Name: Hydrogenophilus thermoluteolus TH-1
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 12954

Type strain:

Species: Hydrogenophilus thermoluteolus

Strain Designation: TH-1

Culture col. no.: DSM 6765, IFO 14978, NBRC 14978, CIP 106958

Strain history: <- T. Kodama, TH-1 (Pseudomonas hydrogenothermophila)

NCBI tax ID(s): 297 (species)

SI-ID 62430

CIP 106958, IFO 14978, NBRC 14978, BCRC 17160, CCRC 17160

Other strains from Hydrogenophilus thermoluteolus

H. thermoluteolus CIP 106958, IFO 14978 (type strain)

Section

Hydrogenophilus thermoluteolus TH-1 is a thermophilic bacterium of the family Hydrogenophilaceae.

thermophilic
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	*Hydrogenophilia*
	Order	*Hydrogenophilales*
	Family	*Hydrogenophilaceae*
	Genus	*Hydrogenophilus*
	Species	**Hydrogenophilus thermoluteolus**
	Full Scientific Name (LPSN)	Hydrogenophilus thermoluteolus Hayashi et al. 1999

Information on culture and growth conditions Culture and growth conditions

[Ref.: #2805]

Culture medium

HETEROTROPHIC MEDIUM H3P (DSMZ Medium 428)

[Ref.: #2805]

Culture medium growth

[Ref.: #2805]

Culture medium link

Medium recipe at MediaDive

[Ref.: #2805]

Culture medium composition

expand / minimize

[Ref.: #2805]

Culture medium

MINERAL MEDIUM FOR CHEMOLITHOTROPHIC GROWTH (H-3) (DSMZ Medium 81)

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Culture medium growth

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Culture medium link

Medium recipe provided by DSMZ

[Ref.: #33024]

Culture medium

CIP Medium 1

[Ref.: #33024]

Culture medium growth

[Ref.: #33024]

Culture medium link

Medium recipe provided by DSMZ

	Temperatures	Kind of temperature		Temperature
[Ref.: #2805]			growth	50 °C

[Ref.: #2805]

Temperature range

thermophilic

Information on physiology and metabolism Physiology and metabolism

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	photosynthesis	100	14 of 14
[Ref.: #66794]	reductive acetyl coenzyme A pathway	100	7 of 7
[Ref.: #66794]	phenylacetate degradation (aerobic)	100	5 of 5
[Ref.: #66794]	cardiolipin biosynthesis	100	7 of 7
[Ref.: #66794]	glycogen metabolism	100	5 of 5
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	ethanol fermentation	100	2 of 2
[Ref.: #66794]	hydrogen production	100	5 of 5
[Ref.: #66794]	valine metabolism	100	9 of 9
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	biotin biosynthesis	100	4 of 4
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	ubiquinone biosynthesis	100	7 of 7
[Ref.: #66794]	denitrification	100	2 of 2
[Ref.: #66794]	tetrahydrofolate metabolism	100	14 of 14
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	leucine metabolism	92.31	12 of 13
[Ref.: #66794]	phenylalanine metabolism	92.31	12 of 13
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	lipid A biosynthesis	88.89	8 of 9
[Ref.: #66794]	aspartate and asparagine metabolism	88.89	8 of 9
[Ref.: #66794]	isoleucine metabolism	87.5	7 of 8
[Ref.: #66794]	glycolate and glyoxylate degradation	83.33	5 of 6
[Ref.: #66794]	vitamin B12 metabolism	82.35	28 of 34
[Ref.: #66794]	threonine metabolism	80	8 of 10
[Ref.: #66794]	methylglyoxal degradation	80	4 of 5
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	heme metabolism	78.57	11 of 14
[Ref.: #66794]	d-mannose degradation	77.78	7 of 9
[Ref.: #66794]	serine metabolism	77.78	7 of 9
[Ref.: #66794]	molybdenum cofactor biosynthesis	77.78	7 of 9
[Ref.: #66794]	NAD metabolism	77.78	14 of 18
[Ref.: #66794]	nitrate assimilation	77.78	7 of 9
[Ref.: #66794]	vitamin B1 metabolism	76.92	10 of 13
[Ref.: #66794]	butanoate fermentation	75	3 of 4
[Ref.: #66794]	sulfopterin metabolism	75	3 of 4
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
[Ref.: #66794]	CMP-KDO biosynthesis	75	3 of 4
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	C4 and CAM-carbon fixation	75	6 of 8
[Ref.: #66794]	glutathione metabolism	71.43	10 of 14
[Ref.: #66794]	glutamate and glutamine metabolism	71.43	20 of 28
[Ref.: #66794]	citric acid cycle	71.43	10 of 14
[Ref.: #66794]	glycolysis	70.59	12 of 17
[Ref.: #66794]	propionate fermentation	70	7 of 10
[Ref.: #66794]	purine metabolism	67.02	63 of 94
[Ref.: #66794]	CO2 fixation in Crenarchaeota	66.67	6 of 9
[Ref.: #66794]	formaldehyde oxidation	66.67	2 of 3
[Ref.: #66794]	L-lactaldehyde degradation	66.67	2 of 3
[Ref.: #66794]	3-phenylpropionate degradation	66.67	10 of 15
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	methionine metabolism	65.38	17 of 26
[Ref.: #66794]	phenol degradation	65	13 of 20
[Ref.: #66794]	oxidative phosphorylation	64.84	59 of 91
[Ref.: #66794]	tyrosine metabolism	64.29	9 of 14
[Ref.: #66794]	proline metabolism	63.64	7 of 11
[Ref.: #66794]	vitamin B6 metabolism	63.64	7 of 11
[Ref.: #66794]	gluconeogenesis	62.5	5 of 8
[Ref.: #66794]	sulfate reduction	61.54	8 of 13
[Ref.: #66794]	cysteine metabolism	61.11	11 of 18
[Ref.: #66794]	non-pathway related	60.53	23 of 38
[Ref.: #66794]	gallate degradation	60	3 of 5
[Ref.: #66794]	flavin biosynthesis	60	9 of 15
[Ref.: #66794]	alanine metabolism	58.62	17 of 29
[Ref.: #66794]	tryptophan metabolism	57.89	22 of 38
[Ref.: #66794]	isoprenoid biosynthesis	57.69	15 of 26
[Ref.: #66794]	androgen and estrogen metabolism	56.25	9 of 16
[Ref.: #66794]	pyrimidine metabolism	55.56	25 of 45
[Ref.: #66794]	urea cycle	53.85	7 of 13
[Ref.: #66794]	lysine metabolism	52.38	22 of 42
[Ref.: #66794]	histidine metabolism	51.72	15 of 29
[Ref.: #66794]	lipid metabolism	51.61	16 of 31
[Ref.: #66794]	dTDPLrhamnose biosynthesis	50	4 of 8
[Ref.: #66794]	aminopropanol phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	selenocysteine biosynthesis	50	3 of 6
[Ref.: #66794]	phenylmercury acetate degradation	50	1 of 2
[Ref.: #66794]	mannosylglycerate biosynthesis	50	1 of 2
[Ref.: #66794]	arginine metabolism	45.83	11 of 24
[Ref.: #66794]	metabolism of disaccharids	45.45	5 of 11
[Ref.: #66794]	propanol degradation	42.86	3 of 7
[Ref.: #66794]	factor 420 biosynthesis	40	2 of 5
[Ref.: #66794]	ethylmalonyl-CoA pathway	40	2 of 5
[Ref.: #66794]	3-chlorocatechol degradation	40	2 of 5
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	glycine metabolism	40	4 of 10
[Ref.: #66794]	starch degradation	40	4 of 10
[Ref.: #66794]	lipoate biosynthesis	40	2 of 5
[Ref.: #66794]	degradation of hexoses	38.89	7 of 18
[Ref.: #66794]	ketogluconate metabolism	37.5	3 of 8
[Ref.: #66794]	pentose phosphate pathway	36.36	4 of 11
[Ref.: #66794]	polyamine pathway	34.78	8 of 23
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	33.33	4 of 12
[Ref.: #66794]	chlorophyll metabolism	33.33	6 of 18
[Ref.: #66794]	cyanate degradation	33.33	1 of 3
[Ref.: #66794]	pantothenate biosynthesis	33.33	2 of 6
[Ref.: #66794]	4-hydroxyphenylacetate degradation	30	3 of 10
[Ref.: #66794]	coenzyme M biosynthesis	30	3 of 10
[Ref.: #66794]	Entner Doudoroff pathway	30	3 of 10
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	degradation of sugar alcohols	25	4 of 16
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	degradation of pentoses	25	7 of 28
[Ref.: #66794]	methanogenesis from CO2	25	3 of 12
[Ref.: #66794]	bile acid biosynthesis, neutral pathway	23.53	4 of 17
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	23.08	3 of 13
[Ref.: #66794]	arachidonic acid metabolism	22.22	4 of 18
		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.: #69479]

Global distribution of 16S sequence AB009828 (>99% sequence identity) for Hydrogenophilus thermoluteolus from Microbeatlas

Aquatic Samples	965
Soil Samples	520
Animal Samples	4013
Plant Samples	282
Total Samples	5780

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

[Ref.: #2805]

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.: #2805]	Hydrogenophilus thermoluteolus gene for 16S rRNA, partial sequence, strain: NBRC 14978	AB680730	1470	ENA	297 tax ID
[Ref.: #2805]	Hydrogenophilus thermoluteolus gene for 16S rRNA, partial sequence, strain:TH-1	AB009828	1461	ENA	297 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Hydrogenophilus thermoluteolus TH-1	GCA_003574215	complete	GenBank	297 tax ID	*
[Ref.: #66792]	Hydrogenophilus thermoluteolus TH-1	2833634935	complete	JGI IMG/M	297 tax ID	*
[Ref.: #66792]	Hydrogenophilus thermoluteolus strain TH-1	297.17	wgs	PATRIC	297 tax ID	*

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Hydrogenophilus thermoluteolus TH-1 NCBI: GCA_003574215.1
[Ref.: #69480]	motile	yes	90.861	no
[Ref.: #69480]	flagellated	yes	81.528	no
[Ref.: #69480]	gram-positive	no	99.362	no
[Ref.: #69480]	anaerobic	no	77.282	no
[Ref.: #69480]	aerobic	no	85.585	no
[Ref.: #69480]	halophile	no	88.224	no
[Ref.: #69480]	spore-forming	no	94.356	no
[Ref.: #69480]	glucose-util	no	76.662	no
[Ref.: #69480]	thermophile	yes	99.353	yes
[Ref.: #69480]	glucose-ferment	no	83.039	no

Availability in culture collections External links

[Ref.: #2805]

Culture collection no.

DSM 6765, IFO 14978, NBRC 14978, CIP 106958

[Ref.: #82165]

SI-ID 62430

Literature:

Only first 10 entries are displayed. Click here to see all.

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Hydrogenophilus thiooxidans sp. nov., a moderately thermophilic chemotrophic bacterium unable to grow on hydrogen gas, isolated from hot spring microbial mats.	Kawai S, Ishikawa M, Hanada S, Haruta S	Int J Syst Evol Microbiol	10.1099/ijsem.0.005355	2022	*
Metabolism	Physiological characterization of poly-beta-hydroxybutyrate accumulation in the moderately thermophilic hydrogen-oxidizing bacterium Hydrogenophilus thermoluteolus TH-1.	Nguyen TH, Ishizuna F, Sato Y, Arai H, Ishii M	J Biosci Bioeng	10.1016/j.jbiosc.2018.11.011	2018	*
Genetics	Complete Genome Sequence of a Moderately Thermophilic Facultative Chemolithoautotrophic Hydrogen-Oxidizing Bacterium, Hydrogenophilus thermoluteolus TH-1.	Arai H, Shomura Y, Higuchi Y, Ishii M	Microbiol Resour Announc	10.1128/MRA.00857-18	2018	*
Enzymology	Enzymatic and spectroscopic properties of a thermostable [NiFe]hydrogenase performing H2-driven NAD(+)-reduction in the presence of O2.	Preissler J, Wahlefeld S, Lorent C, Teutloff C, Horch M, Lauterbach L, Cramer SP, Zebger I, Lenz O	Biochim Biophys Acta Bioenerg	10.1016/j.bbabio.2017.09.006	2017	*
Enzymology	Crystallization and preliminary X-ray analysis of the NAD+-reducing [NiFe] hydrogenase from Hydrogenophilus thermoluteolus TH-1.	Taketa M, Nakagawa H, Habukawa M, Osuka H, Kihira K, Komori H, Shibata N, Ishii M, Igarashi Y, Nishihara H, Yoon KS, Ogo S, Shomura Y, Higuchi Y	Acta Crystallogr F Struct Biol Commun	10.1107/S2053230X14026521	2015	*
Phylogeny	Hydrogenophilus thermoluteolus gen. nov., sp. nov., a thermophilic, facultatively chemolithoautotrophic, hydrogen-oxidizing bacterium.	Hayashi NR, Ishida T, Yokota A, Kodama T, Igarashi Y	Int J Syst Bacteriol	10.1099/00207713-49-2-783	1999	*
Phylogeny	Hydrogenophilus islandicus sp. nov., a thermophilic hydrogen-oxidizing bacterium isolated from an Icelandic hot spring.	Vesteinsdottir H, Reynisdottir DB, Orlygsson J	Int J Syst Evol Microbiol	10.1099/ijs.0.023572-0	2010	*

References

#2805

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 6765

#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 )

#33024 Collection of Institut Pasteur ; Curators of the CIP; CIP 106958

#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) .

#66794

Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )

#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) .

#82165

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-ID62430.1 )

* These data were automatically processed and therefore are not curated

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