Strain identifier

BacDive ID: 158727

Type strain: Yes

Species: Rhodococcus olei

Strain Designation: Ktm-20

Strain history: J. Kim; Kyonggi Univ., South Korea; Ktm-20.

NCBI tax ID(s): 2161675 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 65475

BacDive-ID: 158727

keywords: 16S sequence, aerobe, Gram-positive

description: Rhodococcus olei Ktm-20 is an aerobe, Gram-positive prokaryote that was isolated from an oil-contaminated soil sample of Biratnagar during a study of oil-degrading bacteria.

NCBI tax id

  • NCBI tax id: 2161675
  • Matching level: species

strain history

  • @ref: 67770
  • history: J. Kim; Kyonggi Univ., South Korea; Ktm-20.

doi: 10.13145/bacdive158727.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • genus: Rhodococcus
  • species: Rhodococcus olei
  • full scientific name: Rhodococcus olei Chaudhary and Kim 2018

@ref: 65475

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Mycobacteriales

family: Nocardiaceae

genus: Rhodococcus

species: Rhodococcus olei

strain designation: Ktm-20

type strain: yes

Morphology

cell morphology

  • @ref: 65475
  • gram stain: positive
  • motility: no

colony morphology

@refcolony sizecolony colorcolony shapeincubation periodmedium used
65475
654750.1-1.5 mmcreamy-whitecircular4 daysTrypticase soy agar

Culture and growth conditions

culture medium

@refnamegrowth
65475Trypticase soy agaryes
65475Reasoner's 2A agaryes
65475Nutrient agar (NA)yes
65475veal infusion agaryes

culture temp

@refgrowthtypetemperaturerange
65475positivegrowth15-37
65475positiveoptimum25-32mesophilic
67770positivegrowth28mesophilic

culture pH

@refabilitytypepHPH range
65475positivegrowth5.5-10.0alkaliphile
65475positiveoptimum6.5-8.5

Physiology and metabolism

oxygen tolerance

  • @ref: 65475
  • oxygen tolerance: aerobe

spore formation

  • @ref: 65475
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
65475NaClpositivegrowth0-2 %
65475NaClpositiveoptimum0 %

observation

@refobservation
65475rod-coccus growth cycle
65475MK-8(H2) is the only respiratory quinone
65475major polar lipids present are phosphatidylethanolamine, diphosphatidylglycerol, phosphatidylinositol and phosphatidylinositol mannoside
65475contains meso-diaminopimelic, galactose, glucose, arabinose and ribose in the cell wall
65475mycolic acids are present
67770quinones: MK-8(H2)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6547562968cellulose+hydrolysis
65475161933-hydroxybenzoate+assimilation
65475370543-hydroxybutyrate-assimilation
65475178794-hydroxybenzoate+assimilation
6547517128adipate-assimilation
6547527689decanoate-assimilation
65475casein-hydrolysis
6547517029chitin+hydrolysis
6547517634D-glucose+assimilation
6547516899D-mannitol+assimilation
6547516024D-mannose+assimilation
6547516988D-ribose-assimilation
6547517924D-sorbitol-assimilation
6547516991dna-hydrolysis
654754853esculin+hydrolysis
654755291gelatin-fermentation
654755291gelatin-hydrolysis
6547517234glucose-fermentation
6547528087glycogen-assimilation
6547517240itaconate-assimilation
6547516977L-alanine-assimilation
6547530849L-arabinose-assimilation
6547530849L-arabinose+assimilation
6547516467L-arginine-fermentation
6547518287L-fucose-assimilation
6547515971L-histidine+assimilation
6547517203L-proline-assimilation
6547562345L-rhamnose-assimilation
6547517115L-serine-assimilation
6547524996lactate+assimilation
6547525115malate+assimilation
6547517306maltose+assimilation
6547528053melibiose+assimilation
6547517268myo-inositol-assimilation
65475506227N-acetylglucosamine-assimilation
6547517632nitrate-reduction
6547518401phenylacetate+assimilation
65475potassium 2-dehydro-D-gluconate-assimilation
65475potassium 5-dehydro-D-gluconate-assimilation
6547532032potassium gluconate-assimilation
6547517272propionate+assimilation
6547517814salicin+assimilation
6547532954sodium acetate+assimilation
6547553258sodium citrate-assimilation
6547562983sodium malonate-assimilation
6547528017starch-hydrolysis
654759300suberic acid-assimilation
6547517992sucrose+assimilation
6547553423tween 40+hydrolysis
6547553426tween 80+hydrolysis
6547518186tyrosine-hydrolysis
6547516199urea-fermentation
6547531011valerate+assimilation

metabolite production

@refChebi-IDmetaboliteproduction
6547535581indoleno
6547515138sulfideno

enzymes

@refvalueactivityec
65475catalase+1.11.1.6
65475cytochrome oxidase-1.9.3.1
65475leucine arylamidase+3.4.11.1
65475valine arylamidase+
65475acid phosphatase+3.1.3.2
65475alpha-glucosidase+3.2.1.20
65475beta-glucosidase+3.2.1.21
65475alkaline phosphatase+3.1.3.1
65475esterase Lipase (C 8)+
65475lipase (C 14)+
65475naphthol-AS-BI-phosphohydrolase+
65475esterase (C 4)-
65475cystine arylamidase-3.4.11.3
65475trypsin-3.4.21.4
65475alpha-chymotrypsin-3.4.21.1
65475alpha-galactosidase-3.2.1.22
65475beta-galactosidase-3.2.1.23
65475beta-glucuronidase-3.2.1.31
65475N-acetyl-beta-glucosaminidase-3.2.1.52
65475alpha-mannosidase-3.2.1.24
65475alpha-fucosidase-3.2.1.51
65475beta-galactosidase+3.2.1.23

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    65475C14:05.6
    65475C16:035.1
    65475C17:04.7
    65475C18:02.8
    65475C19:01
    65475C14:1ω5c0.2
    65475C15:1ω6c0.7
    65475C17:1ω8c4.8
    65475C18:1ω9c14.8
    65475C17:0 10-methyl0.8
    65475C18:0 10-methyl3.7
    65475C16:1ω7c and/or C16:1ω6c23.2
    65475C19:1ω11c and/or C19:1ω9c0.6
    65475iso-C17:1ω9c and/or C16:0 10-methyl1
  • type of FA analysis: whole cell analysis
  • software version: Sherlock 6.0B
  • library/peak naming table: TSBA6
  • system: MIS MIDI
  • instrument: HP 6890 Series GC System; Hewlett Packard
  • method/protocol: Sasser, 1990

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation procedure
65475an oil-contaminated soil sample of Biratnagar during a study of oil-degrading bacteriaMorangNepalNPLAsiamodified culture technique with six-well polycarbonate Transwell plates as described previously
67770Oil-contaminated soil of BiratnagarMorangNepalNPLAsia

isolation source categories

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

Sequence information

16S sequences

  • @ref: 65475
  • description: 16S rRNA gene sequence
  • accession: MF405107
  • database: nuccore

GC content

  • @ref: 65475
  • GC-content: 70.9
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 65475

culture collection no.: KEMB 9005-695, KACC 19390, JCM 32206

literature

  • topic: Phylogeny
  • Pubmed-ID: 29620494
  • title: Rhodococcus olei sp. nov., with the ability to degrade petroleum oil, isolated from oil-contaminated soil.
  • authors: Chaudhary DK, Kim J
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.002750
  • year: 2018
  • mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Nepal, Nucleic Acid Hybridization, Peptidoglycan/chemistry, *Petroleum Pollution, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rhodococcus/*classification/genetics/isolation & purification, 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
65475Dhiraj Kumar Chaudhary, Jaisoo KimRhodococcus olei sp. nov., with the ability to degrade petroleum oil, isolated from oil-contaminated soil10.1099/ijsem.0.002750IJSEM 68: 1749-1756 201829620494
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/