Strain identifier

BacDive ID: 133770

Type strain: Yes

Species: Oceanisphaera arctica

Strain Designation: V1-41

NCBI tax ID(s): 641510 (species)

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General

@ref: 30455

BacDive-ID: 133770

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

description: Oceanisphaera arctica V1-41 is an aerobe, Gram-negative, coccus-shaped bacterium that was isolated from marine sediment.

NCBI tax id

  • NCBI tax id: 641510
  • Matching level: species

doi: 10.13145/bacdive133770.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Aeromonadales
  • family: Aeromonadaceae
  • genus: Oceanisphaera
  • species: Oceanisphaera arctica
  • full scientific name: Oceanisphaera arctica Srinivas et al. 2012

  • synonyms

    • @ref: 20215
    • synonym: Oceanisphaera arctica

@ref: 30455

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Aeromonadales

family: Aeromonadaceae

genus: Oceanisphaera

species: Oceanisphaera arctica

strain designation: V1-41

type strain: yes

Morphology

cell morphology

@refgram staincell widthcell shapemotilityconfidence
30455negative0.55 µmcoccus-shapedno
69480yes97.867
69480negative99.997

pigmentation

  • @ref: 30455
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
30455positivegrowth04-37
30455positiveoptimum24psychrophilic
61740positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
30455positivegrowth07-11alkaliphile
30455positiveoptimum8

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
30455aerobe
61740aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.998

halophily

  • @ref: 30455
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-3 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3045516449alanine+carbon source
3045529016arginine+carbon source
3045535391aspartate+carbon source
3045516947citrate+carbon source
3045527570histidine+carbon source
3045525017leucine+carbon source
3045528044phenylalanine+carbon source
3045516296D-tryptophan+carbon source
304554853esculin+hydrolysis
3045517632nitrate+reduction

enzymes

@refvalueactivityec
30455catalase+1.11.1.6
30455cytochrome oxidase+1.9.3.1
30455urease+3.5.1.5

Isolation, sampling and environmental information

isolation

@refsample typesampling dategeographic locationcountryorigin.countrycontinent
30455marine sediment
61740Marine sediment2007-08-09Svalbard,Kongsfjord regionNorwayNOREurope

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_60050.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_11;96_6771;97_8105;98_42659;99_60050&stattab=map
  • Last taxonomy: Oceanisphaera arctica
  • 16S sequence: FN377705
  • Sequence Identity:
  • Total samples: 416
  • soil counts: 24
  • aquatic counts: 313
  • animal counts: 70
  • plant counts: 9

Sequence information

16S sequences

  • @ref: 30455
  • description: Oceanisphaera arctica partial 16S rRNA gene, isolate V1-41
  • accession: FN377705
  • length: 1536
  • database: nuccore
  • NCBI tax ID: 641510

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Oceanisphaera arctica V1-41GCA_002936955contigncbi641510
66792Oceanisphaera arctica KCTC 23013GCA_014652055scaffoldncbi641510
66792Oceanisphaera arctica strain KCTC 23013641510.7wgspatric641510

GC content

  • @ref: 30455
  • GC-content: 60.1

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes93.087no
flagellatedyes74.407yes
gram-positiveno98.799no
anaerobicno99.13yes
aerobicyes89.269yes
halophileyes70.444no
spore-formingno95.251no
thermophileno98.592no
glucose-utilyes85.265no
glucose-fermentyes55.66no

External links

@ref: 30455

culture collection no.: CCUG 58690, KCTC 23013, NBRC 106171

straininfo link

  • @ref: 91589
  • straininfo: 412113

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny22003041Oceanisphaera arctica sp. nov., isolated from Arctic marine sediment, and emended description of the genus Oceanisphaera.Srinivas TNR, Reddy PVV, Begum Z, Manasa P, Shivaji SInt J Syst Evol Microbiol10.1099/ijs.0.036475-02011Aeromonadaceae/*classification/genetics/isolation & purification, Arctic Regions, Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/analysis, Geologic Sediments/*microbiology, Molecular Sequence Data, Phospholipids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAGenetics
Phylogeny25991663Oceanisphaera psychrotolerans sp. nov., isolated from coastal sediment samples.Zhou S, Wang H, Wang Y, Ma K, He M, Chen X, Kong D, Guo X, Ruan Z, Zhao BInt J Syst Evol Microbiol10.1099/ijs.0.0003312015Aeromonadaceae/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Glycolipids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/microbiology, Sequence Analysis, DNA, Temperature, Ubiquinone/chemistryGenetics

Reference

@idauthorstitledoi/urlID_cross_referencepubmedcatalogue
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
30455Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172679028776041
61740Curators of the CCUGhttps://www.ccug.se/strain?id=58690Culture Collection University of Gothenburg (CCUG) (CCUG 58690)
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
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
91589Reimer, 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-ID412113.1