Strain identifier
BacDive ID: 6114
Type strain:
Species: Sulfurimonas autotrophica
Strain Designation: OK10
Strain history: F. Inagaki OK10.
NCBI tax ID(s): 563040 (strain), 202747 (species)
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 id | Matching level |
---|---|
202747 | species |
563040 | strain |
strain history
@ref | history |
---|---|
6277 | <- F. Inagaki; OK10 |
67770 | F. 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
@ref | motility | confidence | gram stain |
---|---|---|---|
69480 | yes | 94.235 | |
69480 | 100 | negative |
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
@ref | growth | type | temperature | range |
---|---|---|---|---|
6277 | positive | growth | 24 | psychrophilic |
67770 | positive | growth | 24 | psychrophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 6277
- oxygen tolerance: microaerophile
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.992 |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | latitude | longitude |
---|---|---|---|---|---|---|---|
6277 | deep-sea hydrothermal sediments | Mid-Okinawa Through hydrothermal field, Hatoma Knoll | Japan | JPN | Asia | 24.85 | 123.85 |
67770 | Deep-sea sediments at the Hatoma Knoll in the Mid-Okinawa Trough hydrothermal field |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#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
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Sulfurimonas autotrophica DSM 16294 | GCA_000147355 | complete | ncbi | 563040 |
66792 | Sulfurimonas autotrophica DSM 16294 | 563040.3 | complete | patric | 563040 |
66792 | Sulfurimonas autotrophica OK10, DSM 16294 | 648028058 | complete | img | 563040 |
GC content
@ref | GC-content | method |
---|---|---|
6277 | 35.2 | |
67770 | 35.2 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | yes | 83.064 | no |
flagellated | yes | 56.582 | no |
gram-positive | no | 98.89 | no |
anaerobic | no | 64.964 | yes |
aerobic | no | 96.252 | yes |
halophile | no | 81.233 | no |
spore-forming | no | 94.261 | no |
thermophile | no | 76.28 | yes |
glucose-util | no | 66.008 | no |
glucose-ferment | no | 88.923 | no |
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
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
6277 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16294) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-16294 | |||
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) | |||
66793 | Mukherjee et al. | 10.1038/nbt.3886 | GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life | 35: 676-683 2017 | 28604660 | |
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 | |
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
69479 | João 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 | |||
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 | |||
75601 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID128022.1 | StrainInfo: A central database for resolving microbial strain identifiers |