Strain identifier

BacDive ID: 159730

Type strain: Yes

Species: Winogradskyella tangerina

Strain Designation: M1309

NCBI tax ID(s): 2023240 (species)

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General

@ref: 66642

BacDive-ID: 159730

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

description: Winogradskyella tangerina M1309 is an aerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from marine sediment sample.

NCBI tax id

  • NCBI tax id: 2023240
  • Matching level: species

doi: 10.13145/bacdive159730.20230509.8.1

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 tangerina
  • full scientific name: Winogradskyella tangerina Wang et al. 2018

@ref: 66642

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Winogradskyella

species: Winogradskyella tangerina

strain designation: M1309

type strain: yes

Morphology

cell morphology

  • @ref: 66642
  • gram stain: negative
  • cell length: 1-9 µm
  • cell width: 0.2-0.5 µm
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 66642
  • colony size: 0.5-1 mm
  • colony color: orange
  • colony shape: circular
  • incubation period: 3 days
  • medium used: Marine agar (MA) 2216

pigmentation

@refproductionname
66642nocaroteniod pigments
66642noflexirubin-type

Culture and growth conditions

culture medium

  • @ref: 66642
  • name: Marine agar (MA) 2216
  • growth: yes

culture temp

@refgrowthtypetemperaturerange
66642positiveoptimum37mesophilic
66642positivegrowth16-42

culture pH

@refabilitytypepH
66642positivegrowth6.5-8
66642positiveoptimum7-7.5

Physiology and metabolism

oxygen tolerance

  • @ref: 66642
  • oxygen tolerance: aerobe

halophily

@refsaltgrowthtested relationconcentration
66642NaClpositivegrowth2-6 %(w/v)
66642NaClpositiveoptimum2-3 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6664253258citric acid+assimilation
666424853esculin+builds acid from
6664216443D-tagatose+builds acid from
6664216988D-ribose+builds acid from
66642potassium 5-dehydro-D-gluconate+builds acid from
666422509agar-hydrolysis
6664258187alginate-hydrolysis
6664285146carboxymethylcellulose-hydrolysis
6664228017starch+hydrolysis
6664253423tween 40+hydrolysis
6664253424tween 20+hydrolysis
6664253425tween 60+hydrolysis
6664253426tween 80+hydrolysis
66642casein+hydrolysis
6664213705acetoacetate+oxidation
6664216411acetic acid+oxidation
66642167632-oxobutanoate+oxidation
6664217272propionate+oxidation
6664223652dextrin+oxidation
6664228066gentiobiose+oxidation
6664230797(S)-malic acid+oxidation
6664232323glucuronamide+oxidation
6664232528turanose+oxidation
6664273706bromosuccinate+oxidation
66642168102-oxoglutarate+oxidation
6664217632nitrate-reduction

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.is resistantresistance conc.
6664228971ampicillinyesyes10 µg (disc)
666423498cefotaxime sodiumyesyes30 µg (disc)
6664229007ceftriaxoneyesyes30 µg (disc)
6664217698chloramphenicolyesyes30 µg (disc)
6664248923erythromycinyesyes15 µg (disc)
6664217833gentamicinyesyes10 µg (disc)
666426104kanamycinyesyes30 µg (disc)
666426472lincomycinyesyes2 µg (disc)
66642100147nalidixic acidyesyes30 µg (disc)
666427507neomycinyesyes30 µg (disc)
66642100246norfloxacinyesyes10 µg (disc)
666427731ofloxacinyesyes5 µg (disc)
6664217334penicillinyesyes10 µg (disc)
6664228077rifampicinyesyes5 µg (disc)
6664231168spiramycin IIyesyes30 µg (disc)
6664217076streptomycinyesyes10 µg (disc)
6664253727sulfamethoxydiazineyesyes5 µg (disc)
6664227902tetracyclineyesyes30 µg (disc)
6664228864tobramycinyesyes10 µg (disc)
6664228001vancomycinyesyes30 µg (disc)

metabolite production

@refChebi-IDmetaboliteproduction
6664215688acetoinno
6664216136hydrogen sulfideno
6664235581indoleno

metabolite tests

  • @ref: 66642
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: -

enzymes

@refvalueactivityec
66642arginine dihydrolase-3.5.3.6
66642cytochrome oxidase-1.9.3.1
66642lysine decarboxylase-4.1.1.18
66642ornithine decarboxylase-4.1.1.17
66642urease-3.5.1.5
66642acid phosphatase+3.1.3.2
66642alkaline phosphatase+3.1.3.1
66642alpha-chymotrypsin+3.4.21.1
66642beta-glucosidase+3.2.1.21
66642catalase+1.11.1.6
66642cystine arylamidase+3.4.11.3
66642esterase (C 4)+
66642esterase Lipase (C 8)+
66642gelatinase+
66642leucine arylamidase+3.4.11.1
66642lipase (C 14)+
66642naphthol-AS-BI-phosphohydrolase+
66642trypsin+3.4.21.4
66642tryptophan deaminase+4.1.99.1
66642valine arylamidase+

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    66642Unknown 13.5655.813.565
    66642Unknown 11.5432.211.543
    66642C16:0 3OH1
    66642C16:0 iso 3OH1
    66642C15:01.6
    66642C17:0 iso 3OH10.1
    66642C15:1 iso G12.9
    66642C16:02.7
    66642C15:0 iso43.9
    66642C15:0 iso 3OH6.9
    66642C16:1 w7c and/or iso-C15:0 2OH7.3
  • type of FA analysis: whole cell analysis
  • incubation medium: marine broth 2216
  • agar/liquid: liquid
  • incubation temperature: 37
  • incubation time: 1
  • software version: Sherlock 4.5
  • library/peak naming table: TSBA40
  • system: MIS MIDI
  • cutoff value:

Isolation, sampling and environmental information

isolation

  • @ref: 66642
  • sample type: marine sediment sample
  • sampling date: 2016-10
  • geographic location: coast of Weihai
  • country: China
  • origin.country: CHN
  • continent: Asia
  • latitude: 36.91
  • longitude: 122.243
  • enrichment culture: marine agar 2216
  • enrichment culture duration: 7 days
  • enrichment culture temperature: 25
  • isolation procedure: the sample was serially diluted to 10-5 with sterilized seawater, and 0.1 ml aliquots of each dilution were spread onto marine agar 2216 and incubated for 7 days at 25°C.

isolation source categories

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

Sequence information

16S sequences

  • @ref: 66642
  • description: Winogradskyella sp. M1309 16S ribosomal RNA gene, partial sequence
  • accession: MF574727
  • length: 1450
  • database: ena
  • NCBI tax ID: 2023240

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Winogradskyella tangerina M1309GCA_003260205contigncbi2023240
66792Winogradskyella tangerina M13092837479679draftimg2023240

GC content

  • @ref: 66642
  • GC-content: 36.1
  • method: genome sequence analysis

External links

@ref: 66642

culture collection no.: KCTC 52896, MCCC 1K03310

literature

  • topic: Phylogeny
  • Pubmed-ID: 30010527
  • title: Winogradskyella tangerina sp. nov., a member of the Flavobacteriaceae isolated from coastal sediment.
  • authors: Wang C, Han JR, Liu CL, Du ZJ
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002908
  • year: 2018
  • mesh: Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/*classification/genetics/isolation & purification, Geologic Sediments/*microbiology, Phosphatidylethanolamines/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, 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
66642Chong Wang, Ji-Ru Han, Chun-Li Liu, Zong-Jun DuWinogradskyella tangerina sp. nov., a member of the Flavobacteriaceae isolated from coastal sediment10.1099/ijsem.0.002908IJSEM 68: 2832-2837 201830010527
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