Strain identifier

BacDive ID: 133570

Type strain: Yes

Species: Winogradskyella pacifica

Strain history: <- OI Nedashkovskaya, Pacific Institute of Bioorganic Chemistry, Russia

NCBI tax ID(s): 664642 (species)

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General

@ref: 29581

BacDive-ID: 133570

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

description: Winogradskyella pacifica KCTC 22997 is an aerobe, Gram-negative, motile bacterium that was isolated from seawater.

NCBI tax id

  • NCBI tax id: 664642
  • Matching level: species

strain history

  • @ref: 67771
  • history: <- OI Nedashkovskaya, Pacific Institute of Bioorganic Chemistry, Russia

doi: 10.13145/bacdive133570.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Flavobacteriaceae
  • genus: Winogradskyella
  • species: Winogradskyella pacifica
  • full scientific name: Winogradskyella pacifica Kim and Nedashkovskaya 2010

@ref: 29581

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Winogradskyella

species: Winogradskyella pacifica

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityflagellum arrangement
29581negative1-2.3 µm0.4-0.5 µmrod-shapedyesgliding
67771rod-shapedyesgliding
67771negative

pigmentation

  • @ref: 29581
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
29581positivegrowth04-30
29581positiveoptimum28mesophilic
67771positivegrowth28mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
29581aerobe
67771aerobe

halophily

@refsaltgrowthtested relationconcentration
29581NaClpositivegrowth01-05 %
29581NaClpositiveoptimum01-03 %

observation

  • @ref: 29581
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2958117057cellobiose+carbon source
2958117234glucose+carbon source
2958117306maltose+carbon source
2958129864mannitol+carbon source
2958130911sorbitol+carbon source
295814853esculin+hydrolysis

enzymes

@refvalueactivityec
29581catalase+1.11.1.6
29581cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
29581seawater
67771From shallow seawaterAmursky Bay, the East Sea(the Sea of Japan)RussiaRUSAsia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #Marine

taxonmaps

  • @ref: 69479
  • File name: preview.99_69675.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_107;96_1844;97_2608;98_48945;99_69675&stattab=map
  • Last taxonomy: Winogradskyella pacifica subclade
  • 16S sequence: GQ181061
  • Sequence Identity:
  • Total samples: 20
  • soil counts: 2
  • aquatic counts: 17
  • animal counts: 1

Sequence information

16S sequences

  • @ref: 29581
  • description: Winogradskyella pacifica strain KMM 6019 16S ribosomal RNA gene, partial sequence
  • accession: GQ181061
  • length: 1430
  • database: nuccore
  • NCBI tax ID: 664642

GC content

  • @ref: 29581
  • GC-content: 35.3

External links

@ref: 29581

culture collection no.: KCTC 22997, LMG 22568, KMM 6019

straininfo link

  • @ref: 91508
  • straininfo: 134395

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19801394Winogradskyella pacifica sp. nov., a marine bacterium of the family Flavobacteriaceae.Kim SB, Nedashkovskaya OIInt J Syst Evol Microbiol10.1099/ijs.0.016329-02009DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Flavobacteriaceae/*classification/genetics/*isolation & purification/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiologyMetabolism
Phylogeny22904220Winogradskyella psychrotolerans sp. nov., a marine bacterium of the family Flavobacteriaceae isolated from Arctic sediment.Begum Z, Srinivas TNR, Manasa P, Sailaja B, Sunil B, Prasad S, Shivaji SInt J Syst Evol Microbiol10.1099/ijs.0.044669-02012Arctic Regions, 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, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Svalbard, 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
29581Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172597328776041
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/
91508Reimer, 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-ID134395.1