Representing true plant genomes: haplotype-resolved hybrid pepper genome with trio-binning.

ABSTRACT: As sequencing costs decrease and availability of high fidelity long-read sequencing increases, generating experiment specific de novo genome assemblies becomes feasible. In many crop species, obtaining the genome of a hybrid or heterozygous individual is necessary for systems that do not tolerate inbreeding or for investigating important biological questions, such as hybrid vigor. However, most genome assembly methods that have been used in plants result in a merged single sequence representation that is not a true biologically accurate representation of either haplotype within a diploid individual. The resulting genome assembly is often fragmented and exhibits a mosaic of the two haplotypes, referred to as haplotype-switching. Important haplotype level information, such as causal m

SUBMITTER: Delorean EE 

PROVIDER: S-EPMC10687446 | biostudies-literature | 2023

REPOSITORIES: biostudies-literature