Desulfothermus okinawensis (DSM 17375, JCM 13304, TFISO9)

Name: Desulfothermus okinawensis (DSM 17375, JCM 13304, TFISO9)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 4041

Type strain

Strain Designation TFISO9

Culture col. no. DSM 17375 JCM 13304 TFISO9

NCBI tax ID(s) 1293588 392842

Special Collections DSMZ JCM Literature strains

History DSMZ <- T. Nunoura, Subground Animalcule Retrieval (SUGAR) Program, Japan Agency for Marine-Earth Science and Technology (JAMSTEC); TFISO9 <- T. Nunoura {2004} JCM <-- T. Nunoura TFISO9.

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Desulfothermus okinawensis TFISO9 is an anaerobe, motile, rod-shaped bacterium that was isolated from hydrothermal vent chimney.

motile rod-shaped anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 293886

DSM 17375,JCM 13304

@ref 20215

Last LPSN update 2026-05-29 08:25:50

Domain Bacteria

Phylum Thermodesulfobacteriota

Class Desulfovibrionia

Order Desulfovibrionales

Family Desulfothermaceae

Genus Desulfothermus

Species Desulfothermus okinawensis

Full scientific name Desulfothermus okinawensis Nunoura et al. 2007

Morphology

Cell morphology

@ref	Cell length	Cell width	Cell shape	Motility	Gram stain	Confidence
31997	3.75 µm	0.75 µm	rod-shaped
125438					negative	96.483

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
6843	DESULFOTHERMUS MJ MEDIUM (H2/CO2) (DSMZ Medium 1011c)		Medium recipe at MediaDive	Name: DESULFOTHERMUS MJ MEDIUM (H2/CO2) (DSMZ Medium 1011c) Composition: MgCl2 x 6 H2O 4.13043 g/l Na2S2O3 x 5 H2O 1.48221 g/l Na2CO3 1.48221 g/l Na-pyruvate 0.494071 g/l Na-lactate 0.494071 g/l KCl 0.326087 g/l NH4Cl 0.247036 g/l K2HPO4 0.13834 g/l Yeast extract 0.0988142 g/l Na2S2O4 0.0494071 g/l NaHCO3 0.0494071 g/l MgSO4 x 7 H2O 0.0296443 g/l Nitrilotriacetic acid 0.0148221 g/l NaCl 0.00988142 g/l Fe(NH4)2(SO4)2 x 6 H2O 0.00988142 g/l MnSO4 x H2O 0.00494071 g/l CoSO4 x 7 H2O 0.00177866 g/l ZnSO4 x 7 H2O 0.00177866 g/l FeSO4 x 7 H2O 0.000988142 g/l CaCl2 x 2 H2O 0.000988142 g/l NiCl2 x 6 H2O 0.000296443 g/l AlK(SO4)2 x 12 H2O 0.000197628 g/l H3BO3 9.88142e-05 g/l CuSO4 x 5 H2O 9.88142e-05 g/l Na2MoO4 x 2 H2O 9.88142e-05 g/l Pyridoxine hydrochloride 9.88142e-05 g/l (DL)-alpha-Lipoic acid 4.94071e-05 g/l Thiamine HCl 4.94071e-05 g/l p-Aminobenzoic acid 4.94071e-05 g/l Calcium D-(+)-pantothenate 4.94071e-05 g/l Riboflavin 4.94071e-05 g/l Nicotinic acid 4.94071e-05 g/l Folic acid 1.97628e-05 g/l Biotin 1.97628e-05 g/l Na2WO4 x 2 H2O 3.95257e-06 g/l Na2SeO3 x 5 H2O 2.96443e-06 g/l Vitamin B12 9.88142e-07 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
6843	positive	growth	50
31997	positive	growth	35-60
31997	positive	optimum	50
67770	positive	growth	55

Culture pH

@ref	Ability	Type	PH
31997	positive	optimum	6.15
31997	positive	growth	5.4-7.9

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
6843	anaerobe
125438	anaerobe	91.899
125439	anaerobe	99.024

Spore formation

@ref	Spore formation	Confidence
125438		96.011

Halophily

@ref	Salt	Growth	Tested relation	Concentration
31997	NaCl	positive	growth	1.5-4.5 %
31997	NaCl	positive	optimum	2.5 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
31997	30089 ChEBI	acetate	+	carbon source
31997	16947 ChEBI	citrate	+	carbon source
31997	16236 ChEBI	ethanol	+	carbon source
31997	15740 ChEBI	formate	+	carbon source
31997	17234 ChEBI	glucose	+	carbon source
31997	17754 ChEBI	glycerol	+	carbon source
31997	24996 ChEBI	lactate	+	carbon source
31997	25115 ChEBI	malate	+	carbon source
31997	17272 ChEBI	propionate	+	carbon source
31997	15361 ChEBI	pyruvate	+	carbon source
31997	30031 ChEBI	succinate	+	carbon source
31997	31011 ChEBI	valerate	+	carbon source

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	Country	Country ISO 3 Code	Continent
6843	hydrothermal vent chimney	Pacific Ocean, Yonaguni Knoll IV, Southern Okinawa Trough	Japan	JPN	Asia
67770	Deep-sea hydrothermal field at the Yonaguni Knoll IV in the Southern Okinawa Trough

Taxonmaps

69479

Global distribution of 16S sequence AB264617 (>99% sequence identity) for Desulfothermus okinawensis subclade from Microbeatlas

Aquatic Samples	215
Soil Samples	30
Animal Samples	217
Plant Samples	3
Total Samples	465

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
6843	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	ASM131156v1 assembly for Desulfothermus okinawensis JCM 13304	contig	GCA_001311565	1293588.5	2728369691	1293588	0

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
6843	Desulfothermus okinawensis gene for 16S rRNA, partial sequence	AB264617	1492		1293588

GC content

@ref	GC-content (mol%)	Method
6843	34.9
67770	34.9	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: ASM131156v1 assembly for Desulfothermus okinawensis JCM 13304
BV-BRC: 1293588.5

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	99.02	no
125439	gram_stain	BacteriaNetⓘ	negative	36.57	no
125439	motility	BacteriaNetⓘ	yes	46.36	no
125439	spore_formation	BacteriaNetⓘ	no	65.82	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Desulfothermus okinawensis JCM 13304
PATRIC: 1293588.5

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	96.48	no
125438	anaerobic	anaerobicⓘ	yes	91.90	yes
125438	spore-forming	spore-formingⓘ	no	96.01	no
125438	aerobic	aerobicⓘ	no	92.64	yes
125438	thermophilic	thermophileⓘ	yes	54.35	no
125438	flagellated	motile2+ⓘ	yes	68.23	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Desulfothermus okinawensis sp. nov., a thermophilic and heterotrophic sulfate-reducing bacterium isolated from a deep-sea hydrothermal field.	Nunoura T, Oida H, Miyazaki M, Suzuki Y, Takai K, Horikoshi K	Int J Syst Evol Microbiol	10.1099/ijs.0.64781-0	2007

References

#6843	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17375
#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 )
#28251	IJSEM 2360 2007 ( DOI 10.1099/ijs.0.64781-0 , PubMed 17911311 )
#31997	Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #28251
#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 .
#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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Desulfothermus okinawensis (DSM 17375, JCM 13304, TFISO9)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_001311565

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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