Fig. 3

Region L2 on chromosome 6 related to RHL in ALL and JAPONICA. A Chromosome-wide Manhattan plots of HDRA genome-wide analysis (GW HDRA, left) and all RICE-RP SNPs in a chromosome-wide scan (CW RICE-RP SNPs, right). The grey region indicates the genomic region. B Comparison of the RHL phenotype between lines carrying the alternate and reference allele at the MS-SNP. Significance is indicated by a t-test. C Magnification of the RICE-RP chromosome-wide Manhattan plot of the genomic region. Genes are overlaid on this plot and colored as follows. Green genes are expressed in root hairs or root-hair forming cells according to Huang et al. [69], orange indicates no previous expression evidence, and white indicates transposable elements. Haplotypes are presented below the Manhattan plot, with blue representing reference alleles and yellow, alternate alleles, across these regions. D Comparison of the phenotypes of the haplotypes of panel C with significance indicated as a BH-adjusted, Kruskal-Wallace test with a Dunn posthoc test