Thermococcus profundus (DSM 9503, ATCC 51592, JCM 9378)

Name: Thermococcus profundus (DSM 9503, ATCC 51592, JCM 9378)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 16865

Type strain

Strain Designation DT5432

Culture col. no. DSM 9503 ATCC 51592 JCM 9378 DT5432 CIP 105121

NCBI tax ID(s) 49899

Special Collections DSMZ JCM CIP

History DSMZ <- JCM <- K. Kobayashi, DT5432 JCM <-- T. Kobayashi DT5432.

Links

Thermococcus profundus DT5432 is an anaerobe archaeon that was isolated from deep sea hydrothermal vent, depth 1.395 m in the Middle Okinawa Trench .

anaerobe genome sequence 16S sequence Archaea

Name and taxonomic classification

SI-ID 43067

ATCC 51592,JCM 9378,DSM 9503,CIP 105121

@ref 20215

Last LPSN update 2026-05-29 08:28:52

Domain Archaea

Phylum Methanobacteriota

Class Thermococci

Order Thermococcales

Family Thermococcaceae

Genus Thermococcus

Species Thermococcus profundus

Full scientific name Thermococcus profundus Kobayashi and Horikoshi 1995

Morphology

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
3616	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
3616	THERMOCOCCUS PROFUNDUS MEDIUM (DSMZ Medium 673)		Medium recipe at MediaDive	Name: THERMOCOCCUS PROFUNDUS MEDIUM (DSMZ Medium 673) Composition: NaCl 25.0 g/l Peptone 5.0 g/l Sulfur 5.0 g/l (NH4)2SO4 1.3 g/l Yeast extract 1.0 g/l KH2PO4 0.28 g/l MgSO4 x 7 H2O 0.25 g/l CaCl2 x 2 H2O 0.07 g/l FeCl3 x 6 H2O 0.02 g/l Na2B4O7 x 10 H2O 0.0045 g/l MnCl2 x 4 H2O 0.0018 g/l Resazurin 0.001 g/l ZnSO4 x 7 H2O 0.00022 g/l CuCl2 x 2 H2O 5e-05 g/l Na2MoO4 x 2 H2O 3e-05 g/l VOSO4 x 2 H2O 3e-05 g/l CoSO4 x 7 H2O 1e-05 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
3616	positive	growth	80
67770	positive	growth	80

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
3616	anaerobe
125439	obligate anaerobe	99.23

Spore formation

@ref	Spore formation	Confidence
125439		93.014

Compound production

@ref	Compound	Excreted
67770	Extracellular amylase

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
3616	deep sea hydrothermal vent, depth 1.395 m in the Middle Okinawa Trench (27°33'N, 126°58'E)
67770	Hydrothermal vent at the Mid-Okinawa Trough

Taxonmaps

69479

Global distribution of 16S sequence Z75233 (>99% sequence identity) for Thermococcus from Microbeatlas

Aquatic Samples	9
Soil Samples	0
Animal Samples	0
Plant Samples	0
Total Samples	9

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
3616	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
67770	ASM221458v1 assembly for Thermococcus profundus DT 5432	complete	GCA_002214585	49899.5	2758568027	49899	99.13

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Thermococcus profundus strain DSM 9503 16S ribosomal RNA gene, partial sequence	AY099184	1447	49899
20218	Thermococcus profundus strain DSM 9503 16S-23S ribosomal RNA intergenic spacer region, complete sequence	AY099220	181	49899
20218	T.profundus 16S rRNA and 23S rRNA genes	Z75233	1906	49899

GC content

@ref	GC-content (mol%)	Method
67770	52.5	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: ASM221458v1 assembly for Thermococcus profundus DT 5432
NCBI: GCA_002214585

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate anaerobe	99.23	no
125439	gram_stain	BacteriaNetⓘ	negative	58.00	no
125439	motility	BacteriaNetⓘ	no	75.41	no
125439	spore_formation	BacteriaNetⓘ	no	93.01	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Enzymology	Highly stable L-lysine 6-dehydrogenase from the thermophile Geobacillus stearothermophilus isolated from a Japanese hot spring: characterization, gene cloning and sequencing, and expression.	Heydari M, Ohshima T, Nunoura-Kominato N, Sakuraba H.	Appl Environ Microbiol	10.1128/aem.70.2.937-942.2004	2004
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
Enzymology	Purification, characterization, and application of a novel dye-linked L-proline dehydrogenase from a hyperthermophilic archaeon, Thermococcus profundus.	Sakuraba H, Takamatsu Y, Satomura T, Kawakami R, Ohshima T	Appl Environ Microbiol	10.1128/AEM.67.4.1470-1475.2001	2001
Enzymology	Purification and Properties of Extracellular Amylase from the Hyperthermophilic Archaeon Thermococcus profundus DT5432.	Chung YC, Kobayashi T, Kanai H, Akiba T, Kudo T	Appl Environ Microbiol	10.1128/aem.61.4.1502-1506.1995	1995

References

#3616	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 9503
#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 )
#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 profundus (DSM 9503, ATCC 51592, JCM 9378)

Name and taxonomic classification

Morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Compound production

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_002214585

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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