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. 2018 Jan 5;8:2213. doi: 10.3389/fpls.2017.02213

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Copyright © 2018 Lu, Niu, Zhang, Wang, Xu, Feng, Yang, Wang, Yuan, Yu, Wang, Chen, Liang and Wei.

This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

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Phenotypic distribution and GWAS of seed dormancy. (A) Boxplot showing the differences in seed germination among five subpopulations of the indica-only panel. To reduce environment affect and simplify analysis, BLUP of seed germination of each subpopulation was used in the boxplot. Whiskers represent 1.5 times the quantile of the data. Individuals falling outside the range of the whiskers are shown as open dots. (B) Quantile-Quantile plots of GWAS results using different association models for all samples. Gray line represents the distribution of P-values assuming associations. (C) Manhattan plot showing P-values along the whole genome. The black straight line shows the threshold of P = 2.5E-04.