Structural Variation and 3D Genome-Driven DNA/RNA Methylation Divergence Contributing to Cotton Fiber Domestication.

ABSTRACT: Cotton domestication has driven remarkable improvements in fiber quality; however, the integrative roles of structural variation (SV), 3D genome architecture, and epigenetic regulation in this process remain poorly understood. Here, the genome assembly of wild (yucatanense, Yuc) and cultivated cotton (Xinluzao 61, XLZ61) is first reported. A total of 35 050 InDels and 165 inversions are identified, and 86.6% of these SVs are accumulated in differential topologically associating domain regions, indicating the important role of SV in 3D genome remodeling. Comparative analysis also yielded 199 359 differential DNA methylation regions and 2 092 787 differential RNA methylation loci, collectively affecting 44.7% of differentially expressed genes. Notably, SV-associated methylation changes had s

SUBMITTER: Shao L 

PROVIDER: S-EPMC12903982 | biostudies-literature | 2026 Feb

REPOSITORIES: biostudies-literature