Salimicrobium halophilum (DSM 4771, ATCC 49085, CCM 4074)

Name: Salimicrobium halophilum (DSM 4771, ATCC 49085, CCM 4074)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 1550

Type strain

Strain Designation N32-2

Culture col. no. DSM 4771 ATCC 49085 CCM 4074 HAMBI 2106 JCM 12305 4 more

NCBI tax ID(s) 86666

Special Collections DSMZ JCM

Links

Salimicrobium halophilum N32-2 is a mesophilic prokaryote that was isolated from rotting wood.

mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 10533

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

@ref 20215

Last LPSN update 2025-12-16 09:47:08

Domain Bacillati

Phylum Bacillota

Class Bacilli

Order Caryophanales

Family Bacillaceae

Genus Salimicrobium

Species Salimicrobium halophilum

Full scientific name Salimicrobium halophilum (Ventosa et al. 1990) Yoon et al. 2007

Synonyms (1)

Bacillus halophilus

Morphology

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
1817	MEDIUM 514 PLUS ADDITIONAL SALT (DSMZ Medium 514b)		Medium recipe at MediaDive	Name: MEDIUM 514 plus additional salt (DSMZ Medium 514b) Composition: NaCl 19.45 g/l Agar 17.5 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water
1817	15% MH MEDIUM (DSMZ Medium 582)		Medium recipe at MediaDive	Name: 15% MH MEDIUM (DSMZ Medium 582) Composition: NaCl 121.5 g/l MgSO4 14.4 g/l MgCl2 10.5 g/l Yeast extract 10.0 g/l Proteose peptone no. 3 5.0 g/l KCl 3.0 g/l Glucose 1.0 g/l CaCl2 0.54 g/l NaHCO3 0.09 g/l NaBr 0.039 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
1817	positive	growth	28	mesophilic
1817	positive	growth	37	mesophilic
67770	positive	growth	30	mesophilic

Physiology and metabolism

Observation

67770

Observationquinones: MK-7

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host Body Product	#Plant	#Timber
#Host	#Plants	#Tree
#Host	#Plants	#Decomposing plant

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
1817	rotting wood	Seashore	Japan	JPN	Asia
67770	Rotting wood on the seashore in Nauru

Taxonmaps

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

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
1817	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	IMG-taxon 2636416074 annotated assembly for Salimicrobium halophilum DSM 4771	scaffold	GCA_900100295	86666.3	2636416074	86666	73.84

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Bacillus halophilus gene for 16S ribosomal RNA	AB021188	1517	86666
20218	Bacillus halophilus 16S rRNA gene, strain DSM 4771T	AJ243920	1425	86666
20218	Salimicrobium halophilum gene for 16S rRNA, partial sequence, strain: NBRC 102426	AB681782	1493	86666

GC content

@ref	GC-content (mol%)	Method
1817	51.5	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Salimicrobium halophilum DSM 4771
NCBI: GCA_900100295

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	82.60	no
125439	motility	BacteriaNetⓘ	yes	84.80	no
125439	gram_stain	BacteriaNetⓘ	variable	87.50	no
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	72.40	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Salimicrobium halophilum strain DSM 4771
PATRIC: 86666.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	82.99	no
125438	anaerobic	anaerobicⓘ	no	96.28	no
125438	aerobic	aerobicⓘ	yes	79.35	no
125438	spore-forming	spore-formingⓘ	yes	79.68	no
125438	thermophilic	thermophileⓘ	no	90.38	yes
125438	flagellated	motile2+ⓘ	yes	83.49	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Metabolism	Purification and characterization of an extracellular esterase with organic solvent tolerance from a halotolerant isolate, Salimicrobium sp. LY19.	Xin L, Hui-Ying Y.	BMC Biotechnol	10.1186/1472-6750-13-108	2013
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 )
#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 .
#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 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Salimicrobium halophilum (DSM 4771, ATCC 49085, CCM 4074)

Name and taxonomic classification

Morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Observation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900100295

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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