Strain identifier
BacDive ID: 4142
Type strain:
Species: Maridesulfovibrio hydrothermalis
Strain Designation: AM13, AM13cf, H7
Strain history: CIP <- 2001, JL Garcia, IRD, Marseille, France: strain H7 <- D. Alazard: strain AM13
NCBI tax ID(s): 191026 (species)
General
@ref: 5513
BacDive-ID: 4142
DSM-Number: 14728
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-negative
description: Maridesulfovibrio hydrothermalis AM13 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from deep-sea hydrothermal chimney wall-2600 m.
NCBI tax id
- NCBI tax id: 191026
- Matching level: species
strain history
@ref | history |
---|---|
5513 | <- J.-L. Garcia, Universités de Provence et de la Méditerranée, ESIL, Marseille, France; AM13cf <- D. Alazard {2000} |
120012 | CIP <- 2001, JL Garcia, IRD, Marseille, France: strain H7 <- D. Alazard: strain AM13 |
doi: 10.13145/bacdive4142.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Deltaproteobacteria
- order: Desulfovibrionales
- family: Desulfovibrionaceae
- genus: Maridesulfovibrio
- species: Maridesulfovibrio hydrothermalis
- full scientific name: Maridesulfovibrio hydrothermalis (Alazard et al. 2003) Waite et al. 2020
synonyms
- @ref: 20215
- synonym: Desulfovibrio hydrothermalis
@ref: 5513
domain: Bacteria
phylum: Proteobacteria
class: Deltaproteobacteria
order: Desulfovibrionales
family: Desulfovibrionaceae
genus: Maridesulfovibrio
species: Maridesulfovibrio hydrothermalis
full scientific name: Maridesulfovibrio hydrothermalis (Alazard et al. 2003) Waite et al. 2020
strain designation: AM13, AM13cf, H7
type strain: yes
Morphology
cell morphology
@ref | gram stain | confidence | cell shape | motility |
---|---|---|---|---|
69480 | negative | 99.994 | ||
120012 | negative | rod-shaped | no |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
5513 | DESULFOBACTER SP. MEDIUM (LACTATE) (DSMZ Medium 195c) | yes | https://mediadive.dsmz.de/medium/195c | Name: DESULFOBACTER SP. MEDIUM (LACTATE) (DSMZ Medium 195c; with strain-specific modifications) Composition: NaCl 20.9372 g/l Na2SO4 2.99103 g/l MgCl2 x 6 H2O 2.99103 g/l Na-L-lactate 2.49252 g/l Na2CO3 1.49551 g/l KCl 0.498504 g/l Na-acetate 0.498504 g/l Na2S x 9 H2O 0.398804 g/l NH4Cl 0.299103 g/l KH2PO4 0.199402 g/l CaCl2 x 2 H2O 0.149551 g/l HCl 0.00249252 g/l FeCl2 x 4 H2O 0.00149551 g/l NaOH 0.000498504 g/l Sodium resazurin 0.000498504 g/l CoCl2 x 6 H2O 0.000189432 g/l MnCl2 x 4 H2O 9.97009e-05 g/l Pyridoxine hydrochloride 9.97009e-05 g/l ZnCl2 6.97906e-05 g/l Riboflavin 4.98504e-05 g/l Nicotinic acid 4.98504e-05 g/l (DL)-alpha-Lipoic acid 4.98504e-05 g/l Calcium D-(+)-pantothenate 4.98504e-05 g/l Thiamine HCl 4.98504e-05 g/l p-Aminobenzoic acid 4.98504e-05 g/l Na2MoO4 x 2 H2O 3.58923e-05 g/l NiCl2 x 6 H2O 2.39282e-05 g/l Folic acid 1.99402e-05 g/l Biotin 1.99402e-05 g/l H3BO3 5.98205e-06 g/l Na2WO4 x 2 H2O 3.98804e-06 g/l Na2SeO3 x 5 H2O 2.99103e-06 g/l CuCl2 x 2 H2O 1.99402e-06 g/l Vitamin B12 9.97009e-07 g/l Distilled water |
35429 | MEDIUM 401 - for Desulfovibrio hydrothermalis | yes | Distilled water make up to (1000.000 ml);Sodium chloride (25.000 g);Potassium chloride (0.200 g);Magnesium chloride hexahydrate (3.000 g);Calcium chloride dihydrate(0.100 g);Sodium sulphate (3.160 g);Yeast extract (0.500 g);Potassium di-hydrogen phosphate | |
120012 | CIP Medium 401 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=401 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
5513 | positive | growth | 35 | mesophilic |
35429 | positive | growth | 30 | mesophilic |
120012 | positive | growth | 30 | mesophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance | confidence |
---|---|---|
5513 | anaerobe | |
69480 | anaerobe | 100 |
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.921 |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | isolation date |
---|---|---|---|---|
5513 | deep-sea hydrothermal chimney wall-2600 m | Pacific Ocean, 13°N East Pacific Rise | ||
120012 | Environment, Hydrothermal vent | Pacific Ocean | 2001 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Hydrothermal vent |
#Environmental | #Aquatic | #Marine |
#Condition | #Thermophilic (>45°C) |
taxonmaps
- @ref: 69479
- File name: preview.99_3970.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_320;96_2018;97_2430;98_3006;99_3970&stattab=map
- Last taxonomy: Maridesulfovibrio hydrothermalis subclade
- 16S sequence: AF458778
- Sequence Identity:
- Total samples: 521
- soil counts: 24
- aquatic counts: 450
- animal counts: 40
- plant counts: 7
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
5513 | 1 | Risk group (German classification) |
120012 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 5513
- description: Desulfovibrio hydrothermalis 16S ribosomal RNA gene, partial sequence
- accession: AF458778
- length: 1535
- database: ena
- NCBI tax ID: 1121451
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Maridesulfovibrio hydrothermalis AM13 = DSM 14728 | GCA_000331025 | chromosome | ncbi | 1121451 |
66792 | Maridesulfovibrio hydrothermalis AM13 = DSM 14728 | GCA_000425245 | scaffold | ncbi | 1121451 |
66792 | Desulfovibrio hydrothermalis AM13 = DSM 14728 | 1121451.5 | wgs | patric | 1121451 |
66792 | Desulfovibrio hydrothermalis AM13 = DSM 14728 | 1121451.9 | plasmid | patric | 1121451 |
66792 | Desulfovibrio hydrothermalis AM13 = DSM 14728 | 1121451.3 | complete | patric | 1121451 |
66792 | Desulfovibrio hydrothermalis AM13, DSM 14728 | 2648501899 | draft | img | 1121451 |
66792 | Desulfovibrio hydrothermalis AM13, DSM 14728 | 2523533539 | draft | img | 1121451 |
GC content
- @ref: 5513
- GC-content: 47±0.5
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | yes | 90.482 | no |
flagellated | yes | 62.289 | no |
gram-positive | no | 99.3 | no |
anaerobic | yes | 99.268 | yes |
aerobic | no | 98.784 | yes |
halophile | no | 70.037 | no |
spore-forming | no | 93.585 | no |
thermophile | no | 94.173 | no |
glucose-util | no | 55.96 | no |
glucose-ferment | no | 71.017 | no |
External links
@ref: 5513
culture collection no.: DSM 14728, CIP 107303
straininfo link
- @ref: 73645
- straininfo: 100629
literature
- topic: Phylogeny
- Pubmed-ID: 12656169
- title: Desulfovibrio hydrothermalis sp. nov., a novel sulfate-reducing bacterium isolated from hydrothermal vents.
- authors: Alazard D, Dukan S, Urios A, Verhe F, Bouabida N, Morel F, Thomas P, Garcia JL, Ollivier B
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.02323-0
- year: 2003
- mesh: DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Desulfovibrio/*classification/genetics/*isolation & purification/metabolism, Hot Temperature, Hydrostatic Pressure, Molecular Sequence Data, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Seawater/microbiology
- topic2: Stress
Reference
@id | authors | catalogue | doi/url | title |
---|---|---|---|---|
5513 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 14728) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-14728 | |
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 | |
35429 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/4723 | ||
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) | |
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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |
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 | |
73645 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID100629.1 | StrainInfo: A central database for resolving microbial strain identifiers | |
120012 | Curators of the CIP | Collection of Institut Pasteur (CIP 107303) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107303 |