Population differentiation of Thai fragrant rice variety revealed by SSR marker analysis
DOI:
https://doi.org/10.14456/tjg.2014.16Keywords:
rice, betaine aldehyde dehydrogenase gene (badh2), microsatellite markerAbstract
This study aims to survey an allele badh2, an 8 bp deletion in exon 7 of the fgr gene, in a representative rice collection of two traditional fragrant rice varieties, Hohm Nangnuan and Hohm Thung, grown in the northeastern region of Thailand. The study also determines the population genetic structure of these two traditional varieties by using 13 SSR markers surrounding the aroma loci mapped on chromosome 8. It was found that rice accessions of Hohm Nangnuan from Mahasarakham, Ubon Ratchathani (type 2), Yasothon, and Sakon Nakhon provinces showed fragrant genotypes (badh2/badh2), while Hohm Nangnuan type 1 from Ubon Ratchathani showed the non-fragrant genotype (Badh2/Badh2). For the Hohm Thung variety from Ubon Ratchathani province, all rice accessions with the rice straw husk used in this experiment carried the fragrant genotype, whereas rice accessions with the rice brown husk carried the non-fragrant genotype. Based on the data of SSR genotype over the 13 SSR loci, the STRUCTURE simulation illustrates a spatial pattern that corresponds to their name.
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