Thiomicrorhabdus hydrogeniphila (DSM 100274, JCM 30760, MAS 2)

Name: Thiomicrorhabdus hydrogeniphila (DSM 100274, JCM 30760, MAS 2)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 132628

Type strain

Culture col. no. DSM 100274 JCM 30760 MAS 2

NCBI tax ID(s) 1572581

Special Collections DSMZ JCM Literature strains

History DSMZ <- T. Watsuji, Japan Agency for Marine-Earth Sci. and Technol. (JAMSTEC), Yokosuka; MAS2 JCM <-- T. Watsuji; JAMSTEC, Japan; MAS2.

Links

Thiomicrorhabdus hydrogeniphila DSM 100274 is an obligate aerobe, chemolithoautotroph, Gram-negative bacterium that was isolated from tank containing surface seawater and a block of beef tallow added as organic material.

Gram-negative motile rod-shaped obligate aerobe chemolithoautotroph 16S sequence Bacteria

Name and taxonomic classification

SI-ID 408286

JCM 30760,DSM 100274

@ref 20215

Last LPSN update 2026-05-29 08:37:54

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Beggiatoales

Family Piscirickettsiaceae

Genus Thiomicrorhabdus

Species Thiomicrorhabdus hydrogeniphila

Full scientific name Thiomicrorhabdus hydrogeniphila (Watsuji et al. 2016) Boden et al. 2017

Synonyms (1)

Thiomicrospira hydrogeniphila

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility	Flagellum arrangement
43576	negative	0.9-1.8 µm	0.3-0.5 µm	rod-shaped		monotrichous, polar

Colony morphology

@ref	Colony color	Medium used
43576	White cream	Thiosulfate-agar

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
43576	Thiosulfate-agar
24417	THIOMICROSPIRA PELOPHILA MEDIUM (DSMZ Medium 142)		Medium recipe at MediaDive	Name: THIOMICROSPIRA PELOPHILA MEDIUM (DSMZ Medium 142) Composition: NaCl 24.8756 g/l Na2S2O3 x 5 H2O 4.97512 g/l MgSO4 x 7 H2O 1.49254 g/l (NH4)2SO4 0.995025 g/l K2HPO4 0.497512 g/l Na2-EDTA 0.00995025 g/l ZnSO4 x 7 H2O 0.00437811 g/l Bromothymol blue 0.0039801 g/l CaCl2 x 2 H2O 0.00110249 g/l MnCl2 x 4 H2O 0.00100697 g/l FeSO4 x 7 H2O 0.000995025 g/l CoCl2 x 6 H2O 0.000320398 g/l CuSO4 x 5 H2O 0.000312438 g/l Pyridoxine hydrochloride 0.000298507 g/l (NH4)6Mo7O24 x 4 H2O 0.000218905 g/l Nicotinic acid 0.000199005 g/l Thiamine-HCl x 2 H2O 0.000199005 g/l Vitamin B12 9.95025e-05 g/l Calcium pantothenate 9.95025e-05 g/l p-Aminobenzoic acid 7.9602e-05 g/l D-(+)-biotin 1.99005e-05 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
24417	positive	growth	28
43576	positive	growth	2-40
43576	positive	optimum	30
67770	positive	growth	25

Culture pH

@ref	Ability	Type	PH
43576	positive	optimum	6
43576	positive	growth	5-8

Physiology and metabolism

Oxygen tolerance

43576

Oxygen toleranceobligate aerobe

Nutrition type

43576

Typechemolithoautotroph

Halophily

@ref	Salt	Growth	Tested relation	Concentration
43576	NaCl	positive	growth	0.30-1.380 M
43576	NaCl	positive	optimum	0.27 M

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
43576	28938 ChEBI	ammonium	+	nitrogen source
43576	15379 ChEBI	dioxygen	-	nitrogen source
43576	15379 ChEBI	dioxygen	+	electron acceptor
43576	29034 ChEBI	ferric iron	-	electron acceptor
43576		ferrihydrite	-	electron acceptor
43576	29806 ChEBI	fumarate	-	electron acceptor
43576	17632 ChEBI	nitrate	-	electron acceptor
43576	17632 ChEBI	nitrate	-	nitrogen source
43576	16301 ChEBI	nitrite	-	electron acceptor
43576	16301 ChEBI	nitrite	-	nitrogen source
43576	15075 ChEBI	selenate	-	electron acceptor

Antibiotic resistance

@ref	ChEBI	Metabolite	Sensitivity conc.	Resistance conc.
43576	28971	ampicillin	50 µg/mL
43576	17698	chloramphenicol	50 µg/mL
43576	6104	kanamycin	50 µg/mL
43576	28077	rifampicin	50 µg/mL
43576	17076	streptomycin	50 µg/mL
43576	28001	vancomycin		50 µg/mL

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Built environment	#Container (Reservoir)
#Engineered	#Food production	#Meat
#Engineered	#Laboratory	#Lab enrichment
#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Surface water
#Host	#Mammals	#Bovinae (Cow, Cattle)

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude
24417	tank containing surface seawater and a block of beef tallow added as organic material	Tokyo Bay	Japan	JPN	Asia	35.3196	139.651 35.3196/139.651
43576	enrichment cultures, inoculated with slurry obtained from a silfidic tank containing surface seawater from Tokyo Bay, supplemented with a block of beef tallow (350 g/L)
67770	Surface seawater of Tokyo Bay		Japan	JPN	Asia

Taxonmaps

69479

Global distribution of 16S sequence LC010781 (>99% sequence identity) for Thiomicrorhabdus hydrogeniphila from Microbeatlas

Aquatic Samples	91
Soil Samples	0
Animal Samples	3
Plant Samples	0
Total Samples	94

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
24417	1	Risk group (German classification)

Sequence information

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
24417	Thiomicrorhabdus hydrogeniphila gene for 16S ribosomal RNA, partial sequence	LC010781	1470		1572581

GC content

@ref	GC-content (mol%)	Method
24417	39.6	high performance liquid chromatography (HPLC)

Genome-based predictions

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Reclassification of Thiomicrospira hydrogeniphila (Watsuji et al. 2016) to Thiomicrorhabdus hydrogeniphila comb. nov., with emended description of Thiomicrorhabdus (Boden et al., 2017).	Boden R, Scott KM, Rae AW, Hutt LP	Int J Syst Evol Microbiol	10.1099/ijsem.0.002279	2017
Phylogeny	Thiomicrospira hydrogeniphila sp. nov., an aerobic, hydrogen- and sulfur-oxidizing chemolithoautotroph isolated from a seawater tank containing a block of beef tallow.	Watsuji TO, Hada E, Miyazaki M, Ichimura M, Takai K	Int J Syst Evol Microbiol	10.1099/ijsem.0.001250	2016
Phylogeny	Thiomicrorhabdus sediminis sp. nov. and Thiomicrorhabdus xiamenensis sp. nov., novel sulfur-oxidizing bacteria isolated from coastal sediments and an emended description of the genus Thiomicrorhabdus.	Liu X, Chen B, Lai Q, Shao Z, Jiang L	Int J Syst Evol Microbiol	10.1099/ijsem.0.004660	2021
Phylogeny	Thiomicrorhabdus indica sp. nov., an obligately chemolithoautotrophic, sulfur-oxidizing bacterium isolated from a deep-sea hydrothermal vent environment.	Liu X, Jiang L, Hu Q, Lyu J, Shao Z	Int J Syst Evol Microbiol	10.1099/ijsem.0.003744	2020

References

#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 )
#24417	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 100274
#43576	Rich Boden, Kathleen M. Scott, Alexander W. Rae, Lee P. Hutt: Reclassification of Thiomicrospira hydrogeniphila (Watsuji et al. 2016) to Thiomicrorhabdus hydrogenophila comb. nov., with emended description of Thiomicrorhabdus (Boden et al., 2017). IJSEM 67: 4205 - 4209 2017 ( DOI 10.1099/ijsem.0.002279 , PubMed 28920830 )
#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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Thiomicrorhabdus hydrogeniphila (DSM 100274, JCM 30760, MAS 2)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Nutrition type

Halophily

Metabolite utilization

Antibiotic resistance

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

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