Strain identifier

BacDive ID: 133370

Type strain: Yes

Species: Polaribacter lacunae

Strain Designation: HMF2268

NCBI tax ID(s): 1517763 (species)

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General

@ref: 25238

BacDive-ID: 133370

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

description: Polaribacter lacunae HMF2268 is an aerobe, psychrophilic, Gram-negative bacterium that forms circular colonies and was isolated from lagoon.

NCBI tax id

  • NCBI tax id: 1517763
  • Matching level: species

doi: 10.13145/bacdive133370.20230509.8.1

Name and taxonomic classification

LPSN

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

@ref: 25238

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Polaribacter

species: Polaribacter lacunae

strain designation: HMF2268

type strain: yes

Morphology

cell morphology

  • @ref: 25238
  • gram stain: negative
  • cell length: 1.7-2.0 µm
  • cell width: 0.6-1.0 µm
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 25238
  • colony size: 0.8-1.2 mm
  • colony color: yellow
  • colony shape: circular
  • incubation period: 4 days
  • medium used: marine agar plates

pigmentation

  • @ref: 25238
  • production: no
  • name: Flexirubin-type

Culture and growth conditions

culture medium

@refnamegrowth
25238marine agar platesyes
25238Reasoner's 2A agar (R2A)no
25238nutrient agar (NA)no
25238tryptic soy agar (TSA)no
25238blood agarno
25238MacConkey agarno

culture temp

@refgrowthtypetemperaturerange
25238positivegrowth10.0-20.0psychrophilic
25238positiveoptimum20psychrophilic
25238positivegrowth10psychrophilic
25238nogrowth25mesophilic

culture pH

@refabilitytypepH
25238positivegrowth6.0-8.0
25238positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 25238
  • oxygen tolerance: aerobe

halophily

@refsalttested relationconcentrationgrowth
25238NaCloptimum2 %
25238NaClgrowth1.0-3.0 %(w/v)positive
25238NaClgrowth0.5 %(w/v)no
25238NaClgrowth4 %(w/v)no

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2523817521(-)-quinic acid-respiration
25238645522-hydroxybutyrate-respiration
25238167632-oxobutanoate-respiration
25238309162-oxoglutarate-respiration
25238286442-oxopentanoate-respiration
25238620642,3-butanediol-respiration
25238370543-hydroxybutyrate-respiration
25238182404-hydroxy-L-proline-respiration
25238167244-hydroxybutyrate-respiration
25238181014-hydroxyphenylacetic acid-respiration
2523830089acetate-respiration
2523815963ribitol-respiration
2523840585alpha-cyclodextrin-respiration
2523817925alpha-D-glucose-respiration
2523836219alpha-lactose-respiration
2523873706bromosuccinate-respiration
2523885146carboxymethylcellulose-hydrolysis
2523817126carnitine-respiration
2523862968cellulose-hydrolysis
2523816383cis-aconitate-respiration
2523816947citrate-respiration
2523815570D-alanine-respiration
2523818333D-arabitol-respiration
2523817057cellobiose-respiration
2523815824D-fructose-respiration
2523815895D-galactonic acid lactone-respiration
2523812936D-galactose-respiration
2523818024D-galacturonic acid-respiration
2523830612D-glucarate-respiration
252388391D-gluconate-respiration
2523817784D-glucosaminic acid-respiration
2523814314D-glucose 6-phosphate-respiration
2523815748D-glucuronate-respiration
2523816899D-mannitol-respiration
2523816024D-mannose-respiration
2523827605D-psicose-respiration
2523816523D-serine-respiration
2523817924D-sorbitol-respiration
2523823652dextrin-hydrolysis
2523823652dextrin-respiration
2523816991dna-hydrolysis
2523817113erythritol-respiration
2523816000ethanolamine-respiration
2523815740formate-respiration
2523816865gamma-aminobutyric acid-respiration
2523828066gentiobiose-respiration
2523817234glucose-fermentation
2523829042glucose 1-phosphate-respiration
2523832323glucuronamide-respiration
2523817754glycerol-respiration
2523814336glycerol 1-phosphate-respiration
2523828087glycogen-respiration
2523873804glycyl L-aspartic acid-respiration
2523817596inosine-respiration
2523817268myo-inositol-respiration
2523817240itaconate-respiration
2523821217L-alaninamide-respiration
2523816977L-alanine-respiration
2523873786L-alanylglycine-respiration
2523830849L-arabinose-respiration
2523817196L-asparagine-respiration
2523829991L-aspartate-respiration
2523818287L-fucose-respiration
2523829985L-glutamate-respiration
2523815971L-histidine-respiration
2523815603L-leucine-respiration
2523815729L-ornithine-respiration
2523817295L-phenylalanine-respiration
2523818183L-pyroglutamic acid-respiration
2523862345L-rhamnose-respiration
2523817115L-serine-respiration
2523816857L-threonine-respiration
2523824996lactate-respiration
252386359lactulose-respiration
2523815792malonate-respiration
2523817306maltose-respiration
2523828053melibiose-respiration
25238320055methyl beta-D-glucopyranoside-respiration
2523851850methyl pyruvate-respiration
2523875146monomethyl succinate-respiration
2523828037N-acetylgalactosamine-respiration
25238506227N-acetylglucosamine-respiration
2523873784glycyl-l-glutamate-respiration
2523817632nitrate-reduction
2523850048phenylethylamine-respiration
2523817272propionate-respiration
2523817148putrescine-respiration
2523816634raffinose-respiration
2523841865sebacic acid-respiration
2523828017starch-hydrolysis
25238143136succinamate-respiration
2523830031succinate-respiration
2523817992sucrose-respiration
2523817748thymidine-respiration
2523827082trehalose-respiration
2523827897tryptophan-energy source
2523832528turanose-respiration
2523853423tween 40-respiration
2523853426tween 80-respiration
2523816704uridine-respiration
2523827248urocanic acid-respiration
2523817151xylitol-respiration
25238casein+hydrolysis
2523817203L-proline+respiration

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitivesensitivity conc.is resistantresistance conc.
2523817698chloramphenicolyesyes30 µg (disc)
2523818208penicillin gyesyes10 Unit
2523828077rifampicinyesyes30 µg (disc)
2523828001vancomycinyesyes30 µg (disc)
2523828971ampicillinyesyes10 µg (disc)
2523848923erythromycinyesyes15 µg (disc)
2523817833gentamicinyesyes10 µg (disc)
252386104kanamycinyesyes30 µg (disc)
2523817076streptomycinyesyes10 µg (disc)
2523827902tetracyclineyesyes30 µg (disc)

metabolite production

  • @ref: 25238
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 25238
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
25238acid phosphatase+3.1.3.2
25238alkaline phosphatase+3.1.3.1
25238alpha-chymotrypsin-3.4.21.1
25238alpha-fucosidase-3.2.1.51
25238alpha-galactosidase-3.2.1.22
25238alpha-glucosidase-3.2.1.20
25238alpha-mannosidase-3.2.1.24
25238arginine dihydrolase-3.5.3.6
25238beta-galactosidase-3.2.1.23
25238beta-glucosidase-3.2.1.21
25238beta-glucuronidase-3.2.1.31
25238catalase+1.11.1.6
25238cystine arylamidase-3.4.11.3
25238cytochrome oxidase+1.9.3.1
25238esterase (C 4)-
25238esterase Lipase (C 8)-
25238leucine arylamidase+3.4.11.1
25238lipase (C 14)-
25238N-acetyl-beta-glucosaminidase-3.2.1.52
25238naphthol-AS-BI-phosphohydrolase+
25238trypsin+3.4.21.4
25238tryptophan deaminase-4.1.99.1
25238urease-3.5.1.5
25238valine arylamidase+

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    25238C15:0 anteiso9.2
    25238C15:1 anteiso A2
    25238C14:01.5
    25238C15:0 3OH2.4
    25238C15:1ω6c1.1
    25238C16:03.3
    25238C16:0 3OH3.2
    25238C16:1ω7c / C16:1ω6c3.4
    25238C17:1ω6c2.1
    25238C17:1ω9c / 10-Methyl C16:01.5
    25238C18:02.8
    25238C12:0 iso3.3
    25238C13:0 iso1.2
    25238C14:0 iso2.9
    25238C15:0 iso24.7
    25238C15:0 iso 3OH11.9
    25238C15:1 iso G8.2
    25238C16:0 iso1.1
    25238C16:0 iso 3OH3.3
    25238C16:1 iso H1
    25238C17:0 iso 3OH4
  • type of FA analysis: whole cell analysis
  • incubation medium: Marine Agar (MA)
  • agar/liquid: agar
  • incubation temperature: 20
  • software version: Sherlock 6.1
  • library/peak naming table: RTSBA 6
  • system: MIS MIDI
  • method/protocol: Sasser 1990

Isolation, sampling and environmental information

isolation

  • @ref: 25238
  • sample type: lagoon
  • sampling date: February 2014
  • geographic location: Gyeong-po-ho (east coast)
  • country: Republic of Korea
  • origin.country: KOR
  • continent: Asia
  • latitude: 37
  • longitude: 128
  • enrichment culture: marine agar 2216 (MA;Difco)
  • enrichment culture duration: 7 days
  • enrichment culture temperature: 10
  • isolation procedure: serial dilution method (up to 10-3)

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic

taxonmaps

  • @ref: 69479
  • File name: preview.99_148119.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_214;96_11871;97_39072;98_50811;99_148119&stattab=map
  • Last taxonomy: Polaribacter lacunae subclade
  • 16S sequence: KJ728849
  • Sequence Identity:
  • Total samples: 739
  • soil counts: 8
  • aquatic counts: 666
  • animal counts: 64
  • plant counts: 1

Sequence information

16S sequences

  • @ref: 25238
  • description: Polaribacter sp. HMF2268 16S ribosomal RNA gene, partial sequence
  • accession: KJ728849
  • length: 1462
  • database: nuccore
  • NCBI tax ID: 1517763

GC content

  • @ref: 25238
  • GC-content: 34.3
  • method: fluorimetric

External links

@ref: 25238

culture collection no.: KCTC 42191, CECT 8862

literature

  • topic: Phylogeny
  • Pubmed-ID: 27902370
  • title: Polaribacter lacunae sp. nov., isolated from a lagoon.
  • authors: Kang H, Kim H, Joung Y, Joh K
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.001694
  • 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, 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
25238H. K. Kang, Haneul,Joung, Yochan,Joh, KiseongPolaribacter lacunae sp. nov., isolated from a lagoon10.1099/ijsem.0.001694IJSEM 67: 681-686 201727902370
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/