African Journal of

  • Abbreviation: Afr. J. Biotechnol.
  • Language: English
  • ISSN: 1684-5315
  • DOI: 10.5897/AJB
  • Start Year: 2002
  • Published Articles: 12268

Full Length Research Paper

Characterization of Burkholderia cepacia genomovar I as a potential biocontrol agent of Ganoderma boninense in oil palm

B. F. Azadeh, M. Sariah* and M. Y. Wong
Department of Plant Protection, Faculty of Agriculture, Universiti Putra Malaysia, 43400 Serdang, Selangor D.E., Malaysia.
Email: [email protected]

  •  Accepted: 19 February 2010
  •  Published: 14 June 2010


 Burkholderia is an important bacterial genus containing several species of ecological, biotechnological and pathological interest. Bacterial isolate can be gotten from soil, water, plants and even clinics. With their taxonomy undergoing constant revision and the phenotypic similarity of several species, correct identification ofBurkholderia is difficult. Burkholderia cepacia complex (Bcc) consists of nine discrete genomic species and a genetic scheme based on the recA gene has greatly enhanced the identification of B. cepacia complex speciesThe objectives of this study were to identify Burkholderia strain UPM B3 which was isolated from oil palm roots to the species level based on Biolog® Identification System, and to carry out DNA fingerprinting for strain differentiation as well as differentiate between pathogenic and non-pathogenic human forms. Antagonistic activity of UPM B3 against Ganoderma boninense was also evaluated by using dual culture and poison food tests. Genotype characterization was carried out by amplification of the recAgene using specific primers, purified using QIA Quick polymerase chain reaction (PCR) purification kit and sequenced. Multiple sequence alignments were performed on closely related sequence accessions using CLUSTAL W software. Result of nucleotide sequencing followed by phylogenetic analysis of the recAfragments differentiated both putative and known Burkholderia species and all members of the B. cepacia complex. Genomovar analysis confirmed that UPM B3, isolated from oil palm roots belongs to genomovar I and has antagonistic activity against G. boninense based on in vitro dual culture and poison food tests. From the phylogenetic tree, UPM B3 is a specific strain within B. cepacia complex species that belong to genovomar I which is associated with strains nonpathogenic to humans. Thus, B. cepacia strain UPM B3 has the potential to be used against G.boninense, the causal pathogen of basal stem rot (BSR) in oil palm.


Key words: Burkholderia cepacia complex, recA gene, UPM B3, basal stem rot,Ganoderma boninense.