Name: Thermococcus barossii SHCK-94
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 16887

Type strain:

Species: Thermococcus barossii

Strain Designation: SHCK-94

Culture col. no.: DSM 17882, ATCC BAA-1085, JCM 12858, DSM 9535

Strain history: E. V. Pikuta SHCK-94 <-- R. M. Kelly.

NCBI tax ID(s): 54077 (species)

SI-ID 131953

DSM 9535, ATCC BAA-1085, JCM 12858, DSM 17882

Special Collections

DSMZ
JCM

Section

When using BacDive for research please cite our paper

Thermococcus barossii SHCK-94 is a hyperthermophilic archaeon that was isolated from Rock fragments of a hydrothermal vent flange formation.

hyperthermophilic
16S sequence
Archaea
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Archaea*
	Phylum	*Methanobacteriota*
	Class	*Thermococci*
	Order	*Thermococcales*
	Family	*Thermococcaceae*
	Genus	*Thermococcus*
	Species	**Thermococcus barossii**
	Full Scientific Name (LPSN)	Thermococcus barossii Duffaud et al. 2005

Information on morphological and physiological properties Morphology

[Ref.: #125439]	Gram stain	negative Confidence in %94.4

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7215]

Culture medium

MARINE THERMOCOCCUS MEDIUM (DSMZ Medium 760)

[Ref.: #7215]

Culture medium growth

[Ref.: #7215]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7215]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #7215]			growth	80 °C
[Ref.: #67770]			growth	82 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #125439]

Oxygen tolerance

anaerobe Confidence in %100

[Ref.: #125439]

Ability of spore formation

no Confidence in %94.6

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

[Ref.: #7215]	Sample type/isolated from	Rock fragments of a hydrothermal vent flange formation
[Ref.: #7215]	Geographic location (country and/or sea, region)	northeast Pacific Ocean, East Pacific Rise of the Juan de Fuca Ridge

[Ref.: #67770]	Sample type/isolated from	Rock fragments of a hydrothermal vent flange formation, located along the East Pacific Rise of the Juan de Fuca Ridge
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Hydrothermal vent
#Environmental	#Terrestrial	#Geologic
#Condition	#Thermophilic (>45°C)	-

What are isolation sources categories?

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

[Ref.: #7215]

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.: #7215]	Thermococcus barossii 16S ribosomal RNA gene, partial sequence	U76535	1428	GenBank ENA	54077 tax ID
[Ref.: #124043]	Thermococcus barossii strain DSM 9535 16S ribosomal RNA gene, partial sequence.	AY099173	1447	GenBank ENA	54077 tax ID	*
[Ref.: #124043]	Thermococcus barossii strain DSM 9535 16S-23S ribosomal RNA intergenic spacer region, complete sequence	AY099209	183	GenBank ENA	54077 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Thermococcus barossii SHCK-94	GCA_002214465	complete	GenBank ENA	54077 tax ID	*
[Ref.: #66792]	Thermococcus barossii SHCK-94	2758568026	complete	JGI IMG/M	54077 tax ID	*

[Ref.: #7215]	GC-content	60.0 mol%	high performance liquid chromatography (HPLC)
[Ref.: #67770]	GC-content	60 mol%	high performance liquid chromatography (HPLC)

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

	Model	Trait	Prediction	Confidence in %	In training data
	Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Thermococcus barossii SHCK-94 NCBI: GCA_002214465.1
[Ref.: #125438]	gram-positive	gram-positiveⓘ	no	70.385	no
[Ref.: #125438]	anaerobic	anaerobicⓘ	yes	87.851	no
[Ref.: #125438]	aerobic	aerobicⓘ	no	84.685	no
[Ref.: #125438]	spore-forming	spore-formingⓘ	no	89.58	no
[Ref.: #125438]	thermophile	thermophilicⓘ	yes	78.459	yes
[Ref.: #125438]	motile2+	flagellatedⓘ	no	78.458	no

	Model	Trait	Prediction	Confidence in %
	Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Thermococcus barossii SHCK-94 NCBI: GCA_002214465
[Ref.: #125439]	BacteriaNet	spore_formationⓘ	no	94.6
[Ref.: #125439]	BacteriaNet	motilityⓘ	no	68.8
[Ref.: #125439]	BacteriaNet	gram_stainⓘ	negative	94.4
[Ref.: #125439]	BacteriaNet	oxygen_toleranceⓘ	anaerobe	100

Availability in culture collections External links

[Ref.: #7215]

Culture collection no.

DSM 17882, ATCC BAA-1085, JCM 12858, DSM 9535

[Ref.: #85893]

SI-ID 131953

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Thermococcus piezophilus sp. nov., a novel hyperthermophilic and piezophilic archaeon with a broad pressure range for growth, isolated from a deepest hydrothermal vent at the Mid-Cayman Rise.	Dalmasso C, Oger P, Selva G, Courtine D, L'Haridon S, Garlaschelli A, Roussel E, Miyazaki J, Reveillaud J, Jebbar M, Takai K, Maignien L, Alain K	Syst Appl Microbiol	10.1016/j.syapm.2016.08.003	2016	*

References

#7215

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17882

#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 )

#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) .

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#85893

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-ID131953.1 )

#124043

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

#125438

Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )

#125439

Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .

* These data were automatically processed and therefore are not curated

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