Strain identifier

BacDive ID: 1571

Type strain: Yes

Species: Salisediminibacterium halotolerans

Strain Designation: halo-2

Strain history: <- NBRC; NBRC 104935

NCBI tax ID(s): 517425 (species)

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General

@ref: 18252

BacDive-ID: 1571

DSM-Number: 26530

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-positive, rod-shaped

description: Salisediminibacterium halotolerans halo-2 is a facultative anaerobe, mesophilic, Gram-positive bacterium that was isolated from soda lake sediment.

NCBI tax id

  • NCBI tax id: 517425
  • Matching level: species

strain history

  • @ref: 18252
  • history: <- NBRC; NBRC 104935

doi: 10.13145/bacdive1571.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Bacillaceae
  • genus: Salisediminibacterium
  • species: Salisediminibacterium halotolerans
  • full scientific name: Salisediminibacterium halotolerans Jiang et al. 2012

@ref: 18252

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Bacillaceae

genus: Salisediminibacterium

species: Salisediminibacterium halotolerans

full scientific name: Salisediminibacterium halotolerans Jiang et al. 2012 emend. Sultanpuram et al. 2015

strain designation: halo-2

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
30366positive3.5 µm0.65 µmrod-shapedno
69480yes92.838
69480positive100

pigmentation

  • @ref: 30366
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 18252
  • name: HALOPIGER MEDIUM (SG) (DSMZ Medium 1520)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1520
  • composition: Name: HALOPIGER MEDIUM (SG) (DSMZ Medium 1520; with strain-specific modifications) Composition: NaCl 90.0 g/l MgSO4 x 7 H2O 20.0 g/l Agar 20.0 g/l Casamino acids 7.5 g/l KCl 3.0 g/l Trisodium citrate 3.0 g/l Yeast extract 1.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
18252positivegrowth37mesophilic
30366positivegrowth18-50
30366positiveoptimum37mesophilic

culture pH

@refabilitytypepHPH range
30366positivegrowth05-10alkaliphile
30366positiveoptimum8

Physiology and metabolism

oxygen tolerance

  • @ref: 30366
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationconfidence
30366no
69481no98

halophily

@refsaltgrowthtested relationconcentration
30366NaClpositivegrowth3-30 %
30366NaClpositiveoptimum9 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3036617057cellobiose+carbon source
3036629864mannitol+carbon source
3036627082trehalose+carbon source

metabolite production

  • @ref: 30366
  • Chebi-ID: 16136
  • metabolite: hydrogen sulfide
  • production: yes

enzymes

  • @ref: 30366
  • value: gelatinase
  • activity: +

Isolation, sampling and environmental information

isolation

  • @ref: 18252
  • sample type: soda lake sediment
  • geographic location: Inner-Mongolia
  • country: China
  • origin.country: CHN
  • continent: Asia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Lake (large)
#Environmental#Aquatic#Sediment
#Condition#Alkaline

taxonmaps

  • @ref: 69479
  • File name: preview.99_49278.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_10901;97_13209;98_16263;99_49278&stattab=map
  • Last taxonomy: Salisediminibacterium
  • 16S sequence: EU581836
  • Sequence Identity:
  • Total samples: 67
  • soil counts: 14
  • aquatic counts: 48
  • animal counts: 4
  • plant counts: 1

Safety information

risk assessment

  • @ref: 18252
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 18252
  • description: Salisediminibacterium halotolerans strain halo-2 16S ribosomal RNA gene, partial sequence
  • accession: EU581836
  • length: 1443
  • database: ena
  • NCBI tax ID: 517425

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Salisediminibacterium halotolerans DSM 26530GCA_003814815scaffoldncbi517425
66792Salisediminibacterium halotolerans CGMCC 1.7654GCA_007993825scaffoldncbi517425
66792Salisediminibacterium halotolerans NBRC 104935GCA_007988985contigncbi517425
66792Salisediminibacterium halotolerans strain CGMCC 1.7654517425.5wgspatric517425
66792Salisediminibacterium halotolerans strain DSM 26530517425.3wgspatric517425
66792Salisediminibacterium halotolerans strain NBRC 104935517425.4wgspatric517425
66792Salisediminibacterium halotolerans CGMCC 1.76542684623023draftimg517425
66792Salisediminibacterium halotolerans DSM 265302786546144draftimg517425

GC content

  • @ref: 18252
  • GC-content: 48.2

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno98no
motileyes73.036yes
flagellatedno58.133yes
gram-positiveyes88.549yes
anaerobicno94.826yes
aerobicyes54.681no
halophileyes92.608yes
spore-formingyes63.558no
thermophileno95.136yes
glucose-utilyes89.283no
glucose-fermentno81.068no

External links

@ref: 18252

culture collection no.: DSM 26530, CGMCC 1.7654, NBRC 104935

straininfo link

  • @ref: 71216
  • straininfo: 407668

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny22039006Salisediminibacterium halotolerans gen. nov., sp. nov., a halophilic bacterium from soda lake sediment.Jiang F, Cao SJ, Li ZH, Fan H, Li HF, Liu WJ, Yuan HLInt J Syst Evol Microbiol10.1099/ijs.0.034488-02011Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/analysis, Geologic Sediments/microbiology, Gram-Positive Asporogenous Rods/*classification/genetics/isolation & purification, Lakes/*microbiology, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Water MicrobiologyGenetics
Phylogeny25638045Salisediminibacterium haloalkalitolerans sp. nov., isolated from Lonar soda lake, India, and a proposal for reclassification of Bacillus locisalis as Salisediminibacterium locisalis comb. nov., and the emended description of the genus Salisediminibacterium and of the species Salisediminibacterium halotolerans.Sultanpuram VR, Mothe T, Mohammed FArch Microbiol10.1007/s00203-015-1081-82015Bacillus/*classification/*genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Cell Wall/metabolism, DNA, Bacterial/genetics, Diaminopimelic Acid/analogs & derivatives/metabolism, Fatty Acids/*analysis, India, Lakes/*microbiology, Phospholipids/*analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAMetabolism

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
18252Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26530)https://www.dsmz.de/collection/catalogue/details/culture/DSM-26530
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
30366Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2670628776041
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69479João 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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
71216Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID407668.1StrainInfo: A central database for resolving microbial strain identifiers