New Candidate Genes Affecting Rice Grain Appearance and Milling Quality Detected by Genome-Wide and Gene-Based Association Analyses.

Highly significant differences in GL were detected between different haplotypes at five candidate genes ( Os03g0392000, Os03g0392250, Os03g0392300, Os03g0392400 , and Os03g0392600 ), and in all the five cases, significantly reduced GL was associated with the minor allele(s) (Figure 3A and Supplementary Table S2 ), as originally detected in the peak SNP (Table 2 ).

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