Thermococcus siculi (DSM 12349, ATCC BAA-270, RG-20)

Name: Thermococcus siculi (DSM 12349, ATCC BAA-270, RG-20)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 16873

Type strain

Strain Designation RG-20

Culture col. no. DSM 12349 ATCC BAA-270 RG-20

NCBI tax ID(s) 72803

Special Collections DSMZ

History DSMZ <- G. Antranikian, Techn. Univ. Hamburg-Harburg; RG-20

Links

Thermococcus siculi RG-20 is an anaerobe archaeon that was isolated from deep-sea thermal vent.

anaerobe genome sequence 16S sequence Archaea

Name and taxonomic classification

SI-ID 44341

ATCC BAA-270,DSM 12349

@ref 20215

Last LPSN update 2026-05-29 08:28:53

Domain Archaea

Phylum Methanobacteriota

Class Thermococci

Order Thermococcales

Family Thermococcaceae

Genus Thermococcus

Species Thermococcus siculi

Full scientific name Thermococcus siculi Grote et al. 2000

Morphology

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
4708	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

Culture temp

@ref	Growth	Type	Temperature (°C)
4708	positive	growth	85

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
4708	anaerobe
125438	anaerobe	90.469
125439	obligate anaerobe	99.751

Spore formation

@ref	Spore formation	Confidence
125439		94.851
125438		90.012

Isolation, sampling and environmental information

Isolation source categories

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

Isolation

@ref	Sample type	Geographic location
4708	deep-sea thermal vent	Mid-Okinawa Trough, southwest Pacific Ocean

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
4708	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	ASM221450v1 assembly for Thermococcus siculi RG-20	complete	GCA_002214505	72803.4	2758568024	72803	99.19

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Thermococcus siculi gene for 16S rRNA, partial sequence, strain:DSM 12349	AB055126	1422	72803
20218	Thermococcus siculi 16S rRNA gene, strain DSM 12349 Type	AJ291808	1326	72803
20218	Thermococcus siculi strain DSM 12349 16S ribosomal RNA gene, partial sequence	AY099185	1442	72803
20218	Thermococcus siculi strain DSM 12349 16S-23S ribosomal RNA intergenic spacer region, complete sequence	AY099221	181	72803
4708	Thermococcus siculi gene for 16S rRNA	AB010893	897	72803
4708	Thermococcus siculi partial 16S rRNA gene, strain DSM 12349	AJ298870	1326	72803

GC content

@ref	GC-content (mol%)	Method
4708	55.8±0.1	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM221450v1 assembly for Thermococcus siculi RG-20
NCBI: GCA_002214505

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate anaerobe	99.75	no
125439	motility	BacteriaNetⓘ	no	73.87	no
125439	gram_stain	BacteriaNetⓘ	negative	75.40	no
125439	spore_formation	BacteriaNetⓘ	no	94.85	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Thermococcus siculi RG-20
NCBI: GCA_002214505.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	69.26	no
125438	anaerobic	anaerobicⓘ	yes	90.47	yes
125438	aerobic	aerobicⓘ	no	83.76	yes
125438	spore-forming	spore-formingⓘ	no	90.01	no
125438	thermophilic	thermophileⓘ	yes	78.61	yes
125438	flagellated	motile2+ⓘ	no	81.46	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Thermococcus siculi sp. nov., a novel hyperthermophilic archaeon isolated from a deep-sea hydrothermal vent at the Mid-Okinawa Trough.	Grote R, Li L, Tamaoka J, Kato C, Horikoshi K, Antranikian G	Extremophiles	10.1007/s007920050099	1999

References

#4708	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 12349
#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 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#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) .
#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 siculi (DSM 12349, ATCC BAA-270, RG-20)

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_002214505

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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