Strain identifier

BacDive ID: 16875

Type strain: Yes

Species: Thermococcus guaymasensis

Strain Designation: TYS

Strain history: F. Canganella TYS.

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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 idMatching level
1432656strain
110164species

strain history

@refhistory
4208<- F. Canganella, strain TYS
67770F. 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

@refnamegrowthlinkcomposition
4208THERMOCOCCUS MEDIUM (DSMZ Medium 806)yeshttps://mediadive.dsmz.de/medium/806Name: 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
4208MARINE THERMOCOCCUS MEDIUM (DSMZ Medium 760)yeshttps://mediadive.dsmz.de/medium/760Name: 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

@refgrowthtypetemperaturerangeconfidence
4208positivegrowth88hyperthermophilic
67770positivegrowth85hyperthermophilic
69480thermophilic99.999

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
4208anaerobe
69480anaerobe99.306

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 99.771

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
4208hydrothermal vent site (2000 m)Gulf of California, Guaymas BasinUSAUSANorth America
67770Guaymas Basin hydrothermal ventGulf of CaliforniaPacific Ocean

isolation source categories

Cat1Cat2Cat3
#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

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Thermococcus guaymasensis strain DSM 11113 16S ribosomal RNA gene, partial sequenceAY0991781432ena110164
20218Thermococcus guaymasensis strain DSM 11113 16S-23S ribosomal RNA intergenic spacer region, complete sequenceAY099214182ena110164
20218Thermococcus guaymasensis strain TYS 16S ribosomal RNA gene, partial sequenceJQ3467621269ena110164
20218Thermococcus guaymasensis 16S rRNA gene, strain DSM 11113Y083851299ena110164

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Thermococcus guaymasensis DSM 11113GCA_000816105completencbi1432656
66792Thermococcus guaymasensis DSM 111132681812990completeimg1432656
66792Thermococcus guaymasensis DSM 111131432656.3completepatric1432656

GC content

  • @ref: 67770
  • GC-content: 46
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno73no
motileno79.942no
flagellatedno95.833no
gram-positiveno95.305no
anaerobicyes99.35no
aerobicno98.402yes
halophileno81.068no
spore-formingno96.491no
thermophileyes100yes
glucose-utilyes78.915no
glucose-fermentno54.656no

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

@idauthorscataloguedoi/urltitlejournalpubmed
4208Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 11113)https://www.dsmz.de/collection/catalogue/details/culture/DSM-11113
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)
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)
85883Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID49036.1StrainInfo: A central database for resolving microbial strain identifiers