Strain identifier

BacDive ID: 17947

Type strain: No

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)

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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

@refmotilityconfidencegram stain
69480yes94.392
69480100negative

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

@refspore formationconfidence
69481no100
69480no99.997

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

Cat1Cat2Cat3
#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

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Thiomonas delicata DSM 16361GCA_900088825scaffoldncbi364030
66792Thiomonas delicata strain DSM 16361364030.3wgspatric364030
66792Thiomonas delicata DSM 163612831796995draftimg364030

GC content

  • @ref: 6402
  • GC-content: 65.1

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes90.792no
flagellatedyes61.063no
gram-positiveno98.353no
anaerobicno98.231no
aerobicyes67.37no
halophileno96.595no
spore-formingno94.46no
glucose-fermentno87.319no
thermophileno96.531yes
glucose-utilno61.271no

External links

@ref: 6402

culture collection no.: DSM 16361, LMG 22795

straininfo link

  • @ref: 86935
  • straininfo: 135996

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny16341463Oxidation 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 PAntonie Van Leeuwenhoek10.1007/s10482-005-9013-22005Arsenites/*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 MicrobiologyMetabolism
Phylogeny17978245Reassessment of the phylogenetic relationships of Thiomonas cuprina.Kelly DP, Uchino Y, Huber H, Amils R, Wood APInt J Syst Evol Microbiol10.1099/ijs.0.65537-02007Betaproteobacteria/*classification/*genetics/physiology, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genes, rRNA, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species SpecificityGenetics
28560637Characterization of Thiomonas delicata arsenite oxidase expressed in Escherichia coli.Teoh WK, Salleh FM, Shahir S3 Biotech10.1007/s13205-017-0740-72017
Genetics29090447Adaptation 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 VEnviron Sci Pollut Res Int10.1007/s11356-017-0535-82017Acids/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/*microbiologyPathogenicity

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
6402Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16361)https://www.dsmz.de/collection/catalogue/details/culture/DSM-16361
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
86935Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID135996.1StrainInfo: A central database for resolving microbial strain identifiers