Thermococcus gammatolerans (DSM 15229, JCM 11827, EJ3)

Name: Thermococcus gammatolerans (DSM 15229, JCM 11827, EJ3)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 16885

Type strain

Strain Designation EJ3

Culture col. no. DSM 15229 JCM 11827 EJ3

NCBI tax ID(s) 187878

Special Collections DSMZ JCM

History <- E. Jolivet; EJ3 E. Jolivet EJ3.

Links

Thermococcus gammatolerans EJ3 is an anaerobe, hyperthermophilic prokaryote that was isolated from hydrothermal chimney sample.

anaerobe hyperthermophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 101006

DSM 15229,JCM 11827

@ref 20215

Last LPSN update 2026-02-09 11:22:05

Domain Archaea

Phylum Methanobacteriota

Class Thermococci

Order Thermococcales

Family Thermococcaceae

Genus Thermococcus

Species Thermococcus gammatolerans

Full scientific name Thermococcus gammatolerans Jolivet et al. 2003

Morphology

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
5769	MARINE THERMOCOCCUS MEDIUM (DSMZ Medium 760)		Medium recipe at MediaDive	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
5769	YPS MEDIUM (DSMZ Medium 990)		Medium recipe at MediaDive	Name: YPS MEDIUM (DSMZ Medium 990) Composition: Sea Salt 35.0 g/l Elemental sulphur 5.0 g/l Peptone 4.0 g/l PIPES 3.46 g/l Yeast extract 1.0 g/l NH4Cl 0.5 g/l KH2PO4 0.35 g/l Na2S x 9 H2O 0.25 g/l CaCl2 0.2 g/l FeCl3 0.0067 g/l Na2WO4 0.0029 g/l Resazurin 0.0001 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
5769	positive	growth	88	hyperthermophilic
67770	positive	growth	85	hyperthermophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
5769	anaerobe
125439	anaerobe	99.7

Spore formation

@ref	Spore formation	Confidence
125438		91.466

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Hydrothermal vent
#Condition	#Thermophilic (>45°C)	-

Isolation

@ref	Sample type	Geographic location	Latitude	Longitude
5769	hydrothermal chimney sample	Guaymas Basin, 27°01'N and 111°24'W at a depth of 2,616m	27.0167	-111.4 27.0167/-111.4
67770	Chimney from a hydrothermal site in Guaymas Basin

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
5769	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM2236v1 assembly for Thermococcus gammatolerans EJ3 EJ3; DSM 15229	complete	GCA_000022365	593117.10	644736411	593117	99.23

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
5769	Thermococcus gammatolerans 16S ribosomal RNA gene, partial sequence	AF479014	1370		593117

GC content

@ref	GC-content (mol%)	Method
5769	51.3
67770	51.3	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Thermococcus gammatolerans EJ3 EJ3; DSM 15229
NCBI: GCA_000022365

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	86.10	no
125439	motility	BacteriaNetⓘ	no	69.20	no
125439	gram_stain	BacteriaNetⓘ	positive	59.10	no
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	99.70	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Thermococcus gammatolerans EJ3
NCBI: GCA_000022365.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	69.82	no
125438	anaerobic	anaerobicⓘ	yes	81.96	yes
125438	aerobic	aerobicⓘ	no	85.70	yes
125438	spore-forming	spore-formingⓘ	no	91.47	no
125438	thermophilic	thermophileⓘ	yes	76.40	no
125438	flagellated	motile2+ⓘ	no	79.08	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Metabolism	Role of Mn2+ and compatible solutes in the radiation resistance of thermophilic bacteria and archaea.	Webb KM, DiRuggiero J.	Archaea	10.1155/2012/845756	2012
Phylogeny	Thermococcus nautili sp. nov., a hyperthermophilic archaeon isolated from a hydrothermal deep-sea vent.	Gorlas A, Croce O, Oberto J, Gauliard E, Forterre P, Marguet E	Int J Syst Evol Microbiol	10.1099/ijs.0.060376-0	2014
Phylogeny	Thermococcus gammatolerans sp. nov., a hyperthermophilic archaeon from a deep-sea hydrothermal vent that resists ionizing radiation.	Jolivet E, L'Haridon S, Corre E, Forterre P, Prieur D	Int J Syst Evol Microbiol	10.1099/ijs.0.02503-0	2003

References

#5769	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 15229
#20215	Parte, 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 DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 )
#66792	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Thermococcus gammatolerans (DSM 15229, JCM 11827, EJ3)

Name and taxonomic classification

Morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000022365

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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