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. 2020 Jan 13;6(1):34–45. doi: 10.1038/s41477-019-0577-7

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© The Author(s) 2020

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

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Fig. 4 — a, Manhattan plots of SNP-GWAS and PAV-GWAS for silique length. b, A 3.6-kb CACTA-like insertion as lead PAV of BnaA09.CYP78A9 promoter region. c, The silique length in lines with different CYP78A9 alleles. For a and b, the GWAS (-lmmm 1: Wald test) was performed with 3,971,412 SNPs or 27,216 PAVs in the BN-NAM population containing 2,141 RILs. d, Thousand-seed weight in lines with different CYP78A9 alleles. For c and d, P values were determined using two-tailed Student’s t-tests. The middle bars represent the median while the bottom and top of each box represent the 25th and 75th percentiles, respectively. The whiskers extend to 1.5 times the interquartile range. Alt, alternative; Ref, reference. e,f, Phenotype data of silique length in eight B. napus accessions. g,h, Phenotype data of seed weight in eight assembled B. napus accessions. For e and g, experiments were repeated five times with similar results. For f and h, data are mean ± s.d. of eight and five biological replicates, respectively.