Hydrogenovibrio thermophilus (DSM 16397, JCM 12397, I78)

Name: Hydrogenovibrio thermophilus (DSM 16397, JCM 12397, I78)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 11930

Type strain

Strain Designation I78

Culture col. no. DSM 16397 JCM 12397 I78

NCBI tax ID(s) 265883

Special Collections DSMZ JCM Literature strains

History DSMZ <- K. Takai, Subground Animalcule Retrieval (SUGAR) Program, Japan Agency for Marine-Earth Science and Technology (JAMSTEC); I78 <- K. Takai {2003} JCM <-- K. Takai I78.

Links

Hydrogenovibrio thermophilus I78 is a microaerophile, Gram-negative, motile bacterium that was isolated from an in-situ colonization device deployed in hydrothermal fluid.

Gram-negative motile rod-shaped microaerophile 16S sequence Bacteria

Name and taxonomic classification

SI-ID 134464

DSM 16397,JCM 12397

@ref 20215

Last LPSN update 2026-05-29 08:27:40

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Beggiatoales

Family Piscirickettsiaceae

Genus Hydrogenovibrio

Species Hydrogenovibrio thermophilus

Full scientific name Hydrogenovibrio thermophilus (Takai et al. 2004) Boden et al. 2017

Synonyms (1)

Thiomicrospira thermophila

BacDive ID	Other strains from **Hydrogenovibrio thermophilus** (1)	Type strain
139887	H. thermophilus JR2, DSM 25194

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility
31316	negative	1.15 µm	0.55 µm	rod-shaped
43182	negative

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
6427	SULFURIMONAS MJ MEDIUM (DSMZ Medium 1011)		Medium recipe at MediaDive	Name: SULFURIMONAS MJ MEDIUM (DSMZ Medium 1011) Composition: MgCl2 x 6 H2O 4.13452 g/l NaHCO3 1.48368 g/l Na2S2O3 x 5 H2O 1.48368 g/l KCl 0.326409 g/l NH4Cl 0.24728 g/l K2HPO4 0.138477 g/l MgSO4 x 7 H2O 0.0296736 g/l Nitrilotriacetic acid 0.0148368 g/l Fe(NH4)2(SO4)2 x 6 H2O 0.0098912 g/l NaCl 0.0098912 g/l MnSO4 x H2O 0.0049456 g/l CoSO4 x 7 H2O 0.00178042 g/l ZnSO4 x 7 H2O 0.00178042 g/l CaCl2 x 2 H2O 0.00098912 g/l FeSO4 x 7 H2O 0.00098912 g/l NiCl2 x 6 H2O 0.000296736 g/l AlK(SO4)2 x 12 H2O 0.000197824 g/l CuSO4 x 5 H2O 9.8912e-05 g/l Pyridoxine hydrochloride 9.8912e-05 g/l H3BO3 9.8912e-05 g/l Na2MoO4 x 2 H2O 9.8912e-05 g/l p-Aminobenzoic acid 4.9456e-05 g/l (DL)-alpha-Lipoic acid 4.9456e-05 g/l Calcium D-(+)-pantothenate 4.9456e-05 g/l Nicotinic acid 4.9456e-05 g/l Riboflavin 4.9456e-05 g/l Thiamine HCl 4.9456e-05 g/l Folic acid 1.97824e-05 g/l Biotin 1.97824e-05 g/l Na2WO4 x 2 H2O 3.95648e-06 g/l Na2SeO3 x 5 H2O 2.96736e-06 g/l Vitamin B12 9.8912e-07 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
6427	positive	growth	30
31316	positive	growth	15-55
31316	positive	optimum	37.5
67770	positive	growth	30

Culture pH

@ref	Ability	Type	PH
31316	positive	optimum	6
31316	positive	growth	05-08

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
6427	microaerophile
31316	microaerophile

Spore formation

@ref	Type of spore	Spore formation
31316
43182	endospore
43182	exospore (microbial cyst)

Halophily

@ref	Salt	Growth	Tested relation	Concentration
31316	NaCl	positive	growth	0.3-7 %
31316	NaCl	positive	optimum	1.6 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
31316	16449 ChEBI	alanine	+	carbon source
43182	28938 ChEBI	ammonium	+	nitrogen source
31316	29016 ChEBI	arginine	+	carbon source
31316	22653 ChEBI	asparagine	+	carbon source
31316	16947 ChEBI	citrate	+	carbon source
31316	28757 ChEBI	fructose	+	carbon source
31316	28260 ChEBI	galactose	+	carbon source
31316	17234 ChEBI	glucose	+	carbon source
31316	29987 ChEBI	glutamate	+	carbon source
31316	17754 ChEBI	glycerol	+	carbon source
31316	15428 ChEBI	glycine	+	carbon source
31316	27570 ChEBI	histidine	+	carbon source
43182	18248 ChEBI	iron	-	electron donor
31316	17716 ChEBI	lactose	+	carbon source
31316	25017 ChEBI	leucine	+	carbon source
31316	25115 ChEBI	malate	+	carbon source
31316	17306 ChEBI	maltose	+	carbon source
43182	18291 ChEBI	manganese	-	electron donor
43182	17632 ChEBI	nitrate	-	nitrogen source
43182	17632 ChEBI	nitrate	-	reduction
43182	16301 ChEBI	nitrite	-	nitrogen source
31316	17992 ChEBI	sucrose	+	carbon source
43182	15138 ChEBI	sulfide	+	electron donor
43182	17359 ChEBI	sulfite	-	electron donor
43182	18022 ChEBI	thiocyanate	-	electron donor
43182	16094 ChEBI	thiosulfate	+	electron donor
31316	27082 ChEBI	trehalose	+	carbon source

Metabolite production

@ref	Chebi-ID	Metabolite	Production
43182	30411 ChEBI	cobalamin

Enzymes

@ref	Value	Activity	Ec
43182	cytochrome oxidase	+	1.9.3.1
43182	NiFe-hydrogenase	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Bioremediation	#In situ
#Environmental	#Aquatic	-
#Condition	#Thermophilic (>45°C)	-

Isolation

@ref	Sample type	Geographic location	Country	Latitude	Longitude	Host species
6427	an in-situ colonization device deployed in hydrothermal fluid	Western Pacific, TOTO caldera, Mariana Arc	International waters	12.7134	-143.539 12.7134/-143.539
67770	in situ colonization device deploying in the hydrothermal diffusing flow at the TOTO caldera in the Mariana Arc	Western Pacific	Pacific Ocean			in situ

Taxonmaps

69479

Global distribution of 16S sequence AB166731 (>99% sequence identity) for Hydrogenovibrio thermophilus from Microbeatlas

Aquatic Samples	508
Soil Samples	52
Animal Samples	70
Plant Samples	2
Total Samples	632

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
6427	1	Risk group (German classification) According to TRBA 466

Sequence information

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
6427	Thiomicrospira thermophila gene for 16S rRNA, partial sequence	AB166731	1478		265883

GC content

@ref	GC-content (mol%)	Method
6427	43.8
67770	43.8	high performance liquid chromatography (HPLC)

Genome-based predictions

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Thiomicrospira thermophila sp. nov., a novel microaerobic, thermotolerant, sulfur-oxidizing chemolithomixotroph isolated from a deep-sea hydrothermal fumarole in the TOTO caldera, Mariana Arc, Western Pacific.	Takai K, Hirayama H, Nakagawa T, Suzuki Y, Nealson KH, Horikoshi K	Int J Syst Evol Microbiol	10.1099/ijs.0.63284-0	2004

References

#6427	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 16397
#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 )
#27631	IJSEM 2325 2004 ( DOI 10.1099/ijs.0.63284-0 , PubMed 15545479 )
#31316	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 #27631
#43182	Rich Boden, Kathleen M. Scott, John Williams, Sydney Russel, Kirsten Antonen, Alex W. Rae and Lee P. Hutt: An evaluation of Thiomicrospira, Hydrogenovibrio and Thioalkalimicrobium: reclassification of four species of Thiomicrospira to each Thiomicrorhabdus gen. nov. and Hydrogenovibrio, and reclassification of all four species of Thioalkalimicrobium to Thiomicrospira. IJSEM 67: 1140 - 1151 2017 ( DOI 10.1099/ijsem.0.001855 , PubMed 28581925 )
#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 .
#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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Hydrogenovibrio thermophilus (DSM 16397, JCM 12397, I78)

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

Metabolite production

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

16S sequences

GC content

Genome-based predictions

Literature

Literature

References

BacDive

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