Salsuginibacillus kocurii CH9d | Type strain | DSM 18087, CCM 7365, CECT 7154, CGMCC 1.6287 | BacDiveID:1548

Strain identifier

BacDive ID: 1548

Type strain:

Species: Salsuginibacillus kocurii

Strain Designation: CH9d

Culture col. no.: DSM 18087, CCM 7365, CECT 7154, CGMCC 1.6287

Strain history: <- A. Ventosa <- I.J. Carrasco, CH9d

NCBI tax ID(s): 1123239 (strain), 427078 (species)

SI-ID 310985

CCM 7365, CECT 7154, CGMCC 1.6287, DSM 18087

Special Collections

Section

Salsuginibacillus kocurii CH9d is an aerobe, spore-forming, Gram-positive bacterium that was isolated from sediment.

Gram-positive
motile
rod-shaped
spore-forming
aerobe
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	*Bacillota*
	Class	*Bacilli*
	Order	*Caryophanales*
	Family	*Bacillaceae*
	Genus	*Salsuginibacillus*
	Species	**Salsuginibacillus kocurii**
	Full Scientific Name (LPSN)	Salsuginibacillus kocurii Carrasco et al. 2007

Information on morphological and physiological properties Morphology

[Ref.: #32212]	Gram stain	positive

[Ref.: #32212]	Cell length	3.25 µm

[Ref.: #32212]	Cell width	0.75 µm

[Ref.: #32212]	Cell shape	rod-shaped

[Ref.: #32212]	Motility	yes

Pigment production

no

Multimedia content

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Information on culture and growth conditions Culture and growth conditions

Culture medium

HALOMONAS MAGADIENSIS MEDIUM (DSMZ Medium 971)

Culture medium growth

Culture medium link

Medium recipe at MediaDive

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #7388]			growth	30 °C
[Ref.: #32212]			growth	37 °C
[Ref.: #32212]			optimum	20-50 °C

	pH	Kind of pH		pH
[Ref.: #32212]			optimum	8.5
[Ref.: #32212]			growth	5.8-10.0

Information on physiology and metabolism Physiology and metabolism

Oxygen tolerance

aerobe

[Ref.: #32212]	Ability of spore formation	yes
[Ref.: #69481]	Ability of spore formation	yes Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #32212]		NaCl		growth	03-20	%
[Ref.: #32212]		NaCl		optimum	10	%

Observation

aggregates in clumps

	Metabolite utilization	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32212]		acetate ChEBI	+	carbon source
[Ref.: #32212]		cellobiose ChEBI	+	carbon source
[Ref.: #32212]		citrate ChEBI	+	carbon source
[Ref.: #32212]		ethanol ChEBI	+	carbon source
[Ref.: #32212]		formate ChEBI	+	carbon source
[Ref.: #32212]		glucose ChEBI	+	carbon source
[Ref.: #32212]		mannitol ChEBI	+	carbon source
[Ref.: #32212]		nitrate ChEBI	+	reduction
[Ref.: #32212]		pyruvate ChEBI	+	carbon source
[Ref.: #32212]		ribose ChEBI	+	carbon source
[Ref.: #32212]		sucrose ChEBI	+	carbon source
		Only first 10 entries are displayed. Click here to see all.

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #32212]		catalase	+	1.11.1.6

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

[Ref.: #7388]	Sample type/isolated from	sediment
[Ref.: #7388]	Geographic location (country and/or sea, region)	Lake Chagannor, Inner Mongolia
[Ref.: #7388]	Country	China
[Ref.: #7388]	Country ISO 3 Code	CHN
[Ref.: #7388]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Sediment
#Environmental	#Terrestrial	#Sediment

What are isolation sources categories?

Global distribution of 16S sequence AM492160 (>99% sequence identity) for Salsuginibacillus kocurii subclade from Microbeatlas

Aquatic Samples	53
Soil Samples	10
Animal Samples	35
Plant Samples	1
Total Samples	99

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

Biosafety level

1

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.: #7388]	Salsuginibacillus kocurii 16S rRNA gene, type strain CH9dT	AM492160	1502	GenBank ENA	427078 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Salsuginibacillus kocurii DSM 18087	GCA_000377705	scaffold	GenBank ENA	1123239 tax ID	*
[Ref.: #66792]	Salsuginibacillus kocurii DSM 18087	1123239.3	wgs	PATRIC	1123239 tax ID	*
[Ref.: #66792]	Salsuginibacillus kocurii DSM 18087	2517572235	draft	JGI IMG/M	1123239 tax ID	*

GC-content

44.7 mol%

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Salsuginibacillus kocurii DSM 18087 DSM 18087 NCBI: GCA_000377705.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	yes	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Salsuginibacillus kocurii DSM 18087 DSM 18087 NCBI: GCA_000377705.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	84.321	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	96.218	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	81.631	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	yes	81.02	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	91.773	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	80.972	no

Availability in culture collections External links

Culture collection no.

DSM 18087, CCM 7365, CECT 7154, CGMCC 1.6287

SI-ID 310985

*

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Salsuginibacillus kocurii gen. nov., sp. nov., a moderately halophilic bacterium from soda-lake sediment.	Carrasco IJ, Marquez MC, Xue Y, Ma Y, Cowan DA, Jones BE, Grant WD, Ventosa A	Int J Syst Evol Microbiol	10.1099/ijs.0.65136-0	2007	*

References

#7388

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 18087

#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 )

#32212

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 #28454 (see below)

#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) .

#66793

Mukherjee et al.: GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life. 35: 676 - 683 2017 ( DOI 10.1038/nbt.3886 , PubMed 28604660 )

#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) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#71193

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-ID310985.1 )

#28454

IJSEM 2381 2007 ( DOI 10.1099/ijs.0.65136-0 , PubMed 17911315 )

* These data were automatically processed and therefore are not curated

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