Strain identifier

BacDive ID: 17950

Type strain: Yes

Species: Thiomonas bhubaneswarensis

Strain Designation: S10

Strain history: S. K. Das S10.

NCBI tax ID(s): 339866 (species)

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General

@ref: 7413

BacDive-ID: 17950

DSM-Number: 18181

keywords: genome sequence, 16S sequence, Bacteria, aerobe, Gram-negative, motile, rod-shaped

description: Thiomonas bhubaneswarensis S10 is an aerobe, Gram-negative, motile bacterium that was isolated from sediment of a hot sulfur spring.

NCBI tax id

  • NCBI tax id: 339866
  • Matching level: species

strain history

@refhistory
7413<- S. K. Das, Inst. Life Sci., Bhubaneswar, India; S10 <- S. K. Das {2004}
67770S. K. Das S10.

doi: 10.13145/bacdive17950.20230509.8.1

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 bhubaneswarensis
  • full scientific name: Thiomonas bhubaneswarensis Panda et al. 2009

@ref: 7413

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Burkholderiales, not assigned to family

genus: Thiomonas

species: Thiomonas bhubaneswarensis

full scientific name: Thiomonas bhubaneswarensis Panda et al. 2009

strain designation: S10

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
29136negative1.73 µm0.43 µmrod-shapedyes
69480negative99.998

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
29136positivegrowth25-45
29136positiveoptimum33.5mesophilic
67770positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
29136positivegrowth6.0-8.5alkaliphile
29136positiveoptimum7.72

Physiology and metabolism

oxygen tolerance

  • @ref: 29136
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
29136no
69481no100
69480no100

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2913616449alanine+carbon source
2913628757fructose+carbon source
2913629987glutamate+carbon source
2913626271proline+carbon source
2913615361pyruvate+carbon source
2913617822serine+carbon source
2913617632nitrate+reduction

enzymes

@refvalueactivityec
29136catalase+1.11.1.6
29136cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
7413sediment of a hot sulfur springOrissa, Bhubaneswar, AtriIndiaINDAsia
67770Sediment of a hot sulfur springAtri, BhubaneswarIndiaINDAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Sediment
#Environmental#Aquatic#Thermal spring
#Condition#Sulfuric
#Condition#Thermophilic (>45°C)

taxonmaps

  • @ref: 69479
  • File name: preview.99_3669.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_1;96_1616;97_1933;98_2377;99_3669&stattab=map
  • Last taxonomy: Thiomonas bhubaneswarensis
  • 16S sequence: DQ092334
  • Sequence Identity:
  • Total samples: 76
  • soil counts: 5
  • aquatic counts: 66
  • animal counts: 5

Safety information

risk assessment

  • @ref: 7413
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 7413
  • description: Thiomonas bhubaneswarensis strain S10 16S ribosomal RNA gene, partial sequence
  • accession: DQ092334
  • length: 1440
  • database: ena
  • NCBI tax ID: 339866

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Thiomonas bhubaneswarensis strain DSM 18181339866.4wgspatric339866
66792Thiomonas bhubaneswarensis DSM 181812615840605draftimg339866
67770Thiomonas bhubaneswarensis DSM 18181GCA_001517285scaffoldncbi339866
67770Thiomonas bhubaneswarensis DSM 18181GCA_001418255scaffoldncbi339866

GC content

@refGC-contentmethod
741364.8high performance liquid chromatography (HPLC)
2913664.8

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
gram-positiveno98.195yes
anaerobicno98.996yes
halophileno94.585no
spore-formingno95.832yes
glucose-utilno71.325no
motileyes91.135yes
thermophileno93.437yes
aerobicyes82.895no
flagellatedyes59.65no
glucose-fermentno88.426no

External links

@ref: 7413

culture collection no.: DSM 18181, JCM 14806

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19605731Thiomonas bhubaneswarensis sp. nov., an obligately mixotrophic, moderately thermophilic, thiosulfate-oxidizing bacterium.Panda SK, Jyoti V, Bhadra B, Nayak KC, Shivaji S, Rainey FA, Das SKInt J Syst Evol Microbiol10.1099/ijs.0.007120-02009Aerobiosis, Bacterial Typing Techniques, Base Composition, Betaproteobacteria/*classification/genetics/*isolation & purification/physiology, Catalase/metabolism, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids, Geologic Sediments/*microbiology, Hot Springs, Hydrogen-Ion Concentration, India, Locomotion, Molecular Sequence Data, Nucleic Acid Hybridization, Oxidation-Reduction, Oxidoreductases/metabolism, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Temperature, Thiosulfates/*metabolismMetabolism
Metabolism27832308Mechanism of electron transport during thiosulfate oxidation in an obligately mixotrophic bacterium Thiomonas bhubaneswarensis strain S10 (DSM 18181(T)).Narayan KD, Sabat SC, Das SKAppl Microbiol Biotechnol10.1007/s00253-016-7958-x2016Betaproteobacteria/genetics/growth & development/*metabolism, Cytochromes c/genetics/metabolism, *Electron Transport/genetics, Genome, Bacterial, Multienzyme Complexes/metabolism, Oxidation-Reduction, Oxidoreductases/metabolism, Sequence Analysis, Succinate Dehydrogenase/metabolism, Thiosulfates/*metabolismGenetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
7413Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18181)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18181
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
29136Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2556128776041
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
69479João 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
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