Name: Desulfothermus okinawensis TFISO9
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 4041

Type strain:

Species: Desulfothermus okinawensis

Strain Designation: TFISO9

Culture col. no.: DSM 17375, JCM 13304

Strain history: T. Nunoura TFISO9.

NCBI tax ID(s): 1293588 (strain), 392842 (species)

SI-ID 293886

DSM 17375, JCM 13304

Special Collections

Section

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

motile
rod-shaped
anaerobe
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Pseudomonadota*
	Class	*Deltaproteobacteria*
	Order	*Desulfovibrionales*
	Family	*Desulfohalobiaceae*
	Genus	*Desulfothermus*
	Species	**Desulfothermus okinawensis**
	Full Scientific Name (LPSN)	Desulfothermus okinawensis Nunoura et al. 2007

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %96.483

[Ref.: #31997]	Cell length	3.75 µm

[Ref.: #31997]	Cell width	0.75 µm

[Ref.: #31997]	Cell shape	rod-shaped

[Ref.: #31997]	Motility	yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #6843]

Culture medium

DESULFOTHERMUS MJ MEDIUM (H2/CO2) (DSMZ Medium 1011c)

[Ref.: #6843]

Culture medium growth

[Ref.: #6843]

Culture medium link

Medium recipe at MediaDive

[Ref.: #6843]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #6843]	growth	50 °C
[Ref.: #31997]	growth	35-60 °C
[Ref.: #31997]	optimum	50 °C
[Ref.: #67770]	growth	55 °C

	pH	Kind of pH		pH
[Ref.: #31997]			optimum	6.15
[Ref.: #31997]			growth	5.4-7.9

Information on physiology and metabolism Physiology and metabolism

[Ref.: #6843]	Oxygen tolerance	anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %91.899

[Ref.: #69480]

Ability of spore formation

no Confidence in %96.011

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #31997]		NaCl		growth	1.5-4.5	%
[Ref.: #31997]		NaCl		optimum	2.5	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31997]	acetate ChEBI	+	carbon source
[Ref.: #31997]	citrate ChEBI	+	carbon source
[Ref.: #31997]	ethanol ChEBI	+	carbon source
[Ref.: #31997]	formate ChEBI	+	carbon source
[Ref.: #31997]	glucose ChEBI	+	carbon source
[Ref.: #31997]	glycerol ChEBI	+	carbon source
[Ref.: #31997]	lactate ChEBI	+	carbon source
[Ref.: #31997]	malate ChEBI	+	carbon source
[Ref.: #31997]	propionate ChEBI	+	carbon source
[Ref.: #31997]	pyruvate ChEBI	+	carbon source
[Ref.: #31997]	succinate ChEBI	+	carbon source
[Ref.: #31997]	valerate ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #6843]	Sample type/isolated from	hydrothermal vent chimney
[Ref.: #6843]	Geographic location (country and/or sea, region)	Pacific Ocean, Yonaguni Knoll IV, Southern Okinawa Trough
[Ref.: #6843]	Country	Japan
[Ref.: #6843]	Country ISO 3 Code	JPN
[Ref.: #6843]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Deep-sea hydrothermal field at the Yonaguni Knoll IV in the Southern Okinawa Trough
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Hydrothermal vent
#Condition	#Thermophilic (>45°C)	-

What are isolation sources categories?

[Ref.: #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

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #6843]

Biosafety level

Risk group (German classification)
According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #6843]	Desulfothermus okinawensis gene for 16S rRNA, partial sequence	AB264617	1492	GenBank ENA	1293588 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Desulfothermus okinawensis JCM 13304	GCA_001311565	contig	GenBank ENA	1293588 tax ID
[Ref.: #66792]	Desulfothermus okinawensis JCM 13304	1293588.5	wgs	PATRIC	1293588 tax ID	*
[Ref.: #66792]	Desulfothermus okinawensis JCM 13304	2728369691	draft	JGI IMG/M	1293588 tax ID	*

[Ref.: #6843]	GC-content	34.9 mol%
[Ref.: #67770]	GC-content	34.9 mol%	high performance liquid chromatography (HPLC)

Data predicted using genome information as a basis Genome-based predictions

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Desulfothermus okinawensis JCM 13304 PATRIC: 1293588.5
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	88	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Desulfothermus okinawensis JCM 13304 PATRIC: 1293588.5
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	96.483	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	yes	91.899	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	96.011	no
[Ref.: #69480]	aerobic	aerobicⓘ	no	92.642	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	yes	54.351	no
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	68.233	no

Availability in culture collections External links

[Ref.: #6843]

Culture collection no.

DSM 17375, JCM 13304

[Ref.: #73546]

SI-ID 293886

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 )

#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 (see below)

#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;

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#73546

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID293886.1 )

#28251

IJSEM 2360 2007 ( DOI 10.1099/ijs.0.64781-0 , PubMed 17911311 )

* These data were automatically processed and therefore are not curated

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Desulfothermus okinawensis JCM 13304

Desulfothermus okinawensis JCM 13304

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