Graph pangenome captures missing heritability and empowers tomato breeding.

ABSTRACT: Missing heritability in genome-wide association studies defines a major problem in genetic analyses of complex biological traits^1,2. The solution to this problem is to identify all causal genetic variants and to measure their individual contributions^3,4. Here we report a graph pangenome of tomato constructed by precisely cataloguing more than 19 million variants from 838 genomes, including 32 new reference-level genome assemblies. This graph pangenome was used for genome-wide association study analyses and heritability estimation of 20,323 gene-expression and metabolite traits. The average estimated trait heritability is 0.41 compared with 0.33 when using the single linear reference genome. This 24% increase in estimated heritability is largely due to resolving incomp

SUBMITTER: Zhou Y 

PROVIDER: S-EPMC9200638 | biostudies-literature | 2022 Jun

REPOSITORIES: biostudies-literature