Name: Salimicrobium halophilum N32-2
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 1550

Type strain:

Species: Salimicrobium halophilum

Strain Designation: N32-2

Culture col. no.: DSM 4771, ATCC 49085, CCM 4074, HAMBI 2106, JCM 12305, LMG 17942, IAM 14939, NBRC 102426

Strain history: DSM 4771 <-- A. Ventosa <-- M. Kamekura N23-2.

NCBI tax ID(s): 86666 (species)

SI-ID 10533

LMG 17942, ATCC 49085, CCM 4074, DSM 4771, KCTC 3566, HAMBI 2106, IAM 14939, JCM 12305, NBRC 102426, CGMCC 1.3409

Special Collections

DSMZ
JCM

Section

Salimicrobium halophilum N32-2 is a Gram-positive bacterium that was isolated from rotting wood.

Gram-positive
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	*Salimicrobium*
	Species	**Salimicrobium halophilum**
	Full Scientific Name (LPSN)	Salimicrobium halophilum (Ventosa et al. 1990) Yoon et al. 2007

Synonym

Bacillus halophilus

Information on culture and growth conditions Culture and growth conditions

[Ref.: #1817]

Culture medium

MEDIUM 514 PLUS ADDITIONAL SALT (DSMZ Medium 514b)

[Ref.: #1817]

Culture medium growth

[Ref.: #1817]

Culture medium link

Medium recipe at MediaDive

[Ref.: #1817]

Culture medium composition

expand / minimize

[Ref.: #1817]

Culture medium

15% MH MEDIUM (DSMZ Medium 582)

[Ref.: #1817]

Culture medium growth

[Ref.: #1817]

Culture medium link

Medium recipe at MediaDive

[Ref.: #1817]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #1817]	growth	28 °C
[Ref.: #1817]	growth	37 °C
[Ref.: #67770]	growth	30 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #67770]

Observation

quinones: MK-7

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

[Ref.: #1817]	Sample type/isolated from	rotting wood
[Ref.: #1817]	Geographic location (country and/or sea, region)	Seashore
[Ref.: #1817]	Country	Japan
[Ref.: #1817]	Country ISO 3 Code	JPN
[Ref.: #1817]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Rotting wood on the seashore in Nauru
* marker position based on {}

Isolation sources categories

#Host Body Product	#Plant	#Timber
#Host	#Plants	#Tree
#Host	#Plants	#Decomposing plant

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AJ243920 (>99% sequence identity) for Salimicrobium from Microbeatlas

Aquatic Samples	49
Soil Samples	9
Animal Samples	45
Plant Samples	1
Total Samples	104

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

[Ref.: #1817]

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.: #20218]	Bacillus halophilus gene for 16S ribosomal RNA	AB021188	1517	GenBank ENA	86666 tax ID	*
[Ref.: #20218]	Bacillus halophilus 16S rRNA gene, strain DSM 4771T	AJ243920	1425	GenBank ENA	86666 tax ID	*
[Ref.: #20218]	Salimicrobium halophilum gene for 16S rRNA, partial sequence, strain: NBRC 102426	AB681782	1493	GenBank ENA	86666 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Salimicrobium halophilum DSM 4771	GCA_900100295	scaffold	GenBank ENA	86666 tax ID
[Ref.: #66792]	Salimicrobium halophilum strain DSM 4771	86666.3	wgs	PATRIC	86666 tax ID	*
[Ref.: #66792]	Salimicrobium halophilum DSM 4771	2636416074	draft	JGI IMG/M	86666 tax ID	*

[Ref.: #1817]

GC-content

51.5 mol%

thermal denaturation, midpoint method (Tm)

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: Salimicrobium halophilum DSM 4771 NCBI: GCA_900100295.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	yes	89	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Salimicrobium halophilum strain DSM 4771 PATRIC: 86666.3
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	82.989	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	96.28	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	79.353	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	yes	79.68	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	90.375	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	83.487	no

Availability in culture collections External links

[Ref.: #1817]

Culture collection no.

DSM 4771, ATCC 49085, CCM 4074, HAMBI 2106, JCM 12305, LMG 17942, IAM 14939, NBRC 102426

[Ref.: #71195]

SI-ID 10533

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Salimicrobium jeotgali sp. nov., isolated from salted, fermented seafood.	Choi EJ, Jin HM, Kim KH, Jeon CO	Int J Syst Evol Microbiol	10.1099/ijs.0.062042-0	2014	*
Phylogeny	Salimicrobium salexigens sp. nov., a moderately halophilic bacterium from salted hides.	de la Haba RR, Yilmaz P, Sanchez-Porro C, Birbir M, Ventosa A	Syst Appl Microbiol	10.1016/j.syapm.2011.04.002	2011	*

References

#1817

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 4771

#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 )

#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;

#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 )

#71195

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-ID10533.1 )

* These data were automatically processed and therefore are not curated

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Salimicrobium halophilum DSM 4771

Salimicrobium halophilum strain DSM 4771

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