Strain identifier

BacDive ID: 133995

Type strain: Yes

Species: Halomicroarcula pellucida

Strain Designation: BNERC31

Strain history: A. Echigo BNERC31.

NCBI tax ID(s): 1427151 (species)

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General

@ref: 31021

BacDive-ID: 133995

keywords: genome sequence, 16S sequence, Archaea, aerobe, Gram-negative, motile

description: Halomicroarcula pellucida BNERC31 is an aerobe, Gram-negative, motile archaeon that was isolated from food product.

NCBI tax id

  • NCBI tax id: 1427151
  • Matching level: species

strain history

  • @ref: 67770
  • history: A. Echigo BNERC31.

doi: 10.13145/bacdive133995.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/archaea
  • keyword: phylum/methanobacteriota
  • domain: Archaea
  • phylum: Methanobacteriota
  • class: Halobacteria
  • order: Halobacteriales
  • family: Haloarculaceae
  • genus: Halomicroarcula
  • species: Halomicroarcula pellucida
  • full scientific name: Halomicroarcula pellucida Echigo et al. 2013

@ref: 31021

domain: Archaea

phylum: Euryarchaeota

class: Halobacteria

order: Halobacteriales

family: Haloarculaceae

genus: Halomicroarcula

species: Halomicroarcula pellucida

strain designation: BNERC31

type strain: yes

Morphology

cell morphology

@refgram stainmotilityconfidence
31021negativeyes
69480negative99.986

pigmentation

  • @ref: 31021
  • production: no

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
31021positivegrowth25-55
31021positiveoptimum40thermophilic
67770positivegrowth37mesophilic

culture pH

@refabilitytypepHPH range
31021positivegrowth6.0-8.5alkaliphile
31021positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 31021
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.962

halophily

@refsaltgrowthtested relationconcentration
31021NaClpositivegrowth20-30 %
31021NaClpositiveoptimum25 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3102128757fructose+carbon source
3102128260galactose+carbon source
3102117754glycerol+carbon source
3102117306maltose+carbon source
3102130911sorbitol+carbon source
3102118222xylose+carbon source
3102117632nitrate+reduction

enzymes

  • @ref: 31021
  • value: gelatinase
  • activity: +

Isolation, sampling and environmental information

isolation

@refsample type
31021food product
67770Solar salt 'Sel marin de Guérande' from France

isolation source categories

  • Cat1: #Engineered
  • Cat2: #Food production
  • Cat3: #Food

taxonmaps

  • @ref: 69479
  • File name: preview.99_190139.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17657;96_70138;97_91090;98_123871;99_190139&stattab=map
  • Last taxonomy: Halomicroarcula
  • 16S sequence: AB766179
  • Sequence Identity:
  • Total samples: 38
  • soil counts: 22
  • aquatic counts: 16

Sequence information

16S sequences

  • @ref: 31021
  • description: Halomicroarcula pellucida gene for 16S ribosomal RNA, partial sequence, strain: BNERC31, rrnA
  • accession: AB766179
  • length: 1471
  • database: nuccore
  • NCBI tax ID: 1427151

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Halomicroarcula pellucida CECT 7537GCA_019599515contigncbi1427151
66792Halomicroarcula pellucida JCM 17820GCA_014647235contigncbi1427151
66792Halomicroarcula pellucida strain JCM 178201427151.3wgspatric1427151

GC content

@refGC-contentmethod
3102164.1
6777064.1high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno72.233no
gram-positiveno97.044yes
anaerobicno93.829no
halophileyes90.515yes
spore-formingno92.982no
thermophileno75.037no
glucose-utilyes91.165no
aerobicyes84.353yes
flagellatedno94.59no
glucose-fermentno78.265no

External links

@ref: 31021

culture collection no.: JCM 17820, CECT 7537

straininfo link

  • @ref: 91661
  • straininfo: 390919

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny23563231Halomicroarcula pellucida gen. nov., sp. nov., a non-pigmented, transparent-colony-forming, halophilic archaeon isolated from solar salt.Echigo A, Minegishi H, Shimane Y, Kamekura M, Itoh T, Usami RInt J Syst Evol Microbiol10.1099/ijs.0.049965-02013Base Composition, DNA, Archaeal/genetics, DNA-Directed RNA Polymerases/genetics, France, Genes, Archaeal, Halobacteriaceae/*classification/genetics/isolation & purification, Lipids/analysis, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Sodium ChlorideGenetics
Phylogeny24554639Halomicroarcula limicola sp. nov., isolated from a marine solar saltern, and emended description of the genus Halomicroarcula.Zhang WJ, Cui HLInt J Syst Evol Microbiol10.1099/ijs.0.062455-02014Base Composition, China, DNA, Archaeal/genetics, Genes, Archaeal, Glycolipids/chemistry, Halobacteriaceae/*classification/genetics/isolation & purification, Hydrogen-Ion Concentration, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Salts, Sodium Chloride/analysis, *Water MicrobiologyGenetics
34803972Genomic Insights Into New Species of the Genus Halomicroarcula Reveals Potential for New Osmoadaptative Strategies in Halophilic Archaea.Duran-Viseras A, Sanchez-Porro C, Ventosa AFront Microbiol10.3389/fmicb.2021.7517462021

Reference

@idauthorstitledoi/urlID_cross_referencepubmed
20215Parte, 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 DSMZ10.1099/ijsem.0.004332
31021Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172735128776041
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
91661Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID390919.1