Name: Sulfurihydrogenibium yellowstonense JCM 12773
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 161262

Type strain:

Species: Sulfurihydrogenibium yellowstonense

Culture col. no.: JCM 12773, OCM 840

Strain history: S. Nakagawa SS-5.

NCBI tax ID(s): 304736 (species)

SI-ID 281467

JCM 12773

Special Collections

Section

Sulfurihydrogenibium yellowstonense JCM 12773 is a Gram-negative bacterium that was isolated from Calcite Hot Spring in Yellowstone National Park.

Gram-negative
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	*Aquificota*
	Class	*Aquificia*
	Order	*Aquificales*
	Family	*Hydrogenothermaceae*
	Genus	*Sulfurihydrogenibium*
	Species	**Sulfurihydrogenibium yellowstonense**
	Full Scientific Name (LPSN)	Sulfurihydrogenibium yellowstonense Nakagawa et al. 2005

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %94.876

Information on culture and growth conditions Culture and growth conditions

	Temperatures	Kind of temperature		Temperature
[Ref.: #67770]			growth	70 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69480]

Ability of spore formation

no Confidence in %93.331

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

[Ref.: #67770]	Sample type/isolated from	Calcite Hot Spring in Yellowstone National Park
[Ref.: #67770]	Geographic location (country and/or sea, region)	WY
[Ref.: #67770]	Country	USA
[Ref.: #67770]	Country ISO 3 Code	USA
[Ref.: #67770]	Continent	North America
* marker position based on {}

[Ref.: #69479]

Global distribution of 16S sequence AY686713 (>99% sequence identity) for Sulfurihydrogenibium from Microbeatlas

Aquatic Samples	11
Soil Samples
Animal Samples
Plant Samples
Total Samples	11

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.: #67770]	Sulfurihydrogenibium yellowstonense strain SS-5 16S ribosomal RNA gene, partial sequence	AY686713	1447	GenBank ENA	432331 tax ID
[Ref.: #124043]	Sulfurihydrogenibium yellowstonense 16S-23S rRNA intergenic spacer containing tRNA-Ile and tRNA-Ala genes, type strain JCM 12773T	AM259516	456	GenBank ENA	432331 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Sulfurihydrogenibium yellowstonense SS-5	GCA_000173615	contig	GenBank ENA	432331 tax ID

[Ref.: #67770]

GC-content

32 mol%

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Sulfurihydrogenibium yellowstonense SS-5 SS-5 NCBI: GCA_000173615.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	94.876	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	yes	57.291	no
[Ref.: #69480]	aerobic	aerobicⓘ	no	80.035	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	93.331	no
[Ref.: #69480]	thermophilic	thermophileⓘ	yes	75.348	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	52.432	no

Availability in culture collections External links

[Ref.: #67770]

Culture collection no.

JCM 12773, OCM 840

[Ref.: #113322]

SI-ID 281467

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Sulfurihydrogenibium yellowstonense sp. nov., an extremely thermophilic, facultatively heterotrophic, sulfur-oxidizing bacterium from Yellowstone National Park, and emended descriptions of the genus Sulfurihydrogenibium, Sulfurihydrogenibium subterraneum and Sulfurihydrogenibium azorense.	Nakagawa S, Shtaih Z, Banta A, Beveridge TJ, Sako Y, Reysenbach AL	Int J Syst Evol Microbiol	10.1099/ijs.0.63708-0	2005	*

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 )

#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 .

#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) .

#113322

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-ID281467.1 )

#124043

Dr. Isabel Schober, Dr. Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .

* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Sulfurihydrogenibium yellowstonense in external resources:
SILVA
BRENDA
PANGAEA
GBIF

Sulfurihydrogenibium yellowstonense SS-5 SS-5

Change proposal

Change proposal