Rapid Identification and Validation of Xanthomonas oryzae pv. oryzae (Xoo) by using PCR-amplified Phage Integrase and Transposase A Gene

PCR-based specific identification of Xanthomonas oryzae pv. oryzae (Xoo), the pathogen responsible for bacterial blight (BB) of rice, was developed by amplifying the Xoo-specific phage-related integrase and transposase gene. Therefore, dual primers, XOP-F (5-CGGTCTGCTCAATGAGGAAGA-3) and XOP-R2 (5-TGCAATTGGTGTTCTCCAGG-3) and XOT-F (5-GTCATAGGTGAGGCTTCCC-3) and XOT-R2 (5-AGTGCGATCTTTCAGCAGG-3) were designed and found to specifically amplify 401bp and 492bp fragments from all strains of Xoo isolates from diverse regions in Korea. The PCR products were only amplified from Xoo among other bacterial strains including Escherichia coli, Agrobacterim, Pectobacterium caratovora subsp. cartovorum, P. atrosepticum, Pseudomonas putida, P. syringae, P. savastanoi pv. phaeolicola, P. savastanoi pv. savastanoi and P. marginalis pv. marginalis. This method could also be applied to detect the pathogen in infected rice leaves and paddy field water within 3 hr.