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Development of SNP Molecular Markers for Detection of Xanthomonas oryzae pv. oryzae Population Causing Bacterial Blight Disease of Rice in Thailand Using MassARRAY Technique |
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| รหัสดีโอไอ | |
| Creator | Luksorn Tumariya |
| Title | Development of SNP Molecular Markers for Detection of Xanthomonas oryzae pv. oryzae Population Causing Bacterial Blight Disease of Rice in Thailand Using MassARRAY Technique |
| Contributor | Thitima Chintaganon, Vinitchan Ruanjaichon, Sujin Patarapuwadol |
| Publisher | Department of Agriculture |
| Publication Year | 2567 |
| Journal Title | Thai Agricultural Research Journal |
| Journal Vol. | 42 |
| Journal No. | 3 |
| Page no. | 287-301 |
| Keyword | bacterial blight disease, housekeeping gene, MassARRAY, SNP marker, Xanthomonas oryzae pv. oryzae |
| URL Website | tci-thaijo.org/index.php/thaiagriculturalresearch |
| Website title | Thai Agricultural Research Journal |
| ISSN | 3027-7272 |
| Abstract | Xanthomonas oryzae pv. oryzae (Xoo), the causal organism of bacterial blight, exhibits genetic diversity and adapts continuously to overcome rice varieties with inherent resistance to this disease. To effectively manage bacterial blight, rapid and high-throughput diagnostic tools are essential for monitoring changes in Xoo populations across different regions. In this study, we aimed to develop molecular SNP markers using data from housekeeping gene clusters in Xoo. We analyzed 50 Xoo strains collected during 2008 - 2018 from rice cultivation areas in 14 provinces of Thailand. We designed Xoo-SNPs (single nucleotide polymorphisms) to enable high-throughput multiplex detection based on MassARRAY technology. Our research successfully developed 9 SNP positions derived from eight housekeeping genes (DnaK, gluS, leuA, pyk, pyrH, RecA, rpoB, and tpiA). These markers effectively tracked Xoo populations, representing 33 races prevalent in Thailand, within a remarkable turnaround time of 2 days, excluding the sample preparation step. Furthermore, our approach allowed the simultaneous examination of up to 45 samples per day. Notably, the developed Xoo-SNPs MassARRAY-based markers not only differentiated Xoo strains based on their pathogenicity toward rice varieties carrying the xa5 resistance gene but also identified markers specific to the geographical origin of the strains in provinces such as Nakhon Si Thammarat, Buriram, Roi Et, Sukhothai, and Chiang Rai. However, no significant correlation was observed between the SNP markers designed from housekeeping genes and the race-specific or disease severity characteristics. |
