Strain identifier

BacDive ID: 133717

Type strain: Yes

Species: Halomicrobium zhouii

Strain Designation: TBN51

Strain history: H.-L. Cui; Jiangsu Univ., China; TBN51.

NCBI tax ID(s): 767519 (species)

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General

@ref: 30262

BacDive-ID: 133717

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

description: Halomicrobium zhouii TBN51 is an aerobe, Gram-negative, motile archaeon that was isolated from marine sediment.

NCBI tax id

  • NCBI tax id: 767519
  • Matching level: species

strain history

  • @ref: 67770
  • history: H.-L. Cui; Jiangsu Univ., China; TBN51.

doi: 10.13145/bacdive133717.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/archaea
  • keyword: phylum/methanobacteriota
  • domain: Archaea
  • phylum: Methanobacteriota
  • class: Halobacteria
  • order: Halobacteriales
  • family: Haloarculaceae
  • genus: Halomicrobium
  • species: Halomicrobium zhouii
  • full scientific name: Halomicrobium zhouii Yang and Cui 2012

@ref: 30262

domain: Archaea

phylum: Euryarchaeota

class: Halobacteria

order: Halobacteriales

family: Haloarculaceae

genus: Halomicrobium

species: Halomicrobium zhouii

strain designation: TBN51

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
30262negativerod-shapedyes
69480negative99.971

pigmentation

  • @ref: 30262
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
30262positivegrowth20-55
30262positiveoptimum42thermophilic
67770positivegrowth37mesophilic

culture pH

@refabilitytypepHPH range
30262positivegrowth5.5-9.5alkaliphile
30262positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 30262
  • oxygen tolerance: aerobe

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 99.918

halophily

@refsaltgrowthtested relationconcentration
30262NaClpositivegrowth8.12-29.58 %
30262NaClpositiveoptimum15.08 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3026230089acetate+carbon source
3026228260galactose+carbon source
3026217234glucose+carbon source
3026229987glutamate+carbon source
3026217754glycerol+carbon source
3026224996lactate+carbon source
3026217716lactose+carbon source
3026237684mannose+carbon source
3026215361pyruvate+carbon source
3026217992sucrose+carbon source
3026217632nitrate+reduction

metabolite production

  • @ref: 30262
  • Chebi-ID: 16136
  • metabolite: hydrogen sulfide
  • production: yes

enzymes

@refvalueactivityec
30262catalase+1.11.1.6
30262cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
30262marine sediment
67770Marine solar saltern in JiangsuChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Environmental#Aquatic#Sediment

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
30262Halomicrobium zhouii 16S ribosomal RNA gene, partial sequenceHQ2155471474nuccore767519
67770Halomicrobium zhouii strain TBN51 16S ribosomal RNA gene, complete sequenceHM0639521472ena767519
67770Halomicrobium zhouii 16S ribosomal RNA gene, partial sequenceHQ2155461474ena767519

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Halomicrobium zhouii CGMCC 1.104572667527389draftimg767519
67770Halomicrobium zhouii CGMCC 1.10457GCA_900114435scaffoldncbi767519
66792Halomicrobium zhouii strain CGMCC 1.10457767519.3wgspatric767519

GC content

@refGC-contentmethod
3026269.1
6777069.1thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

  • trait: spore-forming
  • prediction: no
  • confidence: 84
  • training_data: no

External links

@ref: 30262

culture collection no.: CGMCC 1.10457, JCM 17095

literature

  • topic: Phylogeny
  • Pubmed-ID: 21764983
  • title: Halomicrobium zhouii sp. nov., a halophilic archaeon from a marine solar saltern.
  • authors: Yang X, Cui HL
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.031989-0
  • year: 2011
  • mesh: Base Composition, DNA, Archaeal/genetics, Geologic Sediments/*microbiology, Halobacteriaceae/classification/genetics/*isolation & purification/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Sodium Chloride/*metabolism
  • topic2: Metabolism

Reference

@idauthorstitledoi/urlID_cross_referencepubmedjournal
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
30262Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172660328776041
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
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa102533211880Nucleic 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 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