Strain identifier

BacDive ID: 158740

Type strain: Yes

Species: Dokdonia lutea

Strain Designation: SFD34

Strain history: <- Chi Nam Seong, Sunchon National Univ.

NCBI tax ID(s): 1835608 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 8.1 (current version)

General

@ref: 65491

BacDive-ID: 158740

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

description: Dokdonia lutea SFD34 is an aerobe, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from brown alga Sargassum fulvellum.

NCBI tax id

  • NCBI tax id: 1835608
  • Matching level: species

strain history

@refhistory
67770C. N. Seong; Sunchon Natl. Univ., South Korea; SFD34.
67771<- Chi Nam Seong, Sunchon National Univ.

doi: 10.13145/bacdive158740.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Flavobacteriaceae
  • genus: Dokdonia
  • species: Dokdonia lutea
  • full scientific name: Dokdonia lutea Choi et al. 2017

@ref: 65491

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Dokdonia

species: Dokdonia lutea

strain designation: SFD34

type strain: yes

Morphology

cell morphology

  • @ref: 65491
  • gram stain: negative
  • cell length: 2.0-3.2 µm
  • cell width: 0.5 µm
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 65491
  • colony size: 1.5-2.0 mm
  • colony color: yellow
  • colony shape: circular
  • incubation period: 3 days
  • medium used: MA

Culture and growth conditions

culture medium

@refnamegrowth
65491Nutrient agar (NA)no
65491PCAno
65491Reasoner's 2A agar (R2A)no
65491Trypticase Soy Agar (TSA)no
65491Marine agar (MA)yes
65491Zobell's agarno

culture temp

@refgrowthtypetemperaturerange
65491positivegrowth15-35
65491positivegrowth25-30mesophilic
67770positivegrowth25mesophilic
67771positivegrowth25mesophilic

culture pH

@refabilitytypepHPH range
65491positivegrowth5-9alkaliphile
65491positiveoptimum8

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
65491aerobe
67771aerobe

spore formation

  • @ref: 65491
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
65491Marine saltspositivegrowth4-6 %(w/v)
65491Marine saltspositiveoptimum5 %(w/v)

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6549117128adipate-assimilation
6549158187alginate-hydrolysis
6549122599arabinose-assimilation
6549127689decanoate-assimilation
6549185146carboxymethylcellulose-hydrolysis
65491casein-hydrolysis
6549117029chitin-hydrolysis
6549116991dna-hydrolysis
654914853esculin-hydrolysis
6549128757fructose-builds acid from
6549128260galactose-builds acid from
654915291gelatin+hydrolysis
6549117234glucose-assimilation
6549117234glucose-builds acid from
6549117895L-tyrosine-hydrolysis
6549117716lactose-builds acid from
6549125115malate-assimilation
6549117306maltose-assimilation
6549117306maltose-builds acid from
6549129864mannitol-assimilation
6549129864mannitol-builds acid from
6549137684mannose-assimilation
6549137684mannose-builds acid from
65491506227N-acetylglucosamine-assimilation
6549118401phenylacetate-assimilation
6549132032potassium gluconate-assimilation
6549126546rhamnose-builds acid from
6549153258sodium citrate-assimilation
6549128017starch+hydrolysis
6549117992sucrose-builds acid from
6549127082trehalose-builds acid from
6549153424tween 20-hydrolysis
6549153426tween 80+hydrolysis
6549137166xylan-hydrolysis
6549118222xylose-builds acid from

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.is resistantresistance conc.
6549128971ampicillinyesyes10 µg (disc)
6549117334penicillinyesyes10 Unit (disc)
6549148923erythromycinyesyes15 µg (disc)
6549117698chloramphenicolyesyes30 µg (disc)
65491100147nalidixic acidyesyes30 µg (disc)
6549128001vancomycinyesyes30 µg (disc)
6549117833gentamicinyesyes10 µg (disc)
6549117076streptomycinyesyes10 µg (disc)
654912637amikacinyesyes30 µg (disc)
654916104kanamycinyesyes30 µg (disc)
6549127902tetracyclineyesyes30 µg (disc)
654918309polymyxin byesyes300 Unit (disc)

metabolite production

@refChebi-IDmetaboliteproduction
6549116136hydrogen sulfideno
6549135581indoleno

enzymes

@refvalueactivityec
65491catalase+1.11.1.6
65491cytochrome oxidase-1.9.3.1
65491acid phosphatase+3.1.3.2
65491alkaline phosphatase+3.1.3.1
65491cystine arylamidase+3.4.11.3
65491esterase (C 4)+
65491esterase Lipase (C 8)+
65491N-acetyl-beta-glucosaminidase+3.2.1.52
65491leucine arylamidase+3.4.11.1
65491naphthol-AS-BI-phosphohydrolase+
65491trypsin+3.4.21.4
65491valine arylamidase+
65491alpha-chymotrypsin-3.4.21.1
65491alpha-fucosidase-3.2.1.51
65491beta-galactosidase-3.2.1.23
65491alpha-glucosidase-3.2.1.20
65491beta-glucosidase-3.2.1.21
65491beta-glucuronidase-3.2.1.31
65491lipase (C 14)-
65491alpha-mannosidase-3.2.1.24

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    65491C16:02.1
    65491C18:01.6
    65491C17:0 2OH1.3
    65491C15:0 iso30.4
    65491C16:0 iso1.1
    65491C15:0 iso 3OH6.5
    65491C16:0 iso 3OH2.8
    65491C17:0 iso 3OH22.2
    65491C15:0 anteiso1.1
    65491C15:1 iso G17.7
    65491C16:1ω7c / C16:1ω6c2.3
    65491iso-C17:1 I / iso-C17:1 B1.1
    65491unkown 13.5652.1
  • type of FA analysis: whole cell analysis
  • incubation medium: MA
  • incubation temperature: 30
  • incubation time: 2
  • library/peak naming table: TSBA6
  • system: MIS MIDI
  • cutoff value:

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitudeenrichment cultureenrichment culture durationenrichment culture temperatureisolation procedure
65491brown alga Sargassum fulvellumSouth SeaRepublic of KoreaKORAsia33.4979126.916MA5 days25The Seaweed sample was wiped with sterilized tissue and immersed within 0.85 % (w/v) saline. The immersion sample was roatated for 30 min at 4 °C. The supernatant was inoculated.
67770Seaweed collected from the South SeaRepublic of KoreaKORAsia
67771From gulfweedJeju IslandRepublic of KoreaKORAsia

isolation source categories

  • Cat1: #Host
  • Cat2: #Algae
  • Cat3: #Brown Algae

Sequence information

16S sequences

  • @ref: 65491
  • description: 16S rRNA gene sequence
  • accession: KX082701
  • database: nuccore

GC content

  • @ref: 67770
  • GC-content: 35
  • method: thermal denaturation, midpoint method (Tm)

External links

@ref: 65491

culture collection no.: KCTC 52269, JCM 31795

literature

  • topic: Phylogeny
  • Pubmed-ID: 28933321
  • title: Dokdonia lutea sp. nov., isolated from Sargassum fulvellum seaweed.
  • authors: Choi S, Kang JW, Lee JH, Seong CN
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002317
  • year: 2017
  • mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacteriaceae/*classification/genetics/isolation & purification, Phosphatidylethanolamines/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sargassum/*microbiology, Seaweed/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
65491Seon Choi, Joo Won Kang, Ji Hee Lee and Chi Nam SeongDokdonia lutea sp. nov., isolated from Sargassum fulvellum seaweed10.1099/ijsem.0.002317IJSEM 67: 4482-4486 201728933321
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc