Strain identifier

BacDive ID: 24653

Type strain: Yes

Species: Thermococcus paralvinellae

Strain Designation: ES1

Strain history: <- J. Holden, UMASS; ES1 <- R. J. Pledger

NCBI tax ID(s): 582419 (species)

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

@ref: 21062

BacDive-ID: 24653

DSM-Number: 27261

keywords: genome sequence, 16S sequence, Archaea, anaerobe, spore-forming, hyperthermophilic, Gram-negative

description: Thermococcus paralvinellae ES1 is an anaerobe, spore-forming, hyperthermophilic archaeon that was isolated from polychaete worm of the genus Paralvinella in a fragment of a black smoker.

NCBI tax id

  • NCBI tax id: 582419
  • Matching level: species

strain history

  • @ref: 21062
  • history: <- J. Holden, UMASS; ES1 <- R. J. Pledger

doi: 10.13145/bacdive24653.20230509.8.1

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 paralvinellae
  • full scientific name: Thermococcus paralvinellae Hensley et al. 2014

@ref: 21062

domain: Archaea

phylum: Euryarchaeota

class: Thermococci

order: Thermococcales

family: Thermococcaceae

genus: Thermococcus

species: Thermococcus paralvinellae

full scientific name: Thermococcus paralvinellae Hensley et al. 2014

strain designation: ES1

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: negative
  • confidence: 99.942

Culture and growth conditions

culture medium

  • @ref: 21062
  • name: MARINE THERMOCOCCUS MEDIUM (DSMZ Medium 760)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/760
  • composition: 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

@refgrowthtypetemperaturerangeconfidence
21062positivegrowth80hyperthermophilic
69480thermophilic99.999

Physiology and metabolism

oxygen tolerance

  • @ref: 69480
  • oxygen tolerance: anaerobe
  • confidence: 98.776

spore formation

@refspore formationconfidence
69481yes100
69480no99.792

Isolation, sampling and environmental information

isolation

  • @ref: 21062
  • sample type: polychaete worm of the genus Paralvinella in a fragment of a black smoker
  • host species: Paralvinella
  • geographic location: north-eastern Pacific Ocean, Endeavour Segment of the Juan de Fuca Ridge at a depth of 2200 m (47° 57' 00'' N 129° 06' 00'' W)
  • country: Canada
  • origin.country: CAN
  • continent: North America
  • latitude: 47.95
  • longitude: -129.1

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Hydrothermal vent
#Host#Invertebrates (Other)#Annelida
#Condition#Thermophilic (>45°C)

Safety information

risk assessment

  • @ref: 21062
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 21062
  • description: Thermococcus paralvinellae strain ES1 16S ribosomal RNA gene, partial sequence
  • accession: U82238
  • length: 1391
  • database: ena
  • NCBI tax ID: 582419

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Thermococcus paralvinellae ES1GCA_000517445completencbi582419
66792Thermococcus paralvinellae ES12558860254completeimg582419

GC content

  • @ref: 21062
  • GC-content: 40.8
  • method: sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes100no
motileno82.74no
flagellatedno96.462no
gram-positiveno97.43no
anaerobicyes98.749no
halophileno70.181no
spore-formingno97.01no
thermophileyes99.741no
glucose-utilyes75.473no
aerobicno97.611no
glucose-fermentno61.936no

External links

@ref: 21062

culture collection no.: DSM 27261, KACC 17923

straininfo link

  • @ref: 88493
  • straininfo: 398398

literature

  • topic: Phylogeny
  • Pubmed-ID: 25082851
  • title: Thermococcus paralvinellae sp. nov. and Thermococcus cleftensis sp. nov. of hyperthermophilic heterotrophs from deep-sea hydrothermal vents.
  • authors: Hensley SA, Jung JH, Park CS, Holden JF
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.066100-0
  • year: 2014
  • mesh: Animals, DNA, Archaeal/genetics, Hydrothermal Vents/*microbiology, Molecular Sequence Data, Pacific Ocean, *Phylogeny, Polychaeta/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Thermococcus/*classification/genetics/isolation & purification
  • topic2: Genetics

Reference

@idauthorstitledoi/urlcatalogue
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
21062Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-27261Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 27261)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
88493Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID398398.1