Strain identifier

BacDive ID: 159763

Type strain: Yes

Species: Winogradskyella aurantiaca

Strain history: J.-C. Cho; Inha Univ., South Korea; IMCC20180.

NCBI tax ID(s): 2219558 (species)

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General

@ref: 66699

BacDive-ID: 159763

keywords: genome sequence, 16S sequence, Bacteria, aerobe, chemoheterotroph, mesophilic, Gram-negative, motile, rod-shaped, colony-forming

description: Winogradskyella aurantiaca KACC 18883 is an aerobe, chemoheterotroph, mesophilic bacterium that forms circular colonies and was isolated from seawater sample .

NCBI tax id

  • NCBI tax id: 2219558
  • Matching level: species

strain history

  • @ref: 67770
  • history: J.-C. Cho; Inha Univ., South Korea; IMCC20180.

doi: 10.13145/bacdive159763.20230509.8.1

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 aurantiaca
  • full scientific name: Winogradskyella aurantiaca Song et al. 2018

@ref: 66699

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Winogradskyella

species: Winogradskyella aurantiaca

type strain: yes

Morphology

cell morphology

  • @ref: 66699
  • gram stain: negative
  • cell length: 1.6-1.7 µm
  • cell width: 0.5-0.6 µm
  • cell shape: rod-shaped
  • motility: yes
  • flagellum arrangement: gliding

colony morphology

  • @ref: 66699
  • colony color: orange
  • colony shape: circular
  • incubation period: 7 days
  • medium used: Marine agar (MA) 2216

pigmentation

  • @ref: 66699
  • production: no
  • name: flexirubin-type

Culture and growth conditions

culture medium

  • @ref: 66699
  • name: Marine agar (MA) 2216
  • growth: yes

culture temp

@refgrowthtypetemperaturerange
66699positiveoptimum25mesophilic
66699positivegrowth20-30
67770positivegrowth25mesophilic

culture pH

@refabilitytypepHPH range
66699positiveoptimum8.5alkaliphile
66699positivegrowth7-9

Physiology and metabolism

oxygen tolerance

  • @ref: 66699
  • oxygen tolerance: aerobe

nutrition type

  • @ref: 66699
  • type: chemoheterotroph

halophily

@refsaltgrowthtested relationconcentration
66699NaClpositivegrowth1-3.5 %
66699NaClpositiveoptimum3 %

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6669917234glucose-builds acid from
666994853esculin-hydrolysis
6669916991dna-hydrolysis
6669917029chitin-hydrolysis
6669928017starch-hydrolysis
6669953424tween 20-hydrolysis
6669953426tween 80-hydrolysis
66699casein-hydrolysis
6669985146carboxymethylcellulose+hydrolysis
6669917306maltose+oxidation
6669917925alpha-D-glucose+oxidation
6669928087glycogen+oxidation
6669930612D-glucarate+oxidation
6669940585alpha-cyclodextrin+oxidation
6669953258citric acid+oxidation
6669917632nitrate-reduction

metabolite production

@refChebi-IDmetaboliteproduction
6669916136hydrogen sulfideno
6669935581indoleno

enzymes

@refvalueactivityec
66699alpha-fucosidase-3.2.1.51
66699alpha-galactosidase-3.2.1.22
66699alpha-glucosidase-3.2.1.20
66699alpha-mannosidase-3.2.1.24
66699arginine dihydrolase-3.5.3.6
66699beta-galactosidase-3.2.1.23
66699beta-glucosidase-3.2.1.21
66699beta-glucuronidase-3.2.1.31
66699gelatinase-
66699urease-3.5.1.5
66699acid phosphatase+3.1.3.2
66699alkaline phosphatase+3.1.3.1
66699alpha-chymotrypsin+3.4.21.1
66699catalase+1.11.1.6
66699cystine arylamidase+3.4.11.3
66699cytochrome oxidase+1.9.3.1
66699esterase (C 4)+
66699esterase Lipase (C 8)+
66699leucine arylamidase+3.4.11.1
66699lipase (C 14)+
66699N-acetyl-beta-glucosaminidase+3.2.1.52
66699naphthol-AS-BI-phosphohydrolase+
66699trypsin+3.4.21.4
66699valine arylamidase+

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    66699C15:0 anteiso2
    66699C14:0 iso E2
    66699C16:0 iso 3OH10
    66699C15:0 iso15
    66699C16:1 w7c and/or C16:1 w6c17
    66699C14:0 iso 3OH1.3
    66699C17:1 w6c1.9
    66699C17:0 iso 3OH10.8
    66699C16:0 iso G2.3
    66699C14:0 iso2.7
    66699C15:1 iso G20.7
    66699C16:0 iso4.2
    66699C15:0 iso 3OH6.9
  • type of FA analysis: whole cell analysis
  • incubation medium: marine agar 2216
  • agar/liquid: agar
  • incubation temperature: 25
  • software version: Sherlock 6.1
  • library/peak naming table: TSBA6
  • system: MIS MIDI
  • method/protocol: Sasser, 1990
  • cutoff value:

Isolation, sampling and environmental information

isolation

@refsample typesampling dategeographic locationcountryorigin.countrycontinentlatitudelongitudeenrichment cultureenrichment culture compositionenrichment culture durationenrichment culture temperatureisolation procedure
66699seawater sample (depth, 1m)2012-05coast of the East Sea, YeongdeokRepublic of KoreaKORAsia36.4133129.584R2Adiluted 1:10 (v/v) with aged seawater2 weeks20serial dilution
67770SeawaterYeongdeokRepublic of KoreaKORAsia

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_29916.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_107;96_14689;97_17935;98_22296;99_29916&stattab=map
  • Last taxonomy: Winogradskyella aurantiaca subclade
  • 16S sequence: KX061440
  • Sequence Identity:
  • Total samples: 4511
  • soil counts: 41
  • aquatic counts: 4377
  • animal counts: 87
  • plant counts: 6

Sequence information

16S sequences

  • @ref: 66699
  • description: Winogradskyella sp. strain IMCC20180 16S ribosomal RNA gene, partial sequence
  • accession: KX061440
  • length: 1450
  • database: ena
  • NCBI tax ID: 2219558

Genome sequences

  • @ref: 67770
  • description: Winogradskyella aurantiaca IMCC20180
  • accession: GCA_003362725
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 2219558

GC content

  • @ref: 66699
  • GC-content: 37.7
  • method: genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno90.066no
flagellatedno95.482yes
gram-positiveno97.409yes
anaerobicno99.288yes
aerobicyes85.3no
halophileno72.542no
spore-formingno95.265no
glucose-utilyes82.807no
thermophileno98.753yes
glucose-fermentno91.528no

External links

@ref: 66699

culture collection no.: KACC 18883, KCTC 52240, JCM 31383, IMCC 20180

literature

  • topic: Phylogeny
  • Pubmed-ID: 30156531
  • title: Winogradskyella aurantiaca sp. nov., isolated from seawater.
  • authors: Song J, Jeon HT, Lim Y, Joung Y, Cho JC
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002977
  • year: 2018
  • mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/*classification/genetics/isolation & purification, Phosphatidylethanolamines/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Republic of Korea, Seawater/*microbiology, Sequence Analysis, DNA, Vitamin K 2/analogs & derivatives/chemistry
  • topic2: Transcriptome

Reference

@idauthorstitledoi/urljournalpubmed
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
66699Jaeho Song, Hyoung Tae Jeon, Yeonjung Lim, Yochan Joung, Jang-Cheon ChoWinogradskyella aurantiaca sp. nov., isolated from seawater10.1099/ijsem.0.002977IJSEM 68: 3260-3265 201830156531
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/