Fig. 2

Patterns of transcribable and un-transcribable haplotypes unraveled in genes involved in starch and SGA metabolism among autotetraploid potato. a, Composition of transcribable and un-transcribable haplotypes in 36 SGA-related genes among six tetraploid potato cultivars illustrated by a 36 × 6 matrix of pie charts. b, Percentage of transcribable haplotypes in starch and SGA genes carrying one to four haplotypes in each of the six cultivars. One-way ANOVA and Turkey’s multiple comparisons with α = 0.01 are applied. c, Density of genetic variations (per one kilo base pairs) identified in un-transcribable haplotypes (UNTR hap) and transcribable haplotypes (TR hap). P value is calculated using two-tailed t-test. d, Number of deleterious mutations predicted in un-transcribable haplotypes (UNTR hap) and transcribable haplotypes (TR hap). **** p < 0.0001 in two-tailed Wilcoxon rank sum test. e, Three types of transcripts derived from a single locus carrying three haplotypes as exemplified by Soltu.DM.09G030970.1, a phosphoglucan, water dikinase. The reference haplotype is Hap2 with a transcript whose translated peptides containing two predicted functional domains CMB_2 and PPDK_N. A large deletion present in Hap3 probably leads to the non-transcript outcome. The complete transcript is divided into two independent properly aligned full-length transcripts in Hap 1 possibly due to a substitution of a divergent region. Data are presented as mean ± SD in b-d