Strain identifier

BacDive ID: 133835

Type strain: Yes

Species: Arenibacter hampyeongensis

Strain Designation: HP12

Strain history: C. O. Jeon HP12.

NCBI tax ID(s): 1028743 (species)

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General

@ref: 30631

BacDive-ID: 133835

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

description: Arenibacter hampyeongensis HP12 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from marine sediment.

NCBI tax id

  • NCBI tax id: 1028743
  • Matching level: species

strain history

  • @ref: 67770
  • history: C. O. Jeon HP12.

doi: 10.13145/bacdive133835.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Flavobacteriaceae
  • genus: Arenibacter
  • species: Arenibacter hampyeongensis
  • full scientific name: Arenibacter hampyeongensis Jeong et al. 2013

@ref: 30631

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Arenibacter

species: Arenibacter hampyeongensis

strain designation: HP12

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
30631negative2.9 µm0.45 µmrod-shapedno
69480negative99.973

pigmentation

  • @ref: 30631
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
30631positivegrowth05-35
30631positiveoptimum25mesophilic
67770positivegrowth25mesophilic

culture pH

@refabilitytypepHPH range
30631positivegrowth6-8.5alkaliphile
30631positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 30631
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
30631no
69481no100
69480no99.996

halophily

@refsaltgrowthtested relationconcentration
30631NaClpositivegrowth01-06 %
30631NaClpositiveoptimum1.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3063128757fructose+carbon source
3063128260galactose+carbon source
3063117234glucose+carbon source
3063117716lactose+carbon source
3063129864mannitol+carbon source
3063137684mannose+carbon source
3063128053melibiose+carbon source
3063116634raffinose+carbon source
3063117992sucrose+carbon source
3063153424tween 20+carbon source

enzymes

@refvalueactivityec
30631acid phosphatase+3.1.3.2
30631alkaline phosphatase+3.1.3.1
30631alpha-galactosidase+3.2.1.22
30631catalase+1.11.1.6
30631cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
30631marine sediment
67770Tidal flat on the Yellow Sea coast at HampyeongRepublic of KoreaKORAsia

isolation source categories

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

Sequence information

16S sequences

  • @ref: 30631
  • description: Arenibacter hampyeongensis strain HP12 16S ribosomal RNA gene, partial sequence
  • accession: JF751052
  • length: 1462
  • database: nuccore
  • NCBI tax ID: 1028743

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Arenibacter hampyeongensis strain JCM 177881028743.3wgspatric1028743
66792Arenibacter hampyeongensis JCM 177882835195961draftimg1028743
67770Arenibacter hampyeongensis JCM 17788GCA_002909255contigncbi1028743

GC content

@refGC-contentmethod
3063137.1
6777037.1thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno88.603yes
flagellatedno95.316yes
gram-positiveno97.894no
anaerobicno99.644yes
aerobicyes90.676no
halophileno86.32yes
spore-formingno96.336yes
thermophileno99.621no
glucose-utilyes88.91yes
glucose-fermentno89.375no

External links

@ref: 30631

culture collection no.: KACC 16193, JCM 17788

literature

  • topic: Phylogeny
  • Pubmed-ID: 22544794
  • title: Arenibacter hampyeongensis sp. nov., a marine bacterium isolated from a tidal flat.
  • authors: Jeong SH, Jin HM, Kim JM, Jeon CO
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.040683-0
  • year: 2012
  • mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Flavobacteriaceae/*classification/genetics/isolation & purification, Geologic Sediments/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phosphatidylethanolamines/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/analysis
  • topic2: Genetics

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
30631Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172696228776041
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/
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