Name: Hydrogenovibrio crunogenus TH-55
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 11927

Type strain:

Species: Hydrogenovibrio crunogenus

Strain Designation: TH-55

Culture col. no.: DSM 12353, ATCC 35932, LMD 84.20

Strain history: <- J. Kuever, Max-Planck-Inst. Marine Microbiology, Bremen, Germany; TH-55 <- C. O. Wirsen, Woods Hole Oceanographic Institution, Woods Hole, Massachusetts, USA

NCBI tax ID(s): 39765 (species)

SI-ID 41378

ATCC 35932, DSM 12353, LMD 84.20, LMD 84.00

Other strains from Hydrogenovibrio crunogenus

H. crunogenus L-12, DSM 12346
H. crunogenus MA-3, DSM 12354, ATCC 700270
H. crunogenus XCL-2, DSM 25203

Section

Hydrogenovibrio crunogenus TH-55 is a mesophilic, Gram-negative, motile bacterium that was isolated from scrapings from outer tube of tubeworm from hydrothermal vent aerea, 2550 m depth.

Gram-negative
motile
mesophilic
16S sequence
Bacteria

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	*Gammaproteobacteria*
	Order	*Beggiatoales*
	Family	*Piscirickettsiaceae*
	Genus	*Hydrogenovibrio*
	Species	**Hydrogenovibrio crunogenus**
	Full Scientific Name (LPSN)	Hydrogenovibrio crunogenus (Jannasch et al. 1985) Boden et al. 2017

Synonym

Thiomicrospira crunogena

Information on morphological and physiological properties Morphology

[Ref.: #43182]	Gram stain	negative

[Ref.: #43182]	Motility	yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #4712]

Culture medium

THIOMICROSPIRA PELOPHILA MEDIUM (DSMZ Medium 142)

[Ref.: #4712]

Culture medium growth

[Ref.: #4712]

Culture medium link

Medium recipe at MediaDive

[Ref.: #4712]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #4712]			growth	25 °C

[Ref.: #4712]

Temperature range

mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43182]	Type of spore	endospore
[Ref.: #43182]	Ability of spore formation	no
[Ref.: #43182]	Type of spore	exospore (microbial cyst)
[Ref.: #43182]	Ability of spore formation	no

[Ref.: #43182]

Observation

produce carboxysomes

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43182]	ammonium ChEBI	+	nitrogen source
[Ref.: #43182]	iron ChEBI	-	electron donor
[Ref.: #43182]	manganese ChEBI	-	electron donor
[Ref.: #43182]	nitrate ChEBI	-	nitrogen source
[Ref.: #43182]	nitrate ChEBI	-	reduction
[Ref.: #43182]	nitrite ChEBI	-	nitrogen source
[Ref.: #43182]	sulfide ChEBI	+	electron donor
[Ref.: #43182]	sulfite ChEBI	-	electron donor
[Ref.: #43182]	thiocyanate ChEBI	-	electron donor
[Ref.: #43182]	thiosulfate ChEBI	+	electron donor

	Metabolite production	Metabolite	Production
[Ref.: #43182]		cobalamin ChEBI	yes

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #43182]		cytochrome oxidase	+	1.9.3.1
[Ref.: #43182]		NiFe-hydrogenase	+

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

[Ref.: #4712]	Sample type/isolated from	scrapings from outer tube of tubeworm from hydrothermal vent aerea, 2550 m depth
[Ref.: #4712]	Geographic location (country and/or sea, region)	East Pacific Rise
[Ref.: #4712]	Country	Mexico
[Ref.: #4712]	Country ISO 3 Code	MEX
[Ref.: #4712]	Continent	North America
[Ref.: #4712]	Geographic location	21.0000°/-109.0000°
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Hydrothermal vent
#Host	#Invertebrates (Other)	#Annelida
#Condition	#Thermophilic (>45°C)	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KJ573629 (>99% sequence identity) for Hydrogenovibrio crunogenus subclade from Microbeatlas

Aquatic Samples	727
Soil Samples	104
Animal Samples	48
Plant Samples	21
Total Samples	900

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

[Ref.: #4712]

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.: #4712]	Thiomicrospira crunogena 16S ribosomal RNA (16S rRNA) gene, partial sequence	L40810	1457	ENA	39765 tax ID
[Ref.: #20218]	Thiomicrospira crunogena strain TH-55 16S ribosomal RNA gene, partial sequence	KJ573629	1478	ENA	39765 tax ID	*

[Ref.: #4712]

GC-content

41.8-42.6 mol%

thermal denaturation, midpoint method (Tm)

Availability in culture collections External links

[Ref.: #4712]

Culture collection no.

DSM 12353, ATCC 35932, LMD 84.20

[Ref.: #81141]

SI-ID 41378

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	*
	Comparison of a new thiomicrospira strain from the mid-atlantic ridge with known hydrothermal vent isolates	Wirsen CO, Brinkhoff T, Kuever J, Muyzer G, Molyneaux S, Jannasch HW	Appl Environ Microbiol	10.1128/AEM.64.10.4057-4059.1998	1998	*

References

#4712

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 12353

#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 )

#20218

Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )

#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 )

#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 .

#81141

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-ID41378.1 )

* These data were automatically processed and therefore are not curated

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