Journal of Integrative Agriculture (Jan 2021)

Genome-wide pedigree analysis of elite rice Shuhui 527 reveals key regions for breeding

  • Yun REN,
  • Dan CHEN,
  • Wen-jie LI,
  • Luo TAO,
  • Guo-qiang YUAN,
  • Ye CAO,
  • Xue-mei LI,
  • Qiming DENG,
  • Shi-quan WANG,
  • Ai-ping ZHENG,
  • Jun ZHU,
  • Huai-nian LIU,
  • Ling-xia WANG,
  • Ping LI,
  • Shuang-cheng LI

Journal volume & issue
Vol. 20, no. 1
pp. 35 – 45

Abstract

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Hybrid rice significantly contributes to the food supply worldwide. Backbone parents play important roles in elite hybrid rice breeding systems. In this study, we performed pedigree-based analysis of the elite backbone parent rice variety, namely, Shuhui 527 (SH527, Oryza sativa), to exploit key genome regions during breeding. Twenty-four cultivars (including SH527, its six progenitors and 17 derived cultivars) were collected and analyzed with high-density single nucleotide polymorphism (SNP) array. Scanning all these cultivars with genome-wide SNP data indicated the unique contributions of progenitors to the SH527 genome and identified the key genomic regions of SH527 conserved within all its derivatives. These findings were further supported by known rice yield-related genes or unknown QTLs identified by genome-wide association study. This study reveals several key regions for SH527 and provides insights into hybrid rice breeding.

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