# Key Genomic Regions of Rice Cultivar GuiHeFeng and Its Derivatives Revealed by Genome-Wide Analysis

## TL;DR

This study identifies key genomic regions in rice cultivar GuiHeFeng and its derivatives that are important for breeding.

## Contribution

The study reveals key genomic regions and genes in rice cultivars through genome-wide analysis of SNPs and selective sweeps.

## Key findings

- Identified 1310 key GuiHeFeng traceable blocks (kGTBs) shared across nine derivatives.
- Found 20 key genomic regions (kGRs) within selective sweeps that are crucial for rice breeding.
- Discovered 38 significant genes and 20 alleles associated with agronomic traits on kGTBs.

## Abstract

Rice is a widely cultivated staple crop that serves as the primary source of carbohydrates for more than half of the global population. Elite parents with superior agronomic traits play a crucial role in rice breeding systems. In this study, we performed whole-genome resequencing of the rice cultivar GuiHeFeng and its nine derivative lines, identifying a total of 6,633,507 high-quality single-nucleotide polymorphisms (SNPs). The percentage of GuiHeFeng traceable blocks (GTBs) in the nine derivatives ranged from 48.94% to 63.2%. Based on the SNP analysis, we found 1310 key GuiHeFeng traceable blocks (kGTBs), which were derived from GuiHeFeng and present in all nine derivatives. Moreover, 375 selective sweeps (SSWs) were identified, of which 20 were also located within the kGTBs. These 20 SSWs were regarded as key genomic regions (kGRs) for rice breeding. After the association test, 20 alleles including 17 genes were identified on the kGTBs, and 38 significant genes were found within the key genomic regions. This research identifies the genomic segments and agronomically important genes/QTLs that will serve as essential targets for genomic selection in rice breeding.