Strain identifier

BacDive ID: 6114

Type strain: Yes

Species: Sulfurimonas autotrophica

Strain Designation: OK10

Strain history: F. Inagaki OK10.

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

@ref: 6277

BacDive-ID: 6114

DSM-Number: 16294

keywords: genome sequence, 16S sequence, Bacteria, microaerophile, psychrophilic, motile

description: Sulfurimonas autotrophica OK10 is a microaerophile, psychrophilic, motile bacterium that was isolated from deep-sea hydrothermal sediments.

NCBI tax id

NCBI tax idMatching level
202747species
563040strain

strain history

@refhistory
6277<- F. Inagaki; OK10
67770F. Inagaki OK10.

doi: 10.13145/bacdive6114.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Epsilonproteobacteria
  • order: Campylobacterales
  • family: Helicobacteraceae
  • genus: Sulfurimonas
  • species: Sulfurimonas autotrophica
  • full scientific name: Sulfurimonas autotrophica Inagaki et al. 2003

@ref: 6277

domain: Bacteria

phylum: Proteobacteria

class: Epsilonproteobacteria

order: Campylobacterales

family: Helicobacteraceae

genus: Sulfurimonas

species: Sulfurimonas autotrophica

full scientific name: Sulfurimonas autotrophica Inagaki et al. 2003

strain designation: OK10

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480yes94.235
69480100negative

multimedia

  • @ref: 66793
  • multimedia content: EM_DSM_16294_1.jpg
  • caption: electron microscopic image
  • intellectual property rights: © HZI/Manfred Rohde

Culture and growth conditions

culture medium

  • @ref: 6277
  • name: SULFURIMONAS MJ MEDIUM (DSMZ Medium 1011)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1011
  • composition: Name: SULFURIMONAS MJ MEDIUM (DSMZ Medium 1011) Composition: MgCl2 x 6 H2O 4.13452 g/l NaHCO3 1.48368 g/l Na2S2O3 x 5 H2O 1.48368 g/l KCl 0.326409 g/l NH4Cl 0.24728 g/l K2HPO4 0.138477 g/l MgSO4 x 7 H2O 0.0296736 g/l Nitrilotriacetic acid 0.0148368 g/l Fe(NH4)2(SO4)2 x 6 H2O 0.0098912 g/l NaCl 0.0098912 g/l MnSO4 x H2O 0.0049456 g/l CoSO4 x 7 H2O 0.00178042 g/l ZnSO4 x 7 H2O 0.00178042 g/l CaCl2 x 2 H2O 0.00098912 g/l FeSO4 x 7 H2O 0.00098912 g/l NiCl2 x 6 H2O 0.000296736 g/l AlK(SO4)2 x 12 H2O 0.000197824 g/l CuSO4 x 5 H2O 9.8912e-05 g/l Pyridoxine hydrochloride 9.8912e-05 g/l H3BO3 9.8912e-05 g/l Na2MoO4 x 2 H2O 9.8912e-05 g/l p-Aminobenzoic acid 4.9456e-05 g/l (DL)-alpha-Lipoic acid 4.9456e-05 g/l Calcium D-(+)-pantothenate 4.9456e-05 g/l Nicotinic acid 4.9456e-05 g/l Riboflavin 4.9456e-05 g/l Thiamine HCl 4.9456e-05 g/l Folic acid 1.97824e-05 g/l Biotin 1.97824e-05 g/l Na2WO4 x 2 H2O 3.95648e-06 g/l Na2SeO3 x 5 H2O 2.96736e-06 g/l Vitamin B12 9.8912e-07 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
6277positivegrowth24psychrophilic
67770positivegrowth24psychrophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 6277
  • oxygen tolerance: microaerophile

spore formation

@refspore formationconfidence
69481no100
69480no99.992

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
6277deep-sea hydrothermal sedimentsMid-Okinawa Through hydrothermal field, Hatoma KnollJapanJPNAsia24.85123.85
67770Deep-sea sediments at the Hatoma Knoll in the Mid-Okinawa Trough hydrothermal field

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Environmental#Aquatic#Sediment

taxonmaps

  • @ref: 69479
  • File name: preview.99_1258.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_133;96_730;97_853;98_994;99_1258&stattab=map
  • Last taxonomy: Sulfurimonas autotrophica subclade
  • 16S sequence: AB088431
  • Sequence Identity:
  • Total samples: 1491
  • soil counts: 81
  • aquatic counts: 1372
  • animal counts: 25
  • plant counts: 13

Safety information

risk assessment

  • @ref: 6277
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 6277
  • description: Sulfurimonas autotrophica gene for 16S rRNA, partial sequence, strain:OK10
  • accession: AB088431
  • length: 1437
  • database: ena
  • NCBI tax ID: 563040

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Sulfurimonas autotrophica DSM 16294GCA_000147355completencbi563040
66792Sulfurimonas autotrophica DSM 16294563040.3completepatric563040
66792Sulfurimonas autotrophica OK10, DSM 16294648028058completeimg563040

GC content

@refGC-contentmethod
627735.2
6777035.2high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes83.064no
flagellatedyes56.582no
gram-positiveno98.89no
anaerobicno64.964yes
aerobicno96.252yes
halophileno81.233no
spore-formingno94.261no
thermophileno76.28yes
glucose-utilno66.008no
glucose-fermentno88.923no

External links

@ref: 6277

culture collection no.: DSM 16294, ATCC BAA 671, JCM 11897

straininfo link

  • @ref: 75601
  • straininfo: 128022

literature

  • topic: Phylogeny
  • Pubmed-ID: 14657107
  • title: Sulfurimonas autotrophica gen. nov., sp. nov., a novel sulfur-oxidizing epsilon-proteobacterium isolated from hydrothermal sediments in the Mid-Okinawa Trough.
  • authors: Inagaki F, Takai K, Kobayashi H, Nealson KH, Horikoshi K
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.02682-0
  • year: 2003
  • mesh: Campylobacter/*classification/isolation & purification, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Epsilonproteobacteria/*classification/isolation & purification, Geologic Sediments/*microbiology, Hot Temperature, Japan, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sulfur/metabolism, Thiosulfates/metabolism, Water Microbiology
  • topic2: Enzymology

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
6277Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16294)https://www.dsmz.de/collection/catalogue/details/culture/DSM-16294
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)
66793Mukherjee et al.10.1038/nbt.3886GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life 35: 676-683 201728604660
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
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
75601Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID128022.1StrainInfo: A central database for resolving microbial strain identifiers