Lang Jillian M, Hamilton John P, Diaz Maria Genaleen Q, Van Sluys Marie Anne, Burgos Ma Ruby G, Vera Cruz Casiana M, Buell C Robin, Tisserat Ned A, Leach Jan E
Department of Bioagricultural Sciences and Pest Management, Colorado State University (CSU), Fort Collins 80523-1177.
Department of Plant Biology, Michigan State University, East Lansing 48824-1312.
Plant Dis. 2010 Mar;94(3):311-319. doi: 10.1094/PDIS-94-3-0311.
A computational genomics pipeline was used to compare sequenced genomes of Xanthomonas spp. and to rapidly identify unique regions for development of highly specific diagnostic markers. A suite of diagnostic primers was selected to monitor diverse loci and to distinguish the rice bacterial blight and bacterial leaf streak pathogens, Xanthomonas oryzae pv. oryzae and X. oryzae pv. oryzicola, respectively. A subset of these primers was combined into a multiplex polymerase chain reaction set that accurately distinguished the two rice pathogens in a survey of a geographically diverse collection of X. oryzae pv. oryzae, X. oryzae pv. oryzicola, other xanthomonads, and several genera of plant-pathogenic and plant- or seed-associated bacteria. This computational approach for identification of unique loci through whole-genome comparisons is a powerful tool that can be applied to other plant pathogens to expedite development of diagnostic primers.
使用一种计算基因组学流程来比较黄单胞菌属物种的测序基因组，并快速鉴定出独特区域，以开发高度特异性的诊断标记。选择了一套诊断引物来监测不同的基因座，并分别区分水稻白叶枯病和细菌性条斑病的病原体，即水稻黄单胞菌稻致病变种（Xanthomonas oryzae pv. oryzae）和水稻黄单胞菌稻生致病变种（X. oryzae pv. oryzicola）。这些引物的一个子集被组合成一个多重聚合酶链反应组，在对来自不同地理区域的水稻黄单胞菌稻致病变种、水稻黄单胞菌稻生致病变种、其他黄单胞菌以及几个植物致病和植物或种子相关细菌属的样本进行调查时，该反应组能准确区分这两种水稻病原体。这种通过全基因组比较来鉴定独特基因座的计算方法是一种强大的工具，可应用于其他植物病原体，以加快诊断引物的开发。
