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The rice cultivar ‘Chumroo’ is commonly cultivated in the mid- and high-altitude areas of Bhutan. This cultivar has shown durable blast resistance in that area, without evidence of breakdown, for over 20 years. Chumroo was inoculated with 22 blast isolates selected from the race differential standard set of Japan. The cultivar showed resistance to all the isolates. To identify the resistance gene(s), Chumroo was crossed with a susceptible rice cultivar, Koshihikari. The F1 plants of the cross showed resistance. Segregation analyses of 300 F3 family lines fitted the segregation ratio of 1:2:1 and indicated that a single dominant gene controls the resistance to a blast isolate Ao 92-06-2 (race 337.1). The Chumroo resistance locus (termed Pi46(t)) was mapped between two SSR markers, RM6748 and RM5473, on the terminal region of the long arm of chromosome 4, using linkage analysis with SSR markers. The nearest marker, RM5473, was linked to the putative resistance locus at a map distance of 3.2 cM. At the chromosomal region, no true resistance genes were identified, whereas two field resistance genes were present. Therefore, we designated Pi46(t) as a novel blast resistance locus.

Genotypic variation in stomatal density and size has been reported but little is known of the genetic mechanisms behind these leaf traits. Using 101 recombinant inbred lines derived from a cross between a tropical japonica, IR69093-41-3-2-2 and an indica variety, IR72, we conducted a field study to determine stomatal density and size and identify quantitative trait loci (QTL) controlling these traits under lowland conditions. Ten QTLs for stomatal density and four QTLs for size were identified across growth stages and leaf surfaces (adaxial and abaxial). The contribution of each QTL to total phenotypic variation ranged from 9.3 to 15.2% for stomatal density and 9.7 to 14.3% for size. The allele from IR72 increased stomatal density and that from IR69093-41-3-2-2 increased size. The expression of the QTLs for stomatal density and size differed by growth stage indicating that these traits might be genetically controlled depending on growth stage or that each QTL had a different function by growth stage. Significant negative genetic correlations between stomatal density and size at both vegetative (r = −0.308**) and heading (r = −0.484**) stages were observed but no common QTL for these traits was detected across growth stages and leaf surfaces. These results indicate that the QTLs for density and size may neither be genetically linked nor pleiotropically controlled and findings can be used as basis for selection at the leaf level on the balance of carbon and water uptake. Further study is needed to fully understand the mechanism underlying the observed genetic association and to elucidate the function of the QTLs involved.