Strain identifier

BacDive ID: 1570

Type strain: Yes

Species: Natribacillus halophilus

Strain Designation: HN30

Strain history: A. Echigo HN30.

NCBI tax ID(s): 549003 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 15937

BacDive-ID: 1570

DSM-Number: 21771

keywords: genome sequence, 16S sequence, Bacteria, aerobe, spore-forming, mesophilic, Gram-positive, motile, rod-shaped

description: Natribacillus halophilus HN30 is an aerobe, spore-forming, mesophilic bacterium that was isolated from ordinary, non-saline garden soil.

NCBI tax id

  • NCBI tax id: 549003
  • Matching level: species

strain history

@refhistory
15937<- A. Echigo, Toyo Univ., Bio-Nano Electronics Res. Ctr., Kawago, Saitama, Japan; HN30
67770A. Echigo HN30.

doi: 10.13145/bacdive1570.20230509.8.1

Name and taxonomic classification

LPSN

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

@ref: 15937

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Bacillaceae

genus: Natribacillus

species: Natribacillus halophilus

full scientific name: Natribacillus halophilus Echigo et al. 2012

strain designation: HN30

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
30028positive3.0-5.0 µm1.0-1.5 µmrod-shapedyes
69480positive100

pigmentation

  • @ref: 30028
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 15937
  • name: HALOBACTERIA MEDIUM (DSMZ Medium 372)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/372
  • composition: Name: HALOBACTERIA MEDIUM (DSMZ Medium 372; with strain-specific modifications) Composition: NaCl 100.0 g/l MgSO4 x 7 H2O 20.0 g/l Agar 20.0 g/l Yeast extract 5.0 g/l Casamino acids 5.0 g/l Na3-citrate 3.0 g/l KCl 2.0 g/l Na glutamate 1.0 g/l FeCl2 x 4 H2O 0.036 g/l MnCl2 x 4 H2O 0.00036 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
15937positivegrowth35mesophilic
30028positivegrowth20-40
30028positiveoptimum30mesophilic
67770positivegrowth37mesophilic

culture pH

@refabilitytypepHPH range
30028positivegrowth6.5-10.0alkaliphile
30028positiveoptimum8.0-8.5

Physiology and metabolism

oxygen tolerance

  • @ref: 30028
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
30028yes
69480yes99.714

halophily

@refsaltgrowthtested relationconcentration
30028NaClpositivegrowth7-23 %
30028NaClpositiveoptimum10-15 %

observation

  • @ref: 67770
  • observation: quinones: MK-7

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3002829864mannitol+carbon source
3002816634raffinose+carbon source
3002830911sorbitol+carbon source
3002817992sucrose+carbon source
3002827082trehalose+carbon source

enzymes

@refvalueactivityec
30028catalase+1.11.1.6
30028gelatinase+
30028cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
15937ordinary, non-saline garden soilSaitama, Okabe CityJapanJPNAsia
67770Garden soil in Okibe CitySaitama Pref.JapanJPNAsia

isolation source categories

Cat1Cat2Cat3
#Engineered#Agriculture#Garden
#Environmental#Terrestrial#Soil

Safety information

risk assessment

  • @ref: 15937
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 15937
  • description: Natribacillus halophilus gene for 16S rRNA, partial sequence
  • accession: AB449109
  • length: 1557
  • database: ena
  • NCBI tax ID: 549003

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Natribacillus halophilus strain DSM 21771549003.4wgspatric549003
66792Natribacillus halophilus DSM 217712634166325draftimg549003
67770Natribacillus halophilus DSM 21771GCA_900100185scaffoldncbi549003

GC content

@refGC-contentmethod
1593747high performance liquid chromatography (HPLC)
3002847

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes61no
gram-positiveyes90.081yes
anaerobicno98.435yes
halophileyes94.258yes
spore-formingyes93.275yes
glucose-utilyes88.249no
thermophileno95.587yes
aerobicyes91.009yes
motileyes80.118no
flagellatedno60.546no
glucose-fermentno90.002no

External links

@ref: 15937

culture collection no.: DSM 21771, JCM 15649

straininfo link

  • @ref: 71215
  • straininfo: 407591

literature

  • topic: Phylogeny
  • Pubmed-ID: 21398507
  • title: Natribacillus halophilus gen. nov., sp. nov., a moderately halophilic and alkalitolerant bacterium isolated from soil.
  • authors: Echigo A, Minegishi H, Shimane Y, Kamekura M, Usami R
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.028506-0
  • year: 2011
  • mesh: Bacillaceae/*classification/genetics/isolation & purification/*physiology, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Genes, rRNA, Hydrogen-Ion Concentration, Lipids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Sodium Chloride/pharmacology, *Soil Microbiology, Species Specificity
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmedjournal
15937Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21771)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21771
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
30028Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2639228776041
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updates33211880Nucleic Acids Res. 49: D498-D508 2020
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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)
71215Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID407591.1StrainInfo: A central database for resolving microbial strain identifiers