Strain identifier

BacDive ID: 134079

Type strain: Yes

Species: Haloferula harenae

Strain Designation: YM23-227

Strain history: <- JW Yoon, Tokoy Univ., Japan <- Y Matsuo, MBI

NCBI tax ID(s): 490092 (species)

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General

@ref: 31193

BacDive-ID: 134079

keywords: 16S sequence, Bacteria, aerobe, Gram-negative, rod-shaped

description: Haloferula harenae YM23-227 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from marine sediment.

NCBI tax id

  • NCBI tax id: 490092
  • Matching level: species

strain history

  • @ref: 67771
  • history: <- JW Yoon, Tokoy Univ., Japan <- Y Matsuo, MBI

doi: 10.13145/bacdive134079.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/verrucomicrobiota
  • domain: Bacteria
  • phylum: Verrucomicrobiota
  • class: Verrucomicrobiia
  • order: Verrucomicrobiales
  • family: Verrucomicrobiaceae
  • genus: Haloferula
  • species: Haloferula harenae
  • full scientific name: Haloferula harenae Yoon et al. 2008

@ref: 31193

domain: Bacteria

phylum: Verrucomicrobia

class: Verrucomicrobiae

order: Verrucomicrobiales

family: Verrucomicrobiaceae

genus: Haloferula

species: Haloferula harenae

strain designation: YM23-227

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
31193negative1.5-2 µm0.8-1 µmrod-shapedno
67771rod-shapedno
67771negative

pigmentation

  • @ref: 31193
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
31193positivegrowth20-37
31193positiveoptimum25-30mesophilic
67771positivegrowth25-30mesophilic

culture pH

@refabilitytypepHPH range
31193positivegrowth06-09alkaliphile
31193positiveoptimum06-09

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
31193aerobe
67771aerobe

spore formation

@refspore formation
31193no
67771no

halophily

@refsaltgrowthtested relationconcentration
31193NaClpositivegrowth0-5 %
31193NaClpositiveoptimum0-5 %

observation

@refobservation
31193aggregates in chains
67771quinones: MK-9

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3119322599arabinose+carbon source
3119317057cellobiose+carbon source
3119323652dextrin+carbon source
3119328757fructose+carbon source
3119328260galactose+carbon source
3119317234glucose+carbon source
3119317754glycerol+carbon source
3119317716lactose+carbon source
3119317306maltose+carbon source
3119337684mannose+carbon source
3119328053melibiose+carbon source
31193506227N-acetylglucosamine+carbon source
3119316634raffinose+carbon source
3119330031succinate+carbon source
3119317992sucrose+carbon source
3119327082trehalose+carbon source

enzymes

@refvalueactivityec
31193acid phosphatase+3.1.3.2
31193alkaline phosphatase+3.1.3.1
31193catalase+1.11.1.6
31193cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
31193marine sediment
67771From marine sedimentMilky Way marine lake(°15′49.2′ N13°24′55.7′′E)PalauPLWAustralia and Oceania

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_24963.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_545;96_12493;97_15167;98_18766;99_24963&stattab=map
  • Last taxonomy: Haloferula harenae subclade
  • 16S sequence: AB372852
  • Sequence Identity:
  • Total samples: 593
  • soil counts: 11
  • aquatic counts: 515
  • animal counts: 65
  • plant counts: 2

Sequence information

16S sequences

  • @ref: 31193
  • description: Haloferula harenae gene for 16S rRNA, partial sequence, strain: YM23-227
  • accession: AB372852
  • length: 1440
  • database: nuccore
  • NCBI tax ID: 490092

GC content

  • @ref: 31193
  • GC-content: 63.8

External links

@ref: 31193

culture collection no.: MBIC 08299, KCTC 22198

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny18984682Haloferula rosea gen. nov., sp. nov., Haloferula harenae sp. nov., Haloferula phyci sp. nov., Haloferula helveola sp. nov. and Haloferula sargassicola sp. nov., five marine representatives of the family Verrucomicrobiaceae within the phylum 'Verrucomicrobia'.Yoon J, Matsuo Y, Katsuta A, Jang JH, Matsuda S, Adachi K, Kasai H, Yokota AInt J Syst Evol Microbiol10.1099/ijs.0.2008/000711-02008Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Eukaryota/*microbiology, Fatty Acids/analysis, Genes, rRNA, Geologic Sediments/*microbiology, Gram-Negative Bacteria/*classification/genetics/isolation & purification/physiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phenotype, Phylogeny, Porifera/microbiology, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Species SpecificityGenetics
Phylogeny22307510Haloferula chungangensis sp. nov., isolated from marine sediment.Kang H, Traiwan J, Weerawongwiwat V, Jung MY, Jeong JH, Myung SC, Lee KC, Lee JS, Kim WInt J Syst Evol Microbiol10.1099/ijs.0.039016-02012Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Geologic Sediments/*microbiology, Gram-Negative Facultatively Anaerobic Rods/*classification/genetics/isolation & purification, Molecular Sequence Data, Peptidoglycan/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/analysisGenetics

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
31193Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172752028776041
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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/