Thermococcus kodakarensis (ATCC BAA-918, JCM 12380)

Name: Thermococcus kodakarensis (ATCC BAA-918, JCM 12380)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 161223

Type strain

Culture col. no. ATCC BAA-918 JCM 12380

NCBI tax ID(s) 311400

Special Collections JCM

History JCM <-- T. Imanaka KOD1.

Links

Thermococcus kodakarensis JCM 12380 is an archaeon that was isolated from Solfatara at a wharf on Kodakara Island.

genome sequence 16S sequence Archaea

Name and taxonomic classification

SI-ID 139018

ATCC BAA-918,JCM 12380

@ref 20215

Last LPSN update 2026-05-29 08:44:38

Domain Archaea

Phylum Methanobacteriota

Class Thermococci

Order Thermococcales

Family Thermococcaceae

Genus Thermococcus

Species Thermococcus kodakarensis

Full scientific name Thermococcus kodakarensis corrig. Atomi et al. 2005

Synonyms (2)

Thermococcus kodakaraensis
"Pyrococcus kodakaraensis"

Morphology

Culture and growth conditions

Culture temp

@ref	Growth	Type	Temperature (°C)
67770	positive	growth	85

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	anaerobe	99.346

Spore formation

@ref	Spore formation	Confidence
125439		98.244

Isolation, sampling and environmental information

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
67770	Solfatara at a wharf on Kodakara Island	Kagoshima	Japan	JPN	Asia

Taxonmaps

69479

Global distribution of 16S sequence D38650 (>99% sequence identity) for Thermococcus from Microbeatlas

Aquatic Samples	25
Soil Samples	2
Animal Samples	0
Plant Samples	0
Total Samples	27

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM996v1 assembly for Thermococcus kodakarensis KOD1	complete	GCA_000009965	69014.16	638154520	69014	99.41

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
67770	Thermococcus kodakaraensis genes for 16S rRNA, 23S rRNA, complete and partial sequences	D38650	1789		69014

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM996v1 assembly for Thermococcus kodakarensis KOD1
NCBI: GCA_000009965

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	99.35	no
125439	motility	BacteriaNetⓘ	no	81.04	no
125439	gram_stain	BacteriaNetⓘ	negative	54.02	no
125439	spore_formation	BacteriaNetⓘ	no	98.24	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Metabolism	A novel bifunctional aldehyde/alcohol dehydrogenase catalyzing reduction of acetyl-CoA to ethanol at temperatures up to 95 °C.	Wang Q, Sha C, Wang H, Ma K, Wiegle J, Abomohra AE, Shao W.	Sci Rep	10.1038/s41598-020-80159-7	2021
Metabolism	Binding and transport of D-aspartate by the glutamate transporter homolog Glt_Tk.	Arkhipova V, Trinco G, Ettema TW, Jensen S, Slotboom DJ, Guskov A.	Elife	10.7554/elife.45286	2019
Metabolism	An energy-conserving reaction in amino acid metabolism catalyzed by arginine synthetase.	Michimori Y, Yokooji Y, Atomi H.	Proc Natl Acad Sci U S A	10.1073/pnas.2401313121	2024
	Precipitation of greigite and pyrite induced by Thermococcales: an advantage to live in Fe- and S-rich environments?	Gorlas A, Mariotte T, Morey L, Truong C, Bernard S, Guigner JM, Oberto J, Baudin F, Landrot G, Baya C, Le Pape P, Morin G, Forterre P, Guyot F.	Environ Microbiol	10.1111/1462-2920.15915	2022
	Production of carbon-containing pyrite spherules induced by hyperthermophilic Thermococcales: a biosignature?	Truong C, Bernard S, Le Pape P, Morin G, Baya C, Merrot P, Gorlas A, Guyot F.	Front Microbiol	10.3389/fmicb.2023.1145781	2023
Pathogenicity	Copper-Nanocoated Ultra-Small Cells in Grain Boundaries Inside an Extinct Vent Chimney.	Takamiya H, Kouduka M, Furutani H, Mukai H, Nakagawa K, Yamamoto T, Kato S, Kodama Y, Tomioka N, Ito M, Suzuki Y.	Front Microbiol	10.3389/fmicb.2022.864205	2022
	Morphology of the archaellar motor and associated cytoplasmic cone in Thermococcus kodakaraensis.	Briegel A, Oikonomou CM, Chang YW, Kjaer A, Huang AN, Kim KW, Ghosal D, Nguyen HH, Kenny D, Ogorzalek Loo RR, Gunsalus RP, Jensen GJ.	EMBO Rep	10.15252/embr.201744070	2017
	Thermococcus kodakarensis modulates its polar membrane lipids and elemental composition according to growth stage and phosphate availability.	Meador TB, Gagen EJ, Loscar ME, Goldhammer T, Yoshinaga MY, Wendt J, Thomm M, Hinrichs KU.	Front Microbiol	10.3389/fmicb.2014.00010	2014
	Biogeography and evolution of Thermococcus isolates from hydrothermal vent systems of the Pacific.	Price MT, Fullerton H, Moyer CL.	Front Microbiol	10.3389/fmicb.2015.00968	2015
Enzymology	Comparative analysis of the catalytic components in the archaeal dye-linked L-proline dehydrogenase complexes.	Kawakami R, Noguchi C, Higashi M, Sakuraba H, Ohshima T	Appl Microbiol Biotechnol	10.1007/s00253-012-4201-2	2012

References

#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 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#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.: MicrobeAtlas 1.0 beta .
#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 kodakarensis (ATCC BAA-918, JCM 12380)

Name and taxonomic classification

Morphology

Culture and growth conditions

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Isolation, sampling and environmental information

Isolation

Taxonmaps

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_000009965

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

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