Strain identifier
BacDive ID: 4083
Type strain: 
Species: Megalodesulfovibrio gigas
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)
version 8.1 (current version)
General
@ref: 757
BacDive-ID: 4083
DSM-Number: 1382
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, motile
description: Megalodesulfovibrio gigas DSM 1382 is an anaerobe, mesophilic, motile bacterium that was isolated from water.
NCBI tax id
- NCBI tax id: 879
- Matching level: species
strain history
- @ref: 757
- history: <- H. Biebl, Institut für Mikrobiologie GSF, Göttingen, Germany; NCIMB 9332 <- J. Le Gall, Centre National de la Recherche Scientifique, Marseille, France
doi: 10.13145/bacdive4083.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Deltaproteobacteria
- order: Desulfovibrionales
- family: Desulfovibrionaceae
- genus: Megalodesulfovibrio
- species: Megalodesulfovibrio gigas
- full scientific name: Megalodesulfovibrio gigas (Le Gall 1963) Waite et al. 2020
synonyms
- @ref: 20215
- synonym: Desulfovibrio gigas
@ref: 757
domain: Bacteria
phylum: Proteobacteria
class: Deltaproteobacteria
order: Desulfovibrionales
family: Desulfovibrionaceae
genus: Megalodesulfovibrio
species: Megalodesulfovibrio gigas
full scientific name: Megalodesulfovibrio gigas (Le Gall 1963) Waite et al. 2020
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 98.253 | |
| 69480 | 99.993 | negative |
Culture and growth conditions
culture medium
- @ref: 757
- name: DESULFOVIBRIO GIGAS MEDIUM (DSMZ Medium 149)
- growth: yes
- link: https://mediadive.dsmz.de/medium/149
- composition: Name: MEGADESULFOVIBRIO MEDIUM (DSMZ Medium 149) Composition: Na2SO4 2.0 g/l Na-L-lactate 2.0 g/l KH2PO4 1.0 g/l Na2CO3 1.0 g/l NH4Cl 0.5 g/l MgSO4 x 7 H2O 0.4 g/l Na2S x 9 H2O 0.3 g/l CaCl2 x 2 H2O 0.1 g/l Sodium resazurin 0.0005 g/l H3BO3 0.0003 g/l Pyridoxine hydrochloride 0.0003 g/l Thiamine-HCl x 2 H2O 0.0002 g/l CoCl2 x 6 H2O 0.0002 g/l Nicotinic acid 0.0002 g/l Vitamin B12 0.0001 g/l Calcium pantothenate 0.0001 g/l ZnSO4 x 7 H2O 0.0001 g/l p-Aminobenzoic acid 8e-05 g/l Na2MoO4 x 2 H2O 3e-05 g/l MnCl2 x 4 H2O 3e-05 g/l D-(+)-biotin 2e-05 g/l NiCl2 x 6 H2O 2e-05 g/l CuCl2 x 2 H2O 1e-05 g/l H2SO4 Distilled water
culture temp
- @ref: 757
- growth: positive
- type: growth
- temperature: 35
- range: mesophilic
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 757 | anaerobe | |
| 69480 | anaerobe | 100 |
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.865 |
Isolation, sampling and environmental information
isolation
- @ref: 757
- sample type: water
- geographic location: Etang de Berre near MarseilIe
- country: France
- origin.country: FRA
- continent: Europe
isolation source categories
- Cat1: #Environmental
- Cat2: #Aquatic
Safety information
risk assessment
- @ref: 757
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | D.gigas 16S ribosomal rRNA | M34400 | 1371 | ena | 879 |
| 757 | Desulfovibrio gigas strain DSM 1382 16S ribosomal RNA gene, partial sequence | AY726757 | 1510 | ena | 879 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Megalodesulfovibrio gigas DSM 1382 = ATCC 19364 | GCA_000468495 | chromosome | ncbi | 1121448 |
| 66792 | Megalodesulfovibrio gigas DSM 1382 = ATCC 19364 | GCA_000429285 | scaffold | ncbi | 1121448 |
| 66792 | Desulfovibrio gigas DSM 1382 = ATCC 19364 | 1121448.7 | complete | patric | 1121448 |
| 66792 | Desulfovibrio gigas DSM 1382 = ATCC 19364 | 1121448.10 | complete | patric | 1121448 |
| 66792 | Desulfovibrio gigas DSM 1382 = ATCC 19364 | 1121448.13 | plasmid | patric | 1121448 |
| 66792 | Desulfovibrio gigas DSM 1382, ATCC 19364 | 2523231027 | draft | img | 1121448 |
| 66792 | Desulfovibrio gigas DSM 1382, ATCC 19364 | 2561511218 | complete | img | 1121448 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | yes | 89.394 | no |
| flagellated | no | 70.848 | no |
| gram-positive | no | 98.31 | no |
| anaerobic | yes | 98.993 | yes |
| aerobic | no | 98.108 | yes |
| halophile | no | 77.169 | no |
| spore-forming | no | 91.73 | no |
| thermophile | no | 82.104 | yes |
| glucose-util | yes | 59.537 | no |
| glucose-ferment | no | 85.762 | no |
External links
@ref: 757
culture collection no.: DSM 1382, ATCC 19364, NCIMB 9332, VKM B-1759
straininfo link
- @ref: 73586
- straininfo: 36958
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Enzymology | 1627649 | 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 | Amino Acid Sequence, Base Sequence, Binding Sites/genetics, Cloning, Molecular, Desulfovibrio/*genetics, Flavin Mononucleotide/metabolism, Flavodoxin/chemistry/*genetics/metabolism, Genes/genetics, Genes, Bacterial/genetics, Molecular Sequence Data, Restriction Mapping | Metabolism |
| Enzymology | 7592385 | 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 | Aldehyde Oxidoreductases/antagonists & inhibitors/chemistry/classification/*metabolism, Amino Acid Sequence, Anaerobiosis, Benzyl Viologen/*metabolism, *Coenzymes, Desulfovibrio/*enzymology, Electron Spin Resonance Spectroscopy, Electron Transport, Enzyme Inhibitors/pharmacology, Metalloproteins/analysis, Molecular Sequence Data, Molecular Weight, Molybdenum/*analysis, Molybdenum Cofactors, Protein Conformation, Pteridines/analysis, Sequence Analysis, Spectrometry, Fluorescence, Substrate Specificity, Sulfur/analysis, Tungsten/*analysis | Metabolism |
| Metabolism | 19130259 | Reduction of molybdate by sulfate-reducing bacteria. | Biswas KC, Woodards NA, Xu H, Barton LL | Biometals | 10.1007/s10534-008-9198-8 | 2009 | Bacterial Proteins/genetics/metabolism, Biological Transport/physiology, Desulfovibrio/genetics/*physiology, *Molybdenum/chemistry/metabolism, Oxidation-Reduction, Seawater/chemistry, Sulfates/chemistry/*metabolism | |
| Phylogeny | 19196759 | 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 | Bioreactors/*microbiology, Desulfovibrio/*classification/genetics/growth & development/isolation & purification, Gases/metabolism, Hydrogen/*metabolism, Molecular Sequence Data, Oxidation-Reduction, Phylogeny, RNA, Ribosomal, 16S/genetics, Sulfates/*metabolism, Water Purification, Zinc/metabolism | Metabolism |
| Metabolism | 19534128 | 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 | Anaerobiosis, Biodegradation, Environmental, Carbon Isotopes, *Chemical Fractionation, Desulfovibrio gigas/metabolism, *Halogenation, Hexachlorocyclohexane/*chemistry/*isolation & purification, Oxidation-Reduction, Sulfur-Reducing Bacteria/*metabolism | Enzymology |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 757 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 1382) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-1382 | |||
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
| 20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | 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 | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | 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 | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
| 73586 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID36958.1 | StrainInfo: A central database for resolving microbial strain identifiers |