Strain identifier

BacDive ID: 5970

Type strain: Yes

Species: Halostagnicola kamekurae

Strain Designation: 194-10

Strain history: H. Minegishi 194-10.

NCBI tax ID(s): 619731 (species)

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General

@ref: 16329

BacDive-ID: 5970

DSM-Number: 22427

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

description: Halostagnicola kamekurae 194-10 is an aerobe, spore-forming, mesophilic archaeon that was isolated from solar salt.

NCBI tax id

  • NCBI tax id: 619731
  • Matching level: species

strain history

@refhistory
16329<- H. Minegishi, Bio-Nano Electronics Res. Centre, Toyo Univ., Kawagoe, Japan; 194-10
67770H. Minegishi 194-10.

doi: 10.13145/bacdive5970.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/archaea
  • keyword: phylum/methanobacteriota
  • domain: Archaea
  • phylum: Methanobacteriota
  • class: Halobacteria
  • order: Natrialbales
  • family: Natrialbaceae
  • genus: Halostagnicola
  • species: Halostagnicola kamekurae
  • full scientific name: Halostagnicola kamekurae Nagaoka et al. 2010

@ref: 16329

domain: Archaea

phylum: Euryarchaeota

class: Halobacteria

order: Halobacteriales

family: Natrialbaceae

genus: Halostagnicola

species: Halostagnicola kamekurae

full scientific name: Halostagnicola kamekurae Nagaoka et al. 2010

strain designation: 194-10

type strain: yes

Morphology

cell morphology

  • @ref: 29502
  • gram stain: negative
  • cell length: 2-2.5 µm
  • cell width: 0.8-1 µm
  • cell shape: rod-shaped
  • motility: yes

pigmentation

  • @ref: 29502
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 16329
  • name: HALOBACTERIA MEDIUM (DSMZ Medium 372)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/372
  • composition: Name: HALOBACTERIA MEDIUM (DSMZ Medium 372) Composition: NaCl 200.0 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
16329positivegrowth37mesophilic
29502positivegrowth20-45
29502positiveoptimum30mesophilic
67770positivegrowth37mesophilic

culture pH

@refabilitytypepHPH range
29502positivegrowth06-09alkaliphile
29502positiveoptimum6.5-7

Physiology and metabolism

oxygen tolerance

  • @ref: 29502
  • oxygen tolerance: aerobe

spore formation

  • @ref: 29502
  • spore formation: yes

halophily

@refsaltgrowthtested relationconcentration
29502NaClpositivegrowth10-30 %
29502NaClpositiveoptimum15 %

observation

  • @ref: 29502
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2950230089acetate+carbon source
2950222599arabinose+carbon source
2950228260galactose+carbon source
2950217234glucose+carbon source
2950229987glutamate+carbon source
2950217754glycerol+carbon source
2950217716lactose+carbon source
2950225115malate+carbon source
2950217306maltose+carbon source
2950237684mannose+carbon source
2950217272propionate+carbon source
2950216634raffinose+carbon source
2950227082trehalose+carbon source
2950217632nitrate+reduction

metabolite production

  • @ref: 29502
  • Chebi-ID: 35581
  • metabolite: indole
  • production: yes

metabolite tests

  • @ref: 29502
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: +

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
16329solar saltisolated in Japan from solar salt imported from the PhilippinesPhilippinesPHLAsia
67770Solar saltern sample imported into Japan from the Philippines

isolation source categories

  • Cat1: #Condition
  • Cat2: #Saline

Safety information

risk assessment

  • @ref: 16329
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 16329
  • description: Halostagnicola kamekurae gene for 16S ribosomal RNA, partial sequence
  • accession: AB489220
  • length: 1433
  • database: ena
  • NCBI tax ID: 619731

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Halostagnicola kamekurae DSM 224272639762563draftimg619731
67770Halostagnicola kamekurae DSM 22427GCA_900116205contigncbi619731
66792Halostagnicola kamekurae strain DSM 22427619731.3wgspatric619731

GC content

@refGC-contentmethod
1632959.8
6777059.8high performance liquid chromatography (HPLC)

External links

@ref: 16329

culture collection no.: DSM 22427, JCM 16110, CECT 7536

straininfo link

  • @ref: 75459
  • straininfo: 374235

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny20081018Halostagnicola kamekurae sp. nov., an extremely halophilic archaeon from solar salt.Nagaoka S, Minegishi H, Echigo A, Usami RInt J Syst Evol Microbiol10.1099/ijs.0.014449-02010Base Composition, DNA, Archaeal/genetics, Halobacteriaceae/*classification/genetics/isolation & purification, Lipids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Philippines, *Phylogeny, RNA, Ribosomal, 16S/genetics, Salts, Sequence Analysis, DNAGenetics
Phylogeny20543148Halostagnicola alkaliphila sp. nov., an alkaliphilic haloarchaeon from commercial rock salt.Nagaoka S, Minegishi H, Echigo A, Shimane Y, Kamekura M, Usami RInt J Syst Evol Microbiol10.1099/ijs.0.023119-02010Alkalies/*metabolism, China, DNA, Archaeal/genetics, Fatty Acids/metabolism, Halobacteriaceae/*classification/genetics/*isolation & purification/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Sodium Chloride/*metabolismMetabolism
Phylogeny25479949Halostagnicola bangensis sp. nov., an alkaliphilic haloarchaeon from a soda lake.Corral P, Corcelli A, Ventosa AInt J Syst Evol Microbiol10.1099/ijs.0.0000062014Base Composition, DNA, Archaeal/genetics, Halobacteriaceae/*classification/genetics/isolation & purification, Lakes, Lipids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Tibet, *Water MicrobiologyGenetics

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
16329Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22427)https://www.dsmz.de/collection/catalogue/details/culture/DSM-22427
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
29502Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2590228776041
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
75459Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID374235.1StrainInfo: A central database for resolving microbial strain identifiers