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. 2019 May 30;70(19):5115–5130. doi: 10.1093/jxb/erz256

Fig. 6.

Fig. 6.

Haplotype distribution for head rice yield (HRY) and chalkiness in IRRI breeding lines together with selected diversity lines. An unrooted dendrogram (a) and a boxplot (b) depict the allelic variations for key haplotypes of the chromosome 8 hotspot region that governs HRY traits. The distribution indicated four different groups. Group-1 (red) represents high HRY cultivars (median 53.7%) as identified in the core collection with the presence of high-HRY haplotypes. Group-2 (yellow/green) had the second highest HRY values (median 45.4%) and included the broadly adapted mega-variety IR64 and other advanced breeding lines. Group-3 (green) mainly included recently released breeding lines with relatively lower and variable HRY values (median 37.84). Group 4 (black) included a wide range of HRY values (median 40.41). (c) Unrooted dendrogram and (d) boxplot based on allelic variations within the novel putative candidate gene chalk5.1, where group 5 (blue) represents the lowest chalkiness value (median 2.8) with lowest variance in three IRRI breeding lines and four accessions, while group 1 (red) showed a low chalk value (median 3.2) and represented only IRRI breeding lines. (e) Unrooted dendrogram and (f) boxplot showing allelic variation in the previously characterized chalk5 gene.