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Genome-wide association study of seed coat color in sesame (Sesamum indicum L.)

Author

Listed:
  • Chengqi Cui
  • Yanyang Liu
  • Yan Liu
  • Xianghua Cui
  • Zhiyu Sun
  • Zhenwei Du
  • Ke Wu
  • Xiaolin Jiang
  • Hongxian Mei
  • Yongzhan Zheng

Abstract

Sesame (Sesamum indicum L.) is an important and ancient oilseed crop. Sesame seed coat color is related to biochemical functions involved in protein and oil metabolism, and antioxidant content. Because of its complication, the genetic basis of sesame seed coat color remains poorly understood. To elucidate the factors affecting the genetic architecture of seed coat color, 366 sesame germplasm lines were evaluated for seed coat color in 12 environments. The genome-wide association studies (GWAS) for three seed coat color space values, best linear unbiased prediction (BLUP) values from a multi-environment trial analysis and principal component scores (PCs) of three seed coat color space values were conducted. GWAS for three seed coat color space values identified a total of 224 significant single nucleotide polymorphisms (SNPs, P

Suggested Citation

  • Chengqi Cui & Yanyang Liu & Yan Liu & Xianghua Cui & Zhiyu Sun & Zhenwei Du & Ke Wu & Xiaolin Jiang & Hongxian Mei & Yongzhan Zheng, 2021. "Genome-wide association study of seed coat color in sesame (Sesamum indicum L.)," PLOS ONE, Public Library of Science, vol. 16(5), pages 1-14, May.
    • Handle: RePEc:plo:pone00:0251526
    DOI: 10.1371/journal.pone.0251526
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    References listed on IDEAS

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    1. Shin, Ji-Hyung & Blay, Sigal & McNeney, Brad & Graham, Jinko, 2006. "LDheatmap: An R Function for Graphical Display of Pairwise Linkage Disequilibria Between Single Nucleotide Polymorphisms," Journal of Statistical Software, Foundation for Open Access Statistics, vol. 16(c03).
    2. Magnus Nordborg & Detlef Weigel, 2008. "Next-generation genetics in plants," Nature, Nature, vol. 456(7223), pages 720-723, December.
    3. Bates, Douglas & Mächler, Martin & Bolker, Ben & Walker, Steve, 2015. "Fitting Linear Mixed-Effects Models Using lme4," Journal of Statistical Software, Foundation for Open Access Statistics, vol. 67(i01).
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    1. Zhijian Wang & Qi Zhou & Senouwa Segla Koffi Dossou & Rong Zhou & Yingzhong Zhao & Wangyi Zhou & Yanxin Zhang & Donghua Li & Jun You & Linhai Wang, 2022. "Genome-Wide Association Study Uncovers Loci and Candidate Genes Underlying Phytosterol Variation in Sesame ( Sesamum indicum L.)," Agriculture, MDPI, vol. 12(3), pages 1-13, March.

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