Accession PRJCA001768
Title Resequencing of hybrid rice parents: Divergent selection and genetic introgression shaped genome landscape of heterosis in two-line hybrid rice
Relevance Agricultural
Data types Whole genome sequencing
Organisms Oryza sativa
Description The successful application of heterosis in hybrid rice has dramatically improved the rice productivity, but the genetic mechanism for heterosis in the hybrid rice remains unclear. In this study, we generated two populations of rice F1 hybrids with present-day commercial hybrid parents, genotyped the parents with 50 K SNP chip and genome resequencing, and totally recorded the phenotype of the hybrids~43,200 plants at three field trials. By integrating these data with the collected genotypes of ~4,200 rice landraces and improved varieties that were reported previously, we found that the male and female parents have different levels of genome introgressions from other rice sub-populations including indica, aus and japonica, therefore shaping heterotic loci in the hybrids. Among the introgressed exogenous genome, we found that heterotic loci including Ghd8/DTH8, Gn1a and IPA1 existed in wild rice, but were significantly divergently selected among the rice sub-populations, suggesting these loci were subject to environmental adaption. During modern rice hybrid breeding, heterotic loci were further selected by removing loci with negative effect and fixing loci with positive effect and pyramid breeding. Our results provided insight into the genetic basis underlying the heterosis of elite hybrid rice varieties, which would facilitate to better understanding of heterosis and rice hybrid breeding.
Sample scope Monoisolate
Release date 2020-02-07
Publication
PubMed ID Article title Journal name DOI Year
32071222 Divergent selection and genetic introgression shape the genome landscape of heterosis in hybrid rice Proceedings of the National Academy of Sciences of the United States of America 10.1073/pnas.1919086117 2020
Grants
Agency program Grant ID Grant title
National Natural Science Foundation of China (NSFC) N/A
Submitter Dechung    Lim  (linzechuan110@163.com)
Organization Peking University
Submission date 2019-09-21

Project Data

Resource name Description
BioSample (115)  show -
GSA (1) -
CRA002327 Genome resequencing of two-line hybrid parents