Discrimination of Burkholderia gladioli pv. alliicola and B. cepacia complex using the gyr B gene of B. gladioli pv. alliicola

The aim of the present study was to investigate the efficiency of the gene derived from pv. (Bga) on the identification of Bga from the complex (Bcc) based on the COnsensus-DEgenerate Hybrid Oligonucleotide Primer (CODEHOP) strategy. A set of primers used for the specific amplification of the gene in Bga were designed according to the CODEHOP principle. A total of 1,644 bp of the gene sequence of Bga were acquired by CODEHOP amplification. The sequence was blasted in GenBank and it revealed an average of 86% similarity with the gene of nine genomovars of Bcc. A phylogenetic tree was constructed using the gene sequences. The microarray method was adopted to discriminate Bga from Bcc based on the specific probes designed upon the gene, and five genomovars of Bcc demonstrated a good discrimination from Bga on the microarray chip. CODEHOP strategy succeeded in amplification of the gene of Bga, which made it possible for the identification of Bga from five genomovars of Bcc.