Structural variants contribute to phenotypic variation in maize.

ABSTRACT: Comprehensively identifying the loci shaping trait variation has been challenging, in part because standard approaches often miss many types of genetic variants. Structural variants (SVs), especially transposable elements (TEs), are likely to affect phenotypic variation but we lack methods that can detect polymorphic structural variants and TEs using short-read sequencing data. Here, we used a whole genome alignment between two maize genotypes to identify polymorphic structural variants and then genotyped a large maize diversity panel for these variants using short-read sequencing data. After characterizing SV variation in the panel, we identified SV polymorphisms that are associated with life history traits and genotype-by-environment (GxE) interactions. While most of the SVs associated w

SUBMITTER: Catlin NS 

PROVIDER: S-EPMC11212879 | biostudies-literature | 2024 Dec

REPOSITORIES: biostudies-literature