Lactuca super-pangenome reduces bias towards reference genes in lettuce research.

ABSTRACT:

Background

Breeding of lettuce (Lactuca sativa L.), the most important leafy vegetable worldwide, for enhanced disease resistance and resilience relies on multiple wild relatives to provide the necessary genetic diversity. In this study, we constructed a super-pangenome based on four Lactuca species (representing the primary, secondary and tertiary gene pools) and comprising 474 accessions. We include 68 newly sequenced accessions to improve cultivar coverage and add important foundational breeding lines.

Results

With the super-pangenome we find substantial presence/absence variation (PAV) and copy-number variation (CNV). Functional enrichment analyses of core and variable genes show that transcriptional regulators are conserved whereas disease resistance genes are variable.

SUBMITTER: van Workum DM 

PROVIDER: S-EPMC11514843 | biostudies-literature | 2024 Oct

REPOSITORIES: biostudies-literature