Strain identifier
BacDive ID: 17947
Type strain:
Species: Thiomonas arsenivorans
Strain Designation: b6
Strain history: <- F. Battaglia-Brunet, BRGM, Environment and Process Division, Orléans, France; b6 (Thiomonas arsenivorans) <- F. Battaglia-Brunet {2001}
NCBI tax ID(s): 364030 (species)
General
@ref: 6402
BacDive-ID: 17947
DSM-Number: 16361
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, motile
description: Thiomonas arsenivorans b6 is a mesophilic, motile bacterium that was isolated from sediment on a disused mining site .
NCBI tax id
- NCBI tax id: 364030
- Matching level: species
strain history
- @ref: 6402
- history: <- F. Battaglia-Brunet, BRGM, Environment and Process Division, Orléans, France; b6 (Thiomonas arsenivorans) <- F. Battaglia-Brunet {2001}
doi: 10.13145/bacdive17947.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Burkholderiales
- family: Comamonadaceae
- genus: Thiomonas
- species: Thiomonas arsenivorans
- full scientific name: Thiomonas arsenivorans Battaglia-Brunet et al. 2006
@ref: 6402
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Comamonadaceae
genus: Thiomonas
species: Thiomonas delicata
full scientific name: Thiomonas delicata (Katayama-Fujimura et al. 1984) Kelly and Wood 2006 emend. Katayama et al. 2006 emend. Battaglia-Brunet et al. 2011
strain designation: b6
type strain: no
Morphology
cell morphology
@ref | motility | confidence | gram stain |
---|---|---|---|
69480 | yes | 94.392 | |
69480 | 100 | negative |
Culture and growth conditions
culture medium
- @ref: 6402
- name: R2A MEDIUM (DSMZ Medium 830)
- growth: yes
- link: https://mediadive.dsmz.de/medium/830
- composition: Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
culture temp
- @ref: 6402
- growth: positive
- type: growth
- temperature: 25
- range: mesophilic
Physiology and metabolism
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.997 |
Isolation, sampling and environmental information
isolation
- @ref: 6402
- sample type: sediment on a disused mining site (ancient gold mine)
- geographic location: Haute-Vienne, St.Yriex
- country: France
- origin.country: FRA
- continent: Europe
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Engineered | #Other | #Mine |
#Environmental | #Terrestrial | #Sediment |
Safety information
risk assessment
- @ref: 6402
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 6402
- description: Thiomonas arsenivorans strain b6 16S ribosomal RNA gene, partial sequence
- accession: AF460990
- length: 482
- database: ena
- NCBI tax ID: 364030
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Thiomonas delicata DSM 16361 | GCA_900088825 | scaffold | ncbi | 364030 |
66792 | Thiomonas delicata strain DSM 16361 | 364030.3 | wgs | patric | 364030 |
66792 | Thiomonas delicata DSM 16361 | 2831796995 | draft | img | 364030 |
GC content
- @ref: 6402
- GC-content: 65.1
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | yes | 90.792 | no |
flagellated | yes | 61.063 | no |
gram-positive | no | 98.353 | no |
anaerobic | no | 98.231 | no |
aerobic | yes | 67.37 | no |
halophile | no | 96.595 | no |
spore-forming | no | 94.46 | no |
glucose-ferment | no | 87.319 | no |
thermophile | no | 96.531 | yes |
glucose-util | no | 61.271 | no |
External links
@ref: 6402
culture collection no.: DSM 16361, LMG 22795
straininfo link
- @ref: 86935
- straininfo: 135996
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 16341463 | Oxidation of arsenite by Thiomonas strains and characterization of Thiomonas arsenivorans sp. nov. | Battaglia-Brunet F, Joulian C, Garrido F, Dictor MC, Morin D, Coupland K, Barrie Johnson D, Hallberg KB, Baranger P | Antonie Van Leeuwenhoek | 10.1007/s10482-005-9013-2 | 2005 | Arsenites/*metabolism, Bacterial Typing Techniques, Base Composition, Base Sequence, Betaproteobacteria/*classification/genetics/isolation & purification/*metabolism, Culture Media, DNA, Bacterial/chemistry/genetics, Mining, Oxidation-Reduction, Phylogeny, Soil Microbiology | Metabolism |
Phylogeny | 17978245 | Reassessment of the phylogenetic relationships of Thiomonas cuprina. | Kelly DP, Uchino Y, Huber H, Amils R, Wood AP | Int J Syst Evol Microbiol | 10.1099/ijs.0.65537-0 | 2007 | Betaproteobacteria/*classification/*genetics/physiology, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genes, rRNA, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species Specificity | Genetics |
28560637 | Characterization of Thiomonas delicata arsenite oxidase expressed in Escherichia coli. | Teoh WK, Salleh FM, Shahir S | 3 Biotech | 10.1007/s13205-017-0740-7 | 2017 | |||
Genetics | 29090447 | Adaptation in toxic environments: comparative genomics of loci carrying antibiotic resistance genes derived from acid mine drainage waters. | Arsene-Ploetze F, Chiboub O, Lievremont D, Farasin J, Freel KC, Fouteau S, Barbe V | Environ Sci Pollut Res Int | 10.1007/s11356-017-0535-8 | 2017 | Acids/pharmacology, Adaptation, Biological/*genetics, Anti-Bacterial Agents/pharmacology, Bacteria/drug effects/genetics, Databases, Genetic, Drug Resistance, Microbial/drug effects/*genetics, *Genomics, Metals, Heavy/pharmacology, *Mining, Waste Water/*microbiology | Pathogenicity |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
6402 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16361) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-16361 | |||
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 | |
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 | |||
86935 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID135996.1 | StrainInfo: A central database for resolving microbial strain identifiers |