Haplotype-resolved genome assembly of Ficus carica L. reveals allele-specific expression in the fruit.

ABSTRACT: In this study, we produced a haplotype-phased genome sequence of the fig tree (Ficus carica L.), a non-Rosaceae fruit tree model species, providing a systematic overview of the organization of a heterozygous diploid genome and, for the first time in a fruit tree, evidence of allelic expression direction-shifting among haplotypes. The genome was used for whole genome analysis of heterozygosis, allelic cytosine methylation, and expression profiles in peel and pulp fruit tissues. The two pseudo-haplotypes spanned approximately 355 and 346 Mbp, respectively, and 97% of the sequences were associated with 13 chromosome pairs of the fig tree. Overall, the methylation profile in peel and pulp tissues showed no variations between the homologous chromosomes. However, we detected differential DNA met

SUBMITTER: Usai G 

PROVIDER: S-EPMC11850962 | biostudies-literature | 2025 Feb

REPOSITORIES: biostudies-literature