories?

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

[Ref.: #757]

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.: #757]	Desulfovibrio gigas strain DSM 1382 16S ribosomal RNA gene, partial sequence	AY726757	1510	ENA	879 tax ID
[Ref.: #20218]	D.gigas 16S ribosomal rRNA	M34400	1371	ENA	879 tax ID	*

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Megalodesulfovibrio gigas DSM 1382 = ATCC 19364	GCA_000468495	chromosome	GenBank	1121448 tax ID	*
[Ref.: #66792]	Megalodesulfovibrio gigas DSM 1382 = ATCC 19364	GCA_000429285	scaffold	GenBank	1121448 tax ID	*
[Ref.: #66792]	Desulfovibrio gigas DSM 1382 = ATCC 19364	1121448.7	complete	PATRIC	1121448 tax ID	*
[Ref.: #66792]	Desulfovibrio gigas DSM 1382 = ATCC 19364	1121448.10	complete	PATRIC	1121448 tax ID	*
[Ref.: #66792]	Desulfovibrio gigas DSM 1382 = ATCC 19364	1121448.13	plasmid	PATRIC	1121448 tax ID	*
[Ref.: #66792]	Desulfovibrio gigas DSM 1382, ATCC 19364	2523231027	draft	JGI IMG/M	1121448 tax ID	*

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: Desulfovibrio gigas DSM 1382 = ATCC 19364 ATCC 19364 NCBI: GCA_000468495.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Desulfovibrio gigas DSM 1382 = ATCC 19364 PATRIC: 1121448.7
[Ref.: #69480]	motile	yes	89.394	no
[Ref.: #69480]	flagellated	no	70.848	no
[Ref.: #69480]	gram-positive	no	98.31	no
[Ref.: #69480]	anaerobic	yes	98.993	yes
[Ref.: #69480]	aerobic	no	98.108	yes
[Ref.: #69480]	halophile	no	77.169	no
[Ref.: #69480]	spore-forming	no	91.73	no
[Ref.: #69480]	thermophile	no	82.104	yes
[Ref.: #69480]	glucose-util	yes	59.537	no
[Ref.: #69480]	glucose-ferment	no	85.762	no

Availability in culture collections External links

[Ref.: #757]

Culture collection no.

DSM 1382, ATCC 19364, NCIMB 9332, VKM B-1759

[Ref.: #73586]

SI-ID 36958

Literature:

Topic	Title	Authors	Journal	DOI	Year
Metabolism	Stable isotope fractionation of gamma-hexachlorocyclohexane (lindane) during reductive dechlorination by two strains of sulfate-reducing bacteria.	Badea SL, Vogt C, Weber S, Danet AF, Richnow HH	Environ Sci Technol	10.1021/es801284m	2009	*
Phylogeny	Desulfovibrio paquesii sp. nov., a hydrogenotrophic sulfate-reducing bacterium isolated from a synthesis-gas-fed bioreactor treating zinc- and sulfate-rich wastewater.	van Houten BH, Meulepas RJ, van Doesburg W, Smidt H, Muyzer G, Stams AJ	Int J Syst Evol Microbiol	10.1099/ijs.0.65616-0	2009	*
Metabolism	Reduction of molybdate by sulfate-reducing bacteria.	Biswas KC, Woodards NA, Xu H, Barton LL	Biometals	10.1007/s10534-008-9198-8	2009	*
Enzymology	Purification and characterization of a benzylviologen-linked, tungsten-containing aldehyde oxidoreductase from Desulfovibrio gigas.	Hensgens CM, Hagen WR, Hansen TA	J Bacteriol	10.1128/jb.177.21.6195-6200.1995	1995	*
Enzymology	The primary structures of the flavodoxins from two strains of Desulfovibrio gigas. Cloning and nucleotide sequence of the structural genes.	Helms LR, Swenson RP	Biochim Biophys Acta	10.1016/0167-4781(92)90034-w	1992	*

References

#757	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 1382

#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) .

#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 )

#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 )

#73586

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-ID36958.1 )

* These data were automatically processed and therefore are not curated

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Desulfovibrio gigas DSM 1382 = ATCC 19364 ATCC 19364

Desulfovibrio gigas DSM 1382 = ATCC 19364

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