A haplotype-resolved chromatin landscape connects cis-regulatory variants to trait variation in Citrus.

ABSTRACT:

Background

Genetic and epigenetic perturbation of cis-regulatory sequences can shift patterns of gene expression and result in novel phenotypes. Phased genome assemblies now enable the local dissection of linkages between cis-regulatory sequences, including their epigenetic state, and allele-specific gene expression to further characterize gene regulation and resulting phenotypes in heterozygous genomes.

Results

We assembled a locally phased genome for a mandarin hybrid named 'Fairchild' to explore the molecular signatures of allele-specific gene expression. With local genome phasing, genes with allele-specific expression were paired with haplotype-specific chromatin states, including levels of chromatin accessibility, histone modifications, and DNA methylation. We found tha

SUBMITTER: Diaz IA 

PROVIDER: S-EPMC12577126 | biostudies-literature | 2025 Oct

REPOSITORIES: biostudies-literature