Strain identifier

BacDive ID: 158751

Type strain: Yes

Species: Lysobacter olei

Strain Designation: D-14

Strain history: J. Kim; Kyonggi Univ., South Korea; D-14.

NCBI tax ID(s): 1926870 (species)

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General

@ref: 65503

BacDive-ID: 158751

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

description: Lysobacter olei D-14 is an aerobe, non-halophilic, Gram-negative bacterium that forms circular colonies and was isolated from oil-contaminated soil.

NCBI tax id

  • NCBI tax id: 1926870
  • Matching level: species

strain history

  • @ref: 67770
  • history: J. Kim; Kyonggi Univ., South Korea; D-14.

doi: 10.13145/bacdive158751.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Lysobacterales
  • family: Lysobacteraceae
  • genus: Lysobacter
  • species: Lysobacter olei
  • full scientific name: Lysobacter olei Chaudhary et al. 2017

@ref: 65503

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Lysobacterales

family: Lysobacteraceae

genus: Lysobacter

species: Lysobacter olei

strain designation: D-14

type strain: yes

Morphology

cell morphology

  • @ref: 65503
  • gram stain: negative
  • cell length: 1.2-1.5 µm
  • cell width: 0.4-0.6 µm
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 65503
  • colony size: 0.5-1.0 mm
  • colony color: brown
  • colony shape: circular
  • incubation period: 5 days
  • medium used: R2A

Culture and growth conditions

culture medium

@refnamegrowth
65503Trypticase Soy Agar (TSA)yes
65503Nutrient agar (NA)yes
65503MacConkeyno
65503LB (Luria-Bertani) MEDIUMno
65503Marine agar (MA)no
65503Reasoner's 2A agar (R2A)yes
65503BHIno

culture temp

@refgrowthtypetemperaturerange
65503positivegrowth20-40
65503positiveoptimum25-35mesophilic
67770positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
65503positivegrowth6.0-10.0alkaliphile
65503positiveoptimum6.5-8.0

Physiology and metabolism

oxygen tolerance

  • @ref: 65503
  • oxygen tolerance: aerobe

spore formation

  • @ref: 65503
  • spore formation: no

halophily

@refhalophily levelsaltgrowthtested relationconcentration
65503non-halophilicNaClpositiveoptimum0 %
65503NaClpositivegrowth0-1 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
65503168082-dehydro-D-gluconate-assimilation
65503161933-hydroxybenzoate-assimilation
65503370543-hydroxybutyrate+assimilation
65503178794-hydroxybenzoate-assimilation
65503581435-dehydro-D-gluconate-assimilation
6550317128adipate-assimilation
6550327689decanoate-assimilation
6550385146carboxymethylcellulose-hydrolysis
65503casein+hydrolysis
6550317029chitin-hydrolysis
6550317634D-glucose-assimilation
6550317634D-glucose+assimilation
6550316899D-mannitol-assimilation
6550316024D-mannose-assimilation
6550316988D-ribose-assimilation
6550317924D-sorbitol-assimilation
6550316991dna+hydrolysis
655034853esculin-hydrolysis
65503esculin ferric citrate-hydrolysis
655035291gelatin+hydrolysis
6550317234glucose-fermentation
6550328087glycogen-assimilation
6550317268myo-inositol-assimilation
6550317240itaconate-assimilation
6550316977L-alanine-assimilation
6550330849L-arabinose-assimilation
6550318287L-fucose-assimilation
6550315971L-histidine-assimilation
6550317203L-proline-assimilation
6550362345L-rhamnose-assimilation
6550317115L-serine-assimilation
6550324996lactate-assimilation
6550325115malate-assimilation
6550317306maltose+assimilation
6550317306maltose+/-assimilation
6550328053melibiose-assimilation
65503506227N-acetylglucosamine-assimilation
6550317632nitrate-reduction
6550318401phenylacetate-assimilation
6550332032potassium gluconate-assimilation
6550317272propionate-assimilation
6550317814salicin-assimilation
6550332954sodium acetate-assimilation
6550353258sodium citrate-assimilation
6550362983sodium malonate-assimilation
6550328017starch-hydrolysis
655039300suberic acid-assimilation
6550317992sucrose+/-assimilation
6550353423tween 40-hydrolysis
6550353426tween 80-hydrolysis
6550318186tyrosine-hydrolysis
6550331011valerate-assimilation

metabolite production

@refChebi-IDmetaboliteproduction
6550315688acetoinno
6550316136hydrogen sulfideno
6550335581indoleno

metabolite tests

@refChebi-IDmetabolitemethylred-testvoges-proskauer-test
6550317234glucose-
6550315688acetoin-

enzymes

@refvalueactivityec
65503catalase+1.11.1.6
65503cytochrome oxidase-1.9.3.1
65503alkaline phosphatase+3.1.3.1
65503leucine arylamidase+3.4.11.1
65503valine arylamidase+
65503trypsin+3.4.21.4
65503acid phosphatase+3.1.3.2
65503esterase (C 4)+/-
65503esterase Lipase (C 8)+/-
65503cystine arylamidase+/-3.4.11.3
65503alpha-chymotrypsin+/-3.4.21.1
65503naphthol-AS-BI-phosphohydrolase+/-
65503lipase (C 14)-
65503alpha-galactosidase-3.2.1.22
65503beta-galactosidase+/-3.2.1.23
65503beta-glucuronidase-3.2.1.31
65503alpha-glucosidase-3.2.1.20
65503beta-glucosidase-3.2.1.21
65503N-acetyl-beta-glucosaminidase-3.2.1.52
65503alpha-mannosidase-3.2.1.24
65503alpha-fucosidase-3.2.1.51
65503urease-3.5.1.5
65503arginine dihydrolase-3.5.3.6

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    65503C14:01.7
    65503C16:05.5
    65503C15:1 iso F6.1
    65503C16:1 iso H0.8
    65503C15:0 anteiso1.2
    65503C10:0 iso0.5
    65503C11:0 iso4.7
    65503C12:0 iso0.8
    65503C13:0 iso0.6
    65503C14:0 iso8.3
    65503C15:0 iso22.2
    65503C16:0 iso20.1
    65503C17:0 iso1.2
    65503C17:0 cyclo0.6
    65503C11:0 iso 3OH6.2
    65503C12:0 iso 3OH0.3
    65503C16:1ω7c / C16:1ω6c8.8
    65503C17:1ω9c / C16:0 10-methyl13.2
  • type of FA analysis: whole cell analysis
  • incubation medium: TSA
  • incubation temperature: 28
  • incubation time: 3
  • library/peak naming table: TSBA6
  • system: MIS MIDI
  • method/protocol: Sasser, 1990
  • cutoff value:

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentenrichment culture durationenrichment culture temperatureisolation procedure
65503oil-contaminated soilGunsan, North Jeolla ProvinceRepublic of KoreaKORAsia2 days28modified culture technique with six-well polycarbonate transwell plates and streaked on R2A medium
67770Oil-contaminated soil of GunsanNorth Jeolla ProvinceRepublic of KoreaKORAsia

isolation source categories

Cat1Cat2Cat3
#Engineered#Contamination#Oil (Fuel)
#Environmental#Terrestrial#Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_44137.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17;96_647;97_13288;98_16353;99_44137&stattab=map
  • Last taxonomy: Lysobacter
  • 16S sequence: KY313413
  • Sequence Identity:
  • Total samples: 5236
  • soil counts: 3732
  • aquatic counts: 835
  • animal counts: 239
  • plant counts: 430

Sequence information

16S sequences

  • @ref: 65503
  • description: 16S rRNA gene sequence
  • accession: KY313413
  • database: nuccore

GC content

  • @ref: 65503
  • GC-content: 68.7
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 65503

culture collection no.: KEMB 9005-572, KACC 19173, JCM 31917

literature

  • topic: Phylogeny
  • Pubmed-ID: 28984550
  • title: Lysobacter olei sp. nov., isolated from oil-contaminated soil.
  • authors: Chaudhary DK, Lee SD, Kim J
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002348
  • year: 2017
  • mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Lysobacter/*classification/genetics/isolation & purification, Nucleic Acid Hybridization, *Petroleum Pollution, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, *Soil Pollutants, Ubiquinone/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
65503Dhiraj Kumar Chaudhary, Sang Don Lee and Jaisoo KimLysobacter olei sp. nov., isolated from oil-contaminated soil10.1099/ijsem.0.002348IJSEM 67: 4660-4666 201728984550
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/