Fig. 2: Allelic gene variation and expression pattern in DS and MRB.
a, The layout for allele gene classification. The alleles were divided into the haplotype-specific genes (no paired genes in the corresponding haplotype), the alleles with the same CDS and biallelic genes. The star with the dotted line represents this gene not existing. b, Proportion of biallelic, allele with the same CDS and haplotype-specific genes in each haplotype. c, The TE distribution across gene body, 5-kb upstream and 5-kb downstream regions of biallelic, allele with the same CDS and haplotype-specific genes in HapA and HapB of DS and MRB. d, Number of ASE genes in eight fruit stages (including five developmental and three postharvest stages) of DS and MRB. e, The ASE gene type alteration between DS and MRB. HapDom indicates haplotype dominance gene pair. Sub denotes sub- or neofunctionalized pair and other ASE genes (Nodiff). NoASE denotes that the gene pair did not have ASE. f, The density of Ks and Ka/Ks values of ASE genes. g, The SNP density in gene features of HapA in DS (nHapDom = 4,498, nSub = 219, nNodiff = 3,794). The center line is the median, the box limits the first and third quartiles and the whiskers 1.5× the interquartile range (IQR). The terms nHapDom, nSub and nNodiff refer to the counts of different ASE genes. The y axis represents SNP numbers every 1,000 bp. The two-sided Student’s t-test was used for determining the significance. h, Expression pattern of the two alleles of SWEET2 and C3H in fruit samples of DS and MRB. TES, transcription end site; TSS, transcription start site.
