Strain identifier

BacDive ID: 133845

Type strain: Yes

Species: Winogradskyella damuponensis

Strain Designation: F081-2

Strain history: S. J. Cho F081-2.

NCBI tax ID(s): 943939 (species)

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General

@ref: 30661

BacDive-ID: 133845

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

description: Winogradskyella damuponensis F081-2 is an aerobe, Gram-negative, motile bacterium that was isolated from seawater.

NCBI tax id

  • NCBI tax id: 943939
  • Matching level: species

strain history

  • @ref: 67770
  • history: S. J. Cho F081-2.

doi: 10.13145/bacdive133845.20240510.9

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 damuponensis
  • full scientific name: Winogradskyella damuponensis Lee et al. 2013

@ref: 30661

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Winogradskyella

species: Winogradskyella damuponensis

strain designation: F081-2

type strain: yes

Morphology

cell morphology

  • @ref: 30661
  • gram stain: negative
  • cell length: 1 µm
  • cell width: 0.4 µm
  • cell shape: rod-shaped
  • motility: yes
  • flagellum arrangement: gliding

pigmentation

  • @ref: 30661
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperature
30661positivegrowth04-35
30661positiveoptimum27.5
67770positivegrowth25

culture pH

@refabilitytypepHPH range
30661positivegrowth6-9.5alkaliphile
30661positiveoptimum7.75

Physiology and metabolism

oxygen tolerance

  • @ref: 30661
  • oxygen tolerance: aerobe

halophily

@refsaltgrowthtested relationconcentration
30661NaClpositivegrowth01-05 %
30661NaClpositiveoptimum3 %

observation

  • @ref: 67770
  • observation: quinones: MK-6

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
30661620642,3-butanediol+carbon source
3066130089acetate+carbon source
3066115963ribitol+carbon source
3066121217L-alaninamide+carbon source
3066116449alanine+carbon source
3066140585alpha-cyclodextrin+carbon source
3066118403L-arabitol+carbon source
3066122653asparagine+carbon source
3066135391aspartate+carbon source
3066117057cellobiose+carbon source
3066116947citrate+carbon source
3066123652dextrin+carbon source
3066128757fructose+carbon source
3066133984fucose+carbon source
3066128260galactose+carbon source
3066124175galacturonate+carbon source
3066124265gluconate+carbon source
3066117234glucose+carbon source
3066132323glucuronamide+carbon source
3066129987glutamate+carbon source
3066117596inosine+carbon source
3066117716lactose+carbon source
3066117306maltose+carbon source
3066129864mannitol+carbon source
3066137684mannose+carbon source
3066137657methyl D-glucoside+carbon source
30661506227N-acetylglucosamine+carbon source
3066118257ornithine+carbon source
3066150048phenylethylamine+carbon source
3066128044phenylalanine+carbon source
3066126271proline+carbon source
3066116634raffinose+carbon source
3066130911sorbitol+carbon source
3066130031succinate+carbon source
3066117992sucrose+carbon source
3066127082trehalose+carbon source
3066153424tween 20+carbon source
3066153423tween 40+carbon source
3066153426tween 80+carbon source
3066116704uridine+carbon source
306614853esculin+hydrolysis

enzymes

@refvalueactivityec
30661acid phosphatase+3.1.3.2
30661alkaline phosphatase+3.1.3.1
30661alpha-galactosidase+3.2.1.22
30661catalase+1.11.1.6
30661cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
30661seawater
67770Seawater at Damupo beach in PohangRepublic of KoreaKORAsia

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_166106.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_107;96_1844;97_4707;98_23482;99_166106&stattab=map
  • Last taxonomy: Winogradskyella damuponensis
  • 16S sequence: HQ336488
  • Sequence Identity:
  • Total samples: 166
  • soil counts: 5
  • aquatic counts: 157
  • animal counts: 4

Sequence information

16S sequences

  • @ref: 30661
  • description: Winogradskyella damuponensis strain F081-2 16S ribosomal RNA gene, partial sequence
  • accession: HQ336488
  • length: 1448
  • database: nuccore
  • NCBI tax ID: 943939

GC content

@refGC-contentmethod
3066132.3
6777032.3thermal denaturation, midpoint method (Tm)

External links

@ref: 30661

culture collection no.: KCTC 23552, JCM 17633

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny22427445Winogradskyella damuponensis sp. nov., isolated from seawater.Lee DH, Cho SJ, Kim SM, Lee SBInt J Syst Evol Microbiol10.1099/ijs.0.041384-02012Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Flavobacteriaceae/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/analysisGenetics
Phylogeny30187095Winogradskyella profunda sp. nov. isolated from the Chukchi Sea bottom sediments.Romanenko LA, Kurilenko VV, Guzev KV, Svetashev VI, Mikhailov VVArch Microbiol10.1007/s00203-018-1567-22018Arctic Regions, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, Flavobacteriaceae/*classification/*isolation & purification, Geologic Sediments/*microbiology, Phosphatidylethanolamines/analysis, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Sodium Chloride, Vitamin K 2/analogs & derivatives/analysisTranscriptome
Phylogeny30519785Winogradskyella algae sp. nov., a marine bacterium isolated from the brown alga.Kurilenko VV, Romanenko LA, Isaeva MP, Svetashev VI, Mikhailov VVAntonie Van Leeuwenhoek10.1007/s10482-018-1207-52018Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry/metabolism, Flavobacteriaceae/classification/genetics/*isolation & purification/metabolism, Phaeophyta/*microbiology, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/microbiologyMetabolism

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
30661Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172699228776041
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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/