Strain identifier

BacDive ID: 158683

Type strain: Yes

Species: Flavobacterium phocarum

Strain Designation: SE14

Strain history: <- Zongjun Du, Shandong Univ.

NCBI tax ID(s): 2065192 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 9 (current version):
version 8.1:
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 9 (current version)

General

@ref: 65419

BacDive-ID: 158683

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

description: Flavobacterium phocarum SE14 is an aerobe, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from From soil in a seal habitat on King George Island.

NCBI tax id

  • NCBI tax id: 2065192
  • Matching level: species

strain history

  • @ref: 67771
  • history: <- Zongjun Du, Shandong Univ.

doi: 10.13145/bacdive158683.20240510.9

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacteroidota
  • domain: Bacteria
  • phylum: Bacteroidota
  • class: Flavobacteriia
  • order: Flavobacteriales
  • family: Flavobacteriaceae
  • genus: Flavobacterium
  • species: Flavobacterium phocarum
  • full scientific name: Flavobacterium phocarum Zhou et al. 2018

@ref: 65419

domain: Bacteria

phylum: Bacteroidetes

class: Flavobacteriia

order: Flavobacteriales

family: Flavobacteriaceae

genus: Flavobacterium

species: Flavobacterium phocarum

strain designation: SE14

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
65419negative0.9-4.9 µm0.3-0.6 µmrod-shapedno
67771rod-shaped
67771negative

colony morphology

  • @ref: 65419
  • colony size: 1-2.55 mm
  • colony color: yellow
  • colony shape: circular
  • incubation period: 4 days
  • medium used: on Anacker and Ordal agar, marine agar, R2A and well on egg yolk agar, nutrient agar, tryptic soy agar and sea-salt-free Zobell's agar, not on MacCon-key agar

Culture and growth conditions

culture medium

  • @ref: 65419
  • name: on Anacker and Ordal agar, marine agar, R2A and well on egg yolk agar, nutrient agar, tryptic soy agar and sea-salt-free Zobell's agar, not on MacCon-key agar
  • growth: yes

culture temp

@refgrowthtypetemperature
65419positivegrowth4-25
65419positiveoptimum20
67771positivegrowth20

culture pH

@refabilitytypepHPH range
65419positivegrowth6-9alkaliphile
65419positiveoptimum7-7.5

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
65419aerobe
67771aerobe

halophily

@refsaltgrowthtested relationconcentration
65419NaClpositivegrowth0-3 %
65419NaClpositiveoptimum1-1.5 %

observation

@refobservation
65419grows weakly under microaerobic conditions (with 5 % O2 , 10 % CO2 and 85 % N2), poorly under anaerobic conditions (with 10 % H2 , 10 % CO2 and 80 % N2)
65419only respiratory quinone is menaquinone-6
65419major polar lipids are phosphatidylethanolamine and four unidentified aminolipids
67771quinones: MK-6

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6541917108D-arabinose-builds acid from
6541912936D-galactose-builds acid from
6541930849L-arabinose-builds acid from
654193-O-methyl alpha-D-glucopyranoside-builds acid from
6541958187alginate-assimilation
6541927613amygdalin-builds acid from
6541918305arbutin-builds acid from
65419casein+assimilation
6541962968cellulose-assimilation
6541917029chitin-assimilation
6541915963ribitol-builds acid from
6541918333D-arabitol-builds acid from
6541917057cellobiose-builds acid from
6541915824D-fructose-builds acid from
6541928847D-fucose-builds acid from
6541917634D-glucose-builds acid from
6541917716lactose-builds acid from
6541962318D-lyxose-builds acid from
6541917306maltose-builds acid from
6541916899D-mannitol-builds acid from
6541916024D-mannose-builds acid from
654196731melezitose-builds acid from
6541928053melibiose-builds acid from
6541916634raffinose-builds acid from
6541916988D-ribose-builds acid from
6541917992sucrose-builds acid from
6541916523D-serine+oxidation
6541917924D-sorbitol-builds acid from
6541916443D-tagatose-builds acid from
6541916551D-trehalose-builds acid from
6541932528turanose-builds acid from
6541965327D-xylose-builds acid from
6541916813galactitol-builds acid from
654194767elastin-assimilation
6541917113erythritol-builds acid from
654194853esculin-builds acid from
6541928066gentiobiose-builds acid from
6541915978glycerol 3-phosphate-builds acid from
6541928087glycogen-builds acid from
6541917268myo-inositol-builds acid from
6541915443inulin-builds acid from
6541916087isocitrate+assimilation
6541918403L-arabitol-builds acid from
6541918287L-fucose-builds acid from
6541962345L-rhamnose-builds acid from
6541917266L-sorbose-builds acid from
6541965328L-xylose-builds acid from
6541943943methyl alpha-D-mannoside-builds acid from
6541974863methyl beta-D-xylopyranoside-builds acid from
65419506227N-acetylglucosamine-builds acid from
65419potassium 2-dehydro-D-gluconate-builds acid from
65419potassium 5-dehydro-D-gluconate-builds acid from
6541932032potassium gluconate-builds acid from
6541917814salicin-builds acid from
6541928017starch-assimilation
6541953424tween 20-assimilation
6541953423tween 40-assimilation
6541953425tween 60-assimilation
6541953426tween 80-assimilation
6541917151xylitol-builds acid from

metabolite production

  • @ref: 65419
  • Chebi-ID: 15688
  • metabolite: acetoin
  • production: yes

enzymes

@refvalueactivityec
65419catalase+1.11.1.6
65419cytochrome oxidase-1.9.3.1
65419gelatinase+
65419alkaline phosphatase+3.1.3.1
65419leucine arylamidase+3.4.11.1
65419valine arylamidase+
65419acid phosphatase+3.1.3.2
65419naphthol-AS-BI-phosphohydrolase+
65419esterase Lipase (C 8)-
65419lipase (C 14)-
65419cystine arylamidase-3.4.11.3
65419trypsin-3.4.21.4
65419alpha-chymotrypsin-3.4.21.1
65419alpha-galactosidase-3.2.1.22
65419beta-galactosidase-3.2.1.23
65419beta-glucuronidase-3.2.1.31
65419alpha-glucosidase-3.2.1.20
65419beta-glucosidase-3.2.1.21
65419N-acetyl-beta-glucosaminidase-3.2.1.52
65419alpha-mannosidase-3.2.1.24
65419alpha-fucosidase-3.2.1.51

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    65419C15:03
    65419C16:01.2
    65419C14:0 iso1.1
    65419C15:0 iso8.8
    65419C16:0 iso4.2
    65419C15:1 iso G5.2
    65419C16:1 iso H2.9
    65419C15:1 anteiso A2.5
    65419C15:0 anteiso21.9
    65419C17:0 anteiso0.7
    65419C15:1ω6c1.2
    65419C17:1ω6c0.8
    65419C18:1ω5c1.5
    65419C17:1 iso ω9c6.1
    65419C17:1 anteiso ω9c6.7
    65419C15:0 2OH1.8
    65419C16:0 3OH0.9
    65419C17:0 2OH3.4
    65419C15:0 iso 3OH3.9
    65419C16:0 iso 3OH1.7
    65419C17:0 iso 3OH4.1
    65419C15:0 iso 2OH and/or C16:1ω7c12.7
  • type of FA analysis: whole cell analysis
  • incubation medium: nutrient agar
  • incubation temperature: 20
  • incubation time: 4
  • software version: Sherlock 4.5
  • library/peak naming table: TSBA40
  • system: MIS MIDI
  • instrument: Agilent 6890 N gas chromatograph
  • cutoff value:

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentlatitudelongitude
67771From soil in a seal habitat on King George IslandSouth Shetland Islands, Antarctica(62°11′10″SAntarcticaATAAustralia and Oceania-62.1861-58.9936
65419soil in a seal habitat on King George IslandSouth Shetland IslandsAntarcticaATAAustralia and Oceania

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Aquatic mammal
#Environmental#Terrestrial#Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_71560.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_66;96_30536;97_38610;98_50162;99_71560&stattab=map
  • Last taxonomy: Flavobacterium phocarum subclade
  • 16S sequence: KX911210
  • Sequence Identity:
  • Total samples: 4477
  • soil counts: 674
  • aquatic counts: 1310
  • animal counts: 2314
  • plant counts: 179

Sequence information

16S sequences

  • @ref: 65419
  • description: Flavobacterium phocarum strain SE14 16S ribosomal RNA gene, partial sequence
  • accession: KX911210
  • database: nuccore

GC content

@refGC-contentmethod
6541942.3thermal denaturation, midpoint method (Tm)
6777142.3

External links

@ref: 65419

culture collection no.: CCTCC AB 2017225, KCTC 52612

literature

  • topic: Phylogeny
  • Pubmed-ID: 29251588
  • title: Flavobacterium phocarum sp. nov., isolated from soils of a seal habitat in Antarctica.
  • authors: Zhou MY, Zhang YJ, Zhang XY, Yang XD, He HL, Ning D, Du Z
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002535
  • year: 2017
  • mesh: Animals, Antarctic Regions, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Flavobacterium/*classification/genetics/isolation & purification, Phosphatidylethanolamines/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, *Seals, Earless, Sequence Analysis, DNA, *Soil Microbiology, 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
65419Ming-Yang Zhou, Yan-Jiao Zhang, Xi-Ying Zhang, Xiao-Deng Yang, Hai-Lun He, Daliang Ning, Zongjun DuFlavobacterium phocarum sp. nov., isolated from soils of a seal habitat in Antarctica10.1099/ijsem.0.002535IJSEM 68: 536-541 201829251588
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
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/