Strain identifier

BacDive ID: 13659

Type strain: Yes

Species: Salipiger thiooxidans

Strain history: <- D. Y. Sorokin; CHLG 1

NCBI tax ID(s): 282683 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 3821

BacDive-ID: 13659

DSM-Number: 10146

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative

description: Salipiger thiooxidans DSM 10146 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from sea water.

NCBI tax id

  • NCBI tax id: 282683
  • Matching level: species

strain history

  • @ref: 3821
  • history: <- D. Y. Sorokin; CHLG 1

doi: 10.13145/bacdive13659.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Rhodobacterales
  • family: Roseobacteraceae
  • genus: Salipiger
  • species: Salipiger thiooxidans
  • full scientific name: Salipiger thiooxidans (Sorokin et al. 2006) Wirth and Whitman 2018
  • synonyms

    • @ref: 20215
    • synonym: Citreicella thiooxidans

@ref: 3821

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhodobacterales

family: Rhodobacteraceae

genus: Salipiger

species: Salipiger thiooxidans

full scientific name: Salipiger thiooxidans (Sorokin et al. 2006) Wirth and Whitman 2018

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: negative
  • confidence: 99.997

colony morphology

  • @ref: 3821
  • incubation period: 2-3 days

Culture and growth conditions

culture medium

  • @ref: 3821
  • name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/514
  • composition: Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water

culture temp

  • @ref: 3821
  • growth: positive
  • type: growth
  • temperature: 28
  • range: mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 3821
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.991

Isolation, sampling and environmental information

isolation

  • @ref: 3821
  • sample type: sea water
  • geographic location: Black Sea
  • country: Russia
  • origin.country: RUS
  • continent: Europe

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #Marine

taxonmaps

  • @ref: 69479
  • File name: preview.99_5303.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_19;96_601;97_704;98_3951;99_5303&stattab=map
  • Last taxonomy: Salipiger thiooxidans subclade
  • 16S sequence: AY639887
  • Sequence Identity:
  • Total samples: 1082
  • soil counts: 45
  • aquatic counts: 816
  • animal counts: 212
  • plant counts: 9

Safety information

risk assessment

  • @ref: 3821
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 20218
  • description: Citricella thiooxidans strain CHLG 1 16S ribosomal RNA gene, partial sequence
  • accession: AY639887
  • length: 1369
  • database: ena
  • NCBI tax ID: 282683

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Salipiger thiooxidans DSM 10146GCA_900102075scaffoldncbi282683
66792Salipiger thiooxidans strain DSM 10146282683.6wgspatric282683
66792Salipiger thiooxidans DSM 101462615840719draftimg282683

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno74.769no
flagellatedno87.374no
gram-positiveno98.609no
anaerobicno94.603no
aerobicyes86.319no
halophileyes62.435no
spore-formingno94.864no
glucose-fermentno90.019no
thermophileno98.892yes
glucose-utilyes91.054no

External links

@ref: 3821

culture collection no.: DSM 10146, CHLG 1, UNIQEM 228

straininfo link

  • @ref: 82842
  • straininfo: 361245

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny16261857Citreicella thiooxidans gen. nov., sp. nov., a novel lithoheterotrophic sulfur-oxidizing bacterium from the Black Sea.Sorokin DY, Tourova TP, Muyzer GSyst Appl Microbiol10.1016/j.syapm.2005.05.0062005Alphaproteobacteria/*classification/*physiology, Base Composition, Culture Media, Genome, Bacterial, Hydrogen-Ion Concentration, *Marine Biology, Molecular Sequence Data, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Russia, Sodium Chloride, Species Specificity, Sulfides/metabolism, Sulfur/*metabolism, Temperature, Thiosulfates/metabolism, *Water MicrobiologyGenetics
Phylogeny20418414Citreicella marina sp. nov., isolated from deep-sea sediment.Lai Q, Fu Y, Wang J, Chen S, Zhong H, Sun F, Shao ZInt J Syst Evol Microbiol10.1099/ijs.0.022376-02010Base Composition, Catalase/metabolism, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Gelatin/metabolism, Geologic Sediments/*microbiology, Indian Ocean, Molecular Sequence Data, Nucleic Acid Hybridization, Oxidoreductases/metabolism, Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodobacteraceae/*classification/genetics/*isolation & purification/physiology, Sequence Analysis, DNA, Sodium Chloride/metabolism, Temperature, Thiosulfates/metabolismMetabolism

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
3821Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 10146)https://www.dsmz.de/collection/catalogue/details/culture/DSM-10146
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
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)
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
82842Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID361245.1StrainInfo: A central database for resolving microbial strain identifiers