Thermus oshimai (DSM 12092, SPS-17, NCIMB 13400)

Name: Thermus oshimai (DSM 12092, SPS-17, NCIMB 13400)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 16726

Type strain

Strain Designation SPS-17

Culture col. no. DSM 12092 SPS-17 NCIMB 13400 BCRC 17423 ATCC 700435 1 more

NCBI tax ID(s) 1123390 56957

Special Collections DSMZ JCM

History <- M.S. Da Costa <- A. Prado NCIMB 13400 <-- R. A. D. Williams SPS17.

Links

Thermus oshimai SPS-17 is a thermophilic prokaryote that was isolated from hot spring Saó.

thermophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 43933

ATCC 700435,NCIMB 13400,DSM 12092,JCM 11603,BCRC 17423,CCRC 17423

@ref 20215

Last LPSN update 2025-12-16 09:50:55

Domain Thermotogati

Phylum Deinococcota

Class Deinococci

Order Thermales

Family Thermaceae

Genus Thermus

Species Thermus oshimai

Full scientific name Thermus oshimai Williams et al. 1996

BacDive ID	Other strains from **Thermus oshimai** (2)	Type strain
139853	T. oshimai JL-2, DSM 103965
164116	T. oshimai JCM 31668

Morphology

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
4600	CASTENHOLZ MEDIUM (DSMZ Medium 86)		Medium recipe at MediaDive	Name: CASTENHOLZ MEDIUM (DSMZ Medium 86) Composition: Yeast extract 1.0 g/l Tryptone 1.0 g/l NaNO3 0.689 g/l Na2HPO4 x 2 H2O 0.14 g/l KNO3 0.103 g/l MgSO4 x 7 H2O 0.1 g/l Nitrilotriacetic acid 0.1 g/l CaSO4 x 2 H2O 0.06 g/l NaCl 0.008 g/l MnSO4 x H2O 0.0022 g/l H3BO3 0.0005 g/l ZnSO4 x 7 H2O 0.0005 g/l FeCl3 x 6 H2O 0.00047 g/l CoCl2 x 6 H2O 4.6e-05 g/l CuSO4 x 5 H2O 2.5e-05 g/l Na2MoO4 x 2 H2O 2.5e-05 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
4600	positive	growth	70	thermophilic
67770	positive	growth	65	thermophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	facultative anaerobe	100

Observation

67770

Observationquinones: MK-8

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Thermal spring
#Condition	#Thermophilic (>45°C)	-

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
4600	hot spring Saó	Pedro do Sul	Portugal	PRT	Europe
67770	Hot spring effluent at S. Pedro do Sul		Portugal	PRT	Europe

Taxonmaps

69479

Global distribution of 16S sequence Y18416 (>99% sequence identity) for Thermus oshimai subclade from Microbeatlas

Aquatic Samples	518
Soil Samples	156
Animal Samples	165
Plant Samples	88
Total Samples	927

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
4600	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	ASM37314v1 assembly for Thermus oshimai DSM 12092	scaffold	GCA_000373145	1123390.3	2515154080	1123390	70.85

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
4600	Thermus oshimai 16S rRNA gene, strain SPS-17T	Y18416	1462		56957

GC content

@ref	GC-content (mol%)	Method
67770	63	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Thermus oshimai DSM 12092
NCBI: GCA_000373145

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	100.00	no
125439	gram_stain	BacteriaNetⓘ	negative	72.20	no
125439	motility	BacteriaNetⓘ	no	79.30	no
125439	spore_formation	BacteriaNetⓘ	no	69.60	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Thermus oshimai DSM 12092
PATRIC: 1123390.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	75.36	no
125438	anaerobic	anaerobicⓘ	no	83.00	no
125438	spore-forming	spore-formingⓘ	no	72.59	no
125438	aerobic	aerobicⓘ	yes	73.35	no
125438	thermophilic	thermophileⓘ	yes	82.68	yes
125438	flagellated	motile2+ⓘ	no	81.30	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Thermus oshimai JL-2 and T. thermophilus JL-18 genome analysis illuminates pathways for carbon, nitrogen, and sulfur cycling.	Murugapiran SK, Huntemann M, Wei CL, Han J, Detter JC, Han C, Erkkila TH, Teshima H, Chen A, Kyrpides N, Mavrommatis K, Markowitz V, Szeto E, Ivanova N, Pagani I, Pati A, Goodwin L, Peters L, Pitluck S, Lam J, McDonald AI, Dodsworth JA, Woyke T, Hedlund BP.	Stand Genomic Sci	10.4056/sigs.3667269	2013
Enzymology	The quaternary structure of Thermus thermophilus aldehyde dehydrogenase is stabilized by an evolutionary distinct C-terminal arm extension.	Hayes K, Noor M, Djeghader A, Armshaw P, Pembroke T, Tofail S, Soulimane T.	Sci Rep	10.1038/s41598-018-31724-8	2018
Metabolism	Distribution of genes for synthesis of trehalose and Mannosylglycerate in Thermus spp. and direct correlation of these genes with halotolerance.	Alarico S, Empadinhas N, Simoes C, Silva Z, Henne A, Mingote A, Santos H, da Costa MS.	Appl Environ Microbiol	10.1128/aem.71.5.2460-2466.2005	2005

References

#4600	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 12092
#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 .
#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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Thermus oshimai (DSM 12092, SPS-17, NCIMB 13400)

Name and taxonomic classification

Morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Observation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000373145

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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