Strain identifier

BacDive ID: 1358

Type strain: Yes

Species: Halolactibacillus miurensis

Strain Designation: M23-1

Strain history: <- M. Ishikawa, M23-1

NCBI tax ID(s): 306541 (species)

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General

@ref: 6741

BacDive-ID: 1358

DSM-Number: 17074

keywords: genome sequence, 16S sequence, Bacteria, microaerophile, slightly halophilic, mesophilic, Gram-positive, motile, rod-shaped

description: Halolactibacillus miurensis M23-1 is a microaerophile, slightly halophilic, mesophilic bacterium that was isolated from decaying alga.

NCBI tax id

  • NCBI tax id: 306541
  • Matching level: species

strain history

  • @ref: 6741
  • history: <- M. Ishikawa, M23-1

doi: 10.13145/bacdive1358.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Bacillaceae
  • genus: Halolactibacillus
  • species: Halolactibacillus miurensis
  • full scientific name: Halolactibacillus miurensis Ishikawa et al. 2005

@ref: 6741

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Bacillales

family: Bacillaceae

genus: Halolactibacillus

species: Halolactibacillus miurensis

full scientific name: Halolactibacillus miurensis Ishikawa et al. 2005

strain designation: M23-1

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangementconfidence
22995positive3.6-4.5 µm0.6-0.9 µmrod-shapedyesperitrichous
69480yes95.423
69480positive99.72

Culture and growth conditions

culture medium

  • @ref: 6741
  • name: BOGORIELLA MEDIUM (DSMZ Medium 785)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/785
  • composition: Name: BOGORIELLA MEDIUM (DSMZ Medium 785) Composition: NaCl 40.0 g/l Glucose 10.0 g/l Na2CO3 10.0 g/l Yeast extract 5.0 g/l Peptone 5.0 g/l KH2PO4 1.0 g/l MgSO4 x 7 H2O 0.2 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
6741positivegrowth30mesophilic
22995positivegrowth5.0-45.0
22995positiveoptimum37.0-40.0

culture pH

@refabilitytypepHPH range
22995positiveoptimum9.5alkaliphile
22995positivegrowth6.0-10.0

Physiology and metabolism

oxygen tolerance

  • @ref: 6741
  • oxygen tolerance: microaerophile

spore formation

@refspore formationconfidence
22995no
69481no100

halophily

@refhalophily levelsalttested relationconcentrationgrowth
22995slightly halophilic
22995halotolerant
22995NaCloptimum2.5-3.0 %(w/v)
22995NaClgrowth0.0-25.5 %positive

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2299515963ribitol-fermentation
2299517108D-arabinose-fermentation
2299563150D-rhamnose-fermentation
2299517924D-sorbitol-fermentation
2299516813galactitol-fermentation
2299517268myo-inositol-fermentation
2299317632nitrate-reduction
2299517057cellobiose+fermentation
2299515824D-fructose+fermentation
2299512936D-galactose+fermentation
2299517634D-glucose+fermentation
2299516899D-mannitol+fermentation
2299516024D-mannose+fermentation
229956731melezitose+fermentation
2299516634raffinose+fermentation
2299516988D-ribose+fermentation
2299516551D-trehalose+fermentation
2299565327D-xylose+fermentation
2299517754glycerol+fermentation
2299515443inulin+fermentation
2299530849L-arabinose+fermentation
2299517716lactose+fermentation
2299517306maltose+fermentation
2299528053melibiose+fermentation
22995320061methyl alpha-D-glucopyranoside+fermentation
2299517814salicin+fermentation
2299528017starch+fermentation
2299517992sucrose+fermentation

enzymes

@refvalueactivityec
22995catalase-1.11.1.6
22995cytochrome oxidase-1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
22995decaying algaOura beach,Miura Peninsula,Kanagawa PrefectureJapanJPNAsia35.1333139.667
6741decaying marine algaOura beach, Miura Peninsula, Kanagawa PrefectureJapanJPNAsia

isolation source categories

Cat1Cat2Cat3
#Host#Algae
#Host#Plants#Decomposing plant

taxonmaps

  • @ref: 69479
  • File name: preview.99_8214.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_3777;97_4656;98_5978;99_8214&stattab=map
  • Last taxonomy: Halolactibacillus
  • 16S sequence: AB362698
  • Sequence Identity:
  • Total samples: 1193
  • soil counts: 196
  • aquatic counts: 442
  • animal counts: 525
  • plant counts: 30

Safety information

risk assessment

  • @ref: 6741
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Halolactibacillus miurensis gene for 16S rRNA, partial sequence, strain: NRIC 0633AB3626981557ena306541
20218Halolactibacillus miurensis gene for 16S rRNA, partial sequence, strain: NBRC 100873AB6812771491ena306541
6741Halolactibacillus miurensis gene for 16S rRNA, partial sequenceAB1967841491ena306541

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Halolactibacillus miurensis NBRC 100873GCA_007990305contigncbi306541
66792Halolactibacillus miurensis DSM 17074GCA_900116255scaffoldncbi306541
66792Halolactibacillus miurensis strain DSM 17074306541.5wgspatric306541
66792Halolactibacillus miurensis strain NBRC 100873306541.6wgspatric306541
66792Halolactibacillus miurensis DSM 170742675903221draftimg306541

GC content

  • @ref: 6741
  • GC-content: 38.5

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes88.539yes
flagellatedyes66.931no
gram-positiveyes90.836no
anaerobicno94.119yes
aerobicno90.877yes
halophileyes84.262no
spore-formingyes62.57no
glucose-fermentyes66.622yes
thermophileno95.652yes
glucose-utilyes88.483no

External links

@ref: 6741

culture collection no.: DSM 17074, IAM 15247, NBRC 100873, NRIC 0633

straininfo link

  • @ref: 71009
  • straininfo: 281448

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny16280507Halolactibacillus halophilus gen. nov., sp. nov. and Halolactibacillus miurensis sp. nov., halophilic and alkaliphilic marine lactic acid bacteria constituting a phylogenetic lineage in Bacillus rRNA group 1.Ishikawa M, Nakajima K, Itamiya Y, Furukawa S, Yamamoto Y, Yamasato KInt J Syst Evol Microbiol10.1099/ijs.0.63713-02005Animals, Bacillaceae/*classification/genetics/isolation & purification, Bacillus/*classification/genetics, Base Composition, DNA, Ribosomal/analysis, Hydrogen-Ion Concentration, Lactic Acid/metabolism, *Marine Biology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/analysis/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolismMetabolism
Phylogeny22297696Alkalilactibacillus ikkensis, gen. nov., sp. nov., a novel enzyme-producing bacterium from a cold and alkaline environment in Greenland.Schmidt M, Prieme A, Johansen A, Stougaard PExtremophiles10.1007/s00792-012-0430-72012Enzymology

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
6741Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17074)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17074
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
22993Yi-Guang Chen,Yu-Qin Zhang,Zhu-Xiang Liu,Da-Chun Zhuang,Hans-Peter Klenk,Shu-Kun Tang,Xiao-Long Cui,Wen-Jun Li10.1099/ijs.0.010801-0Halobacillus salsuginis sp. nov., a moderately halophilic bacterium from a subterranean brineIJSEM 59: 2505-2509 200919622644
22995Morio Ishikawa,Kazuyuki Nakajima,Yuko Itamiya,Sayumi Furukawa,Yasushi Yamamoto,Kazuhide Yamasato10.1099/ijs.0.63713-0Halolactibacillus halophilus gen. nov., sp. nov. and Halolactibacillus miurensis sp. nov., halophilic and alkaliphilic marine lactic acid bacteria constituting a phylogenetic lineage in Bacillus rRNA group 1IJSEM 55: 2427-2439 200516280507
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 updatesNucleic Acids Res. 49: D498-D508 202033211880
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
71009Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID281448.1StrainInfo: A central database for resolving microbial strain identifiers