Strain identifier
BacDive ID: 4177
Type strain:
Species: Pseudodesulfovibrio piezophilus
Strain Designation: C1TLV30
Strain history: M.-L. Fardeau C1TLV30.
NCBI tax ID(s): 1322246 (strain), 879567 (species)
General
@ref: 15709
BacDive-ID: 4177
DSM-Number: 21447
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic
description: Pseudodesulfovibrio piezophilus C1TLV30 is an anaerobe, mesophilic bacterium that was isolated from wood falls on deep-sea sediments at a depth of 1693 m.
NCBI tax id
NCBI tax id | Matching level |
---|---|
879567 | species |
1322246 | strain |
strain history
@ref | history |
---|---|
15709 | <- M. L. Fardeau, IRD/ESIL, Marseille, France; CITLV30 |
67770 | M.-L. Fardeau C1TLV30. |
doi: 10.13145/bacdive4177.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Deltaproteobacteria
- order: Desulfovibrionales
- family: Desulfovibrionaceae
- genus: Pseudodesulfovibrio
- species: Pseudodesulfovibrio piezophilus
- full scientific name: Pseudodesulfovibrio piezophilus (Khelaifia et al. 2011) Cao et al. 2016
synonyms
- @ref: 20215
- synonym: Desulfovibrio piezophilus
@ref: 15709
domain: Bacteria
phylum: Proteobacteria
class: Deltaproteobacteria
order: Desulfovibrionales
family: Desulfovibrionaceae
genus: Pseudodesulfovibrio
species: Pseudodesulfovibrio piezophilus
full scientific name: Pseudodesulfovibrio piezophilus (Khelaifia et al. 2011) Cao et al. 2016
strain designation: C1TLV30
type strain: yes
Culture and growth conditions
culture medium
- @ref: 15709
- name: MARINE DESULFOVIBRIO COMPLEX MEDIUM (DSMZ Medium 1040)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1040
- composition: Name: MARIDESULFOVIBRIO MEDIUM (DSMZ Medium 1040) Composition: Sea Salt 34.9301 g/l Na-DL-lactate 2.49501 g/l Yeast extract 0.998004 g/l Na2CO3 0.998004 g/l Na2S x 9 H2O 0.299401 g/l MgSO4 x 7 H2O 0.0299401 g/l NaCl 0.00998004 g/l MnSO4 x H2O 0.00499002 g/l (NH4)2Ni(SO4)2 x 6 H2O 0.00279441 g/l CoCl2 x 6 H2O 0.00179641 g/l ZnSO4 x 7 H2O 0.00179641 g/l CaCl2 x 2 H2O 0.000998004 g/l FeSO4 x 7 H2O 0.000998004 g/l Sodium resazurin 0.000499002 g/l AlK(SO4)2 x 12 H2O 0.000179641 g/l CuSO4 x 5 H2O 9.98004e-05 g/l H3BO3 9.98004e-05 g/l Na2MoO4 x 2 H2O 9.98004e-05 g/l Na2WO4 x 2 H2O 9.98004e-05 g/l Na2SeO4 9.98004e-05 g/l Pyridoxine hydrochloride 9.98004e-05 g/l (DL)-alpha-Lipoic acid 4.99002e-05 g/l Calcium D-(+)-pantothenate 4.99002e-05 g/l Nicotinic acid 4.99002e-05 g/l Riboflavin 4.99002e-05 g/l Thiamine HCl 4.99002e-05 g/l p-Aminobenzoic acid 4.99002e-05 g/l Folic acid 1.99601e-05 g/l Biotin 1.99601e-05 g/l Vitamin B12 9.98004e-07 g/l Distilled water
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
15709 | positive | growth | 28 | mesophilic |
67770 | positive | growth | 30 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 15709
- oxygen tolerance: anaerobe
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | latitude | longitude |
---|---|---|---|---|---|---|---|
15709 | wood falls on deep-sea sediments at a depth of 1693 m | Mediterranean Sea | Egypt | EGY | Africa | 32.5436 | 30.355 |
67770 | Wood falls at a depth of 1,693 m in the Mediterranean Sea | Mediterranean Sea |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Marine |
#Environmental | #Aquatic | #Sediment |
#Host Body Product | #Plant | #Timber |
taxonmaps
- @ref: 69479
- File name: preview.99_7284.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_320;96_3407;97_4182;98_5343;99_7284&stattab=map
- Last taxonomy: Pseudodesulfovibrio piezophilus subclade
- 16S sequence: HM852532
- Sequence Identity:
- Total samples: 130
- soil counts: 25
- aquatic counts: 103
- plant counts: 2
Safety information
risk assessment
- @ref: 15709
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 15709
- description: Desulfovibrio piezophilus strain C1TLV30 16S ribosomal RNA gene, partial sequence
- accession: HM852532
- length: 1539
- database: ena
- NCBI tax ID: 1322246
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Pseudodesulfovibrio piezophilus C1TLV30 | 2540341170 | complete | img | 1322246 |
67770 | Pseudodesulfovibrio piezophilus C1TLV30 type strain: C1TLV30 | GCA_000341895 | chromosome | ncbi | 1322246 |
GC content
- @ref: 15709
- GC-content: 49.6
- method: high performance liquid chromatography (HPLC)
External links
@ref: 15709
culture collection no.: DSM 21447, JCM 15486
straininfo link
- @ref: 73677
- straininfo: 63233
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 21169465 | Desulfovibrio piezophilus sp. nov., a piezophilic, sulfate-reducing bacterium isolated from wood falls in the Mediterranean Sea. | Khelaifia S, Fardeau ML, Pradel N, Aussignargues C, Garel M, Tamburini C, Cayol JL, Gaudron S, Gaill F, Ollivier B | Int J Syst Evol Microbiol | 10.1099/ijs.0.028670-0 | 2010 | Base Composition, Desulfovibrio/chemistry/*classification/genetics/*isolation & purification, Fatty Acids/metabolism, Geologic Sediments/*microbiology, Mediterranean Sea, Molecular Sequence Data, Oxidation-Reduction, Phylogeny, Seawater/*microbiology, Sodium Chloride/metabolism, Sulfates/*metabolism | Metabolism |
Metabolism | 23383081 | The first genomic and proteomic characterization of a deep-sea sulfate reducer: insights into the piezophilic lifestyle of Desulfovibrio piezophilus. | Pradel N, Ji B, Gimenez G, Talla E, Lenoble P, Garel M, Tamburini C, Fourquet P, Lebrun R, Bertin P, Denis Y, Pophillat M, Barbe V, Ollivier B, Dolla A | PLoS One | 10.1371/journal.pone.0055130 | 2013 | Adaptation, Physiological/genetics, Amino Acids/metabolism, Atmospheric Pressure, Desulfovibrio/genetics/metabolism/*physiology, Energy Metabolism/genetics, Hydrostatic Pressure, Lipids/biosynthesis, Multigene Family/genetics, *Oceans and Seas, Oxidation-Reduction, *Pressure, *Proteomics, Species Specificity, Sulfates/*metabolism | Phylogeny |
Metabolism | 27264199 | Deciphering the adaptation strategies of Desulfovibrio piezophilus to hydrostatic pressure through metabolic and transcriptional analyses. | Amrani A, van Helden J, Bergon A, Aouane A, Ben Hania W, Tamburini C, Loriod B, Imbert J, Ollivier B, Pradel N, Dolla A | Environ Microbiol Rep | 10.1111/1758-2229.12427 | 2016 | Acetyl Coenzyme A/metabolism, *Adaptation, Physiological, Desulfovibrio/*physiology, Energy Metabolism, Formates/metabolism, Gene Expression Profiling, Glutamic Acid/metabolism, Hydrogen/metabolism, *Hydrostatic Pressure, Lactates/metabolism, Mediterranean Sea, Metabolomics, Oxidation-Reduction, *Stress, Physiological | |
Phylogeny | 27392787 | Pseudodesulfovibrio indicus gen. nov., sp. nov., a piezophilic sulfate-reducing bacterium from the Indian Ocean and reclassification of four species of the genus Desulfovibrio. | Cao J, Gayet N, Zeng X, Shao Z, Jebbar M, Alain K | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001286 | 2016 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Desulfovibrio/*classification/genetics/isolation & purification, Fatty Acids/chemistry, Indian Ocean, Oxidation-Reduction, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sulfur-Reducing Bacteria/*classification/genetics/isolation & purification | Enzymology |
Metabolism | 31655199 | Genome insights of mercury methylation among Desulfovibrio and Pseudodesulfovibrio strains. | Goni-Urriza M, Klopp C, Ranchou-Peyruse M, Ranchou-Peyruse A, Monperrus M, Khalfaoui-Hassani B, Guyoneaud R | Res Microbiol | 10.1016/j.resmic.2019.10.003 | 2019 | Bacterial Proteins/genetics/metabolism, Desulfovibrio/classification/genetics/*metabolism, Desulfovibrionaceae/classification/genetics/*metabolism, Gene Expression Regulation, Bacterial, *Genome, Bacterial, Mercury/*metabolism, Methylation, Phylogeny | Phylogeny |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
15709 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21447) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-21447 | |||
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 | |||
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 | |
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
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 | |||
73677 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID63233.1 | StrainInfo: A central database for resolving microbial strain identifiers |