Strain identifier
BacDive ID: 16875
Type strain:
Species: Thermococcus guaymasensis
Strain Designation: TYS
Strain history: F. Canganella TYS.
NCBI tax ID(s): 1432656 (strain), 110164 (species)
General
@ref: 4208
BacDive-ID: 16875
DSM-Number: 11113
keywords: genome sequence, 16S sequence, Archaea, anaerobe, hyperthermophilic, Gram-negative
description: Thermococcus guaymasensis TYS is an anaerobe, hyperthermophilic, Gram-negative archaeon that was isolated from hydrothermal vent site .
NCBI tax id
NCBI tax id | Matching level |
---|---|
1432656 | strain |
110164 | species |
strain history
@ref | history |
---|---|
4208 | <- F. Canganella, strain TYS |
67770 | F. Canganella TYS. |
doi: 10.13145/bacdive16875.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/archaea
- keyword: phylum/methanobacteriota
- domain: Archaea
- phylum: Methanobacteriota
- class: Thermococci
- order: Thermococcales
- family: Thermococcaceae
- genus: Thermococcus
- species: Thermococcus guaymasensis
- full scientific name: Thermococcus guaymasensis Canganella et al. 1998
@ref: 4208
domain: Archaea
phylum: Euryarchaeota
class: Thermococci
order: Thermococcales
family: Thermococcaceae
genus: Thermococcus
species: Thermococcus guaymasensis
full scientific name: Thermococcus guaymasensis Canganella et al. 1998
strain designation: TYS
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.885
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
4208 | THERMOCOCCUS MEDIUM (DSMZ Medium 806) | yes | https://mediadive.dsmz.de/medium/806 | Name: THERMOCOCCUS MEDIUM (DSMZ Medium 806) Composition: Sulphur 5.0 g/l MgCl2 x 2 H2O 2.7 g/l Trypticase 1.0 g/l Yeast extract 1.0 g/l NaHCO3 1.0 g/l L-Cysteine HCl x H2O 0.5 g/l Na2S x 9 H2O 0.5 g/l KCl 0.33 g/l NH4Cl 0.25 g/l K2HPO4 0.14 g/l MgSO4 x 7 H2O 0.03 g/l Nitrilotriacetic acid 0.015 g/l NaCl 0.01 g/l MnSO4 x H2O 0.005 g/l CoSO4 x 7 H2O 0.0018 g/l ZnSO4 x 7 H2O 0.0018 g/l Resazurin 0.001 g/l CaCl2 x 2 H2O 0.001 g/l FeSO4 x 7 H2O 0.001 g/l NiCl2 x 6 H2O 0.0003 g/l AlK(SO4)2 x 12 H2O 0.0002 g/l CuSO4 x 5 H2O 0.0001 g/l H3BO3 0.0001 g/l Na2MoO4 x 2 H2O 0.0001 g/l Na2WO4 x 2 H2O 4e-06 g/l Na2SeO3 x 5 H2O 3e-06 g/l Na2SeO3 1e-06 g/l Distilled water |
4208 | MARINE THERMOCOCCUS MEDIUM (DSMZ Medium 760) | yes | https://mediadive.dsmz.de/medium/760 | Name: MARINE THERMOCOCCUS MEDIUM (DSMZ Medium 760) 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 | growth | type | temperature | range | confidence |
---|---|---|---|---|---|
4208 | positive | growth | 88 | hyperthermophilic | |
67770 | positive | growth | 85 | hyperthermophilic | |
69480 | thermophilic | 99.999 |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance | confidence |
---|---|---|
4208 | anaerobe | |
69480 | anaerobe | 99.306 |
spore formation
- @ref: 69480
- spore formation: no
- confidence: 99.771
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent |
---|---|---|---|---|---|
4208 | hydrothermal vent site (2000 m) | Gulf of California, Guaymas Basin | USA | USA | North America |
67770 | Guaymas Basin hydrothermal vent | Gulf of California | Pacific Ocean |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Hydrothermal vent |
#Condition | #Thermophilic (>45°C) |
taxonmaps
- @ref: 69479
- File name: preview.99_187110.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17827;96_68785;97_89427;98_121709;99_187110&stattab=map
- Last taxonomy: Thermococcus
- 16S sequence: AY099178
- Sequence Identity:
- Total samples: 27
- soil counts: 2
- aquatic counts: 25
Safety information
risk assessment
- @ref: 4208
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Thermococcus guaymasensis strain DSM 11113 16S ribosomal RNA gene, partial sequence | AY099178 | 1432 | ena | 110164 |
20218 | Thermococcus guaymasensis strain DSM 11113 16S-23S ribosomal RNA intergenic spacer region, complete sequence | AY099214 | 182 | ena | 110164 |
20218 | Thermococcus guaymasensis strain TYS 16S ribosomal RNA gene, partial sequence | JQ346762 | 1269 | ena | 110164 |
20218 | Thermococcus guaymasensis 16S rRNA gene, strain DSM 11113 | Y08385 | 1299 | ena | 110164 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Thermococcus guaymasensis DSM 11113 | GCA_000816105 | complete | ncbi | 1432656 |
66792 | Thermococcus guaymasensis DSM 11113 | 2681812990 | complete | img | 1432656 |
66792 | Thermococcus guaymasensis DSM 11113 | 1432656.3 | complete | patric | 1432656 |
GC content
- @ref: 67770
- GC-content: 46
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 73 | no |
motile | no | 79.942 | no |
flagellated | no | 95.833 | no |
gram-positive | no | 95.305 | no |
anaerobic | yes | 99.35 | no |
aerobic | no | 98.402 | yes |
halophile | no | 81.068 | no |
spore-forming | no | 96.491 | no |
thermophile | yes | 100 | yes |
glucose-util | yes | 78.915 | no |
glucose-ferment | no | 54.656 | no |
External links
@ref: 4208
culture collection no.: DSM 11113, JCM 10136
straininfo link
- @ref: 85883
- straininfo: 49036
literature
- topic: Phylogeny
- Pubmed-ID: 9828419
- title: Thermococcus guaymasensis sp. nov. and Thermococcus aggregans sp. nov., two novel thermophilic archaea isolated from the Guaymas Basin hydrothermal vent site.
- authors: Canganella F, Jones WJ, Gambacorta A, Antranikian G
- journal: Int J Syst Bacteriol
- DOI: 10.1099/00207713-48-4-1181
- year: 1998
- mesh: DNA, Archaeal/chemistry, DNA, Ribosomal/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Pacific Ocean, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species Specificity, Terminology as Topic, Thermococcus/*classification/cytology/isolation & purification/physiology, *Water Microbiology
- topic2: Genetics
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
4208 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 11113) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-11113 | |||
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 | |||
20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
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) | |||
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) | |||
85883 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID49036.1 | StrainInfo: A central database for resolving microbial strain identifiers |