Thermococcus peptonophilus (DSM 10343, JCM 9653, OG-1)

Name: Thermococcus peptonophilus (DSM 10343, JCM 9653, OG-1)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 16868

Type strain

Strain Designation OG-1

Culture col. no. DSM 10343 JCM 9653 OG-1 ATCC 700098 CIP 104782

NCBI tax ID(s) 523851 53952

Special Collections DSMZ JCM CIP

History <- JCM C. Kato; JAMSTEC, Japan; OG1.

Links

Thermococcus peptonophilus OG-1 is an anaerobe, hyperthermophilic prokaryote that was isolated from deep-sea hydrothermal vent.

anaerobe hyperthermophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 43770

ATCC 700098,JCM 9653,DSM 10343,CIP 104782

@ref 20215

Last LPSN update 2025-12-16 09:50:57

Domain Methanobacteriati

Phylum Methanobacteriota

Class Thermococci

Order Thermococcales

Family Thermococcaceae

Genus Thermococcus

Species Thermococcus peptonophilus

Full scientific name Thermococcus peptonophilus González et al. 1996

BacDive ID	Other strains from **Thermococcus peptonophilus** (1)	Type strain
166050	T. peptonophilus JCM 9654

Morphology

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
3913	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
3913	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)	Range
3913	positive	growth	85	hyperthermophilic
67770	positive	growth	85	hyperthermophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
3913	anaerobe
125439	anaerobe	99.8

Spore formation

@ref	Spore formation	Confidence
125438		91.158

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
3913	deep-sea hydrothermal vent
67770	Deep-sea hydrothermal vent in the western Pacific Ocean

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
3913	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	ASM159243v1 assembly for Thermococcus peptonophilus OG-1	complete	GCA_001592435	53952.4	2687453162	53952	98.55
66792	ASM131590v1 assembly for Thermococcus peptonophilus OG-1 = JCM 9653	contig	GCA_001315905	523851.4	2681813028	523851	28.64

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Thermococcus peptonophilus gene for 16S rRNA, partial sequence	AB033625	788	523851
20218	Thermococcus peptonophilus gene for 16S rRNA, partial sequence, strain:JCM 9653	AB055125	1423	523851
20218	Thermococcus peptonophilus 16S rRNA gene, strain DSM 10343 Type	AJ291810	1320	523851
20218	Thermococcus peptonophilus strain DSM 10343 16S ribosomal RNA gene, partial sequence	AY099183	1445	523851
20218	Thermococcus peptonophilus strain DSM 10343 16S-23S ribosomal RNA intergenic spacer region, complete sequence	AY099219	182	523851
3913	Thermococcus peptonophilus partial 16S rRNA gene, strain DSM 10343	AJ298871	1320	523851
67770	Thermococcus peptonophilus gene for 16S ribosomal RNA, partial sequence	D37982	924	523851

GC content

@ref	GC-content (mol%)	Method
67770	52	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: Thermococcus peptonophilus OG-1
NCBI: GCA_001592435

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	70.70	no
125439	motility	BacteriaNetⓘ	no	63.10	no
125439	gram_stain	BacteriaNetⓘ	variable	70.70	no
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	99.80	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Thermococcus peptonophilus OG-1
NCBI: GCA_001592435.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	65.95	no
125438	anaerobic	anaerobicⓘ	yes	86.17	yes
125438	aerobic	aerobicⓘ	no	89.88	yes
125438	spore-forming	spore-formingⓘ	no	91.16	no
125438	thermophilic	thermophileⓘ	yes	79.80	yes
125438	flagellated	motile2+ⓘ	no	75.13	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
	Genetic and biotechnological potential of thermophilic Streptomyces sp. isolated from Baikal freshwater psychrophilic sponge.	Dmitrieva M, Shelkovnikova V, Morgunova M, Malygina E, Imidoeva N, Belyshenko A, Telnova T, Vavilina T, Konovalov A, Batalova A, Lipatova O, Listopad A, Axenov-Gribanov D.	Sci Rep	10.1038/s41598-025-25364-y	2025
Genetics	Comprehensive genome-wide analysis for the safety assessment of microbial biostimulants in agricultural applications.	Bellotti G, Cortimiglia C, Antinori ME, Cocconcelli PS, Puglisi E.	Microb Genom	10.1099/mgen.0.001391	2025
Genetics	Structure and functions of a multireplicon genome of Antarctic Psychrobacter sp. ANT_H3: characterization of the genetic modules suitable for the construction of the plasmid-vectors for cold-active bacteria.	Decewicz P, Romaniuk K, Gorecki A, Radlinska M, Dabrowska M, Wyszynska A, Dziewit L.	J Appl Genet	10.1007/s13353-023-00759-7	2023
	Isolation and Characterization of Biosurfactant-Producing Bacteria from Amapaense Amazon Soils.	de Oliveira EM, Sales VHG, Andrade MS, Zilli JE, Borges WL, de Souza TM.	Int J Microbiol	10.1155/2021/9959550	2021
Pathogenicity	Antimicrobial Spectrum of Activity and Mechanism of Action of Linear Alpha-Helical Peptides Inspired by Shrimp Anti-Lipopolysaccharide Factors.	Matos GM, Garcia-Teodoro B, Martins CP, Schmitt P, Guzman F, de Freitas ACO, Stoco PH, Ferreira FA, Stadnik MJ, Robl D, Perazzolo LM, Rosa RD.	Biomolecules	10.3390/biom13010150	2023
Pathogenicity	Antibacterial, antifungal, and antiviral effects of three essential oil blends.	Brochot A, Guilbot A, Haddioui L, Roques C.	Microbiologyopen	10.1002/mbo3.459	2017
	Phytochemical analysis and anti-microbial activities of Artemisia spp. and rapid isolation methods of artemisinin.	Mohammed S, Dekabo A, Hailu T.	AMB Express	10.1186/s13568-022-01346-5	2022
Metabolism	Genome-guided and mass spectrometry investigation of natural products produced by a potential new actinobacterial strain isolated from a mangrove ecosystem in Futian, Shenzhen, China.	Hu D, Gao C, Sun C, Jin T, Fan G, Mok KM, Lee SM.	Sci Rep	10.1038/s41598-018-37475-w	2019
Pathogenicity	Massive Gene Expansion and Sequence Diversification Is Associated with Diverse Tissue Distribution, Regulation and Antimicrobial Properties of Anti-Lipopolysaccharide Factors in Shrimp.	Matos GM, Schmitt P, Barreto C, Farias ND, Toledo-Silva G, Guzman F, Destoumieux-Garzon D, Perazzolo LM, Rosa RD.	Mar Drugs	10.3390/md16100381	2018
	Screening Togolese medicinal plants for few pharmacological properties.	Karou SD, Tchacondo T, Tchibozo MA, Anani K, Ouattara L, Simpore J, de Souza C.	Pharmacognosy Res	10.4103/0974-8490.94737	2012
Metabolism	Insight into invertebrate defensin mechanism of action: oyster defensins inhibit peptidoglycan biosynthesis by binding to lipid II.	Schmitt P, Wilmes M, Pugniere M, Aumelas A, Bachere E, Sahl HG, Schneider T, Destoumieux-Garzon D.	J Biol Chem	10.1074/jbc.m110.143388	2010
Phylogeny	PAV1, the first virus-like particle isolated from a hyperthermophilic euryarchaeote, "Pyrococcus abyssi".	Geslin C, Le Romancer M, Erauso G, Gaillard M, Perrot G, Prieur D.	J Bacteriol	10.1128/jb.185.13.3888-3894.2003	2003
Metabolism	Influence of inorganic nitrogen management regime on the diversity of nitrite-oxidizing bacteria in agricultural grassland soils.	Freitag TE, Chang L, Clegg CD, Prosser JI.	Appl Environ Microbiol	10.1128/aem.71.12.8323-8334.2005	2005
Genetics	Urinicoccus massiliensis gen. nov., sp. nov., a new bacterium isolated from a human urine sample from a 7-year-old boy hospitalized for dental care.	Yimagou EK, Anani H, Yacouba A, Hasni I, Baudoin JP, Raoult D, Bou Khalil JY.	New Microbes New Infect	10.1016/j.nmni.2019.100615	2019
Phylogeny	Thermococcus peptonophilus sp. nov., a fast-growing, extremely thermophilic archaebacterium isolated from deep-sea hydrothermal vents.	Gonzalez JM, Kato C, Horikoshi K	Arch Microbiol		1995

References

#3913	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 10343
#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) .
#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 peptonophilus (DSM 10343, JCM 9653, OG-1)

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_001592435

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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