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. 2019 Sep 1;6:101. doi: 10.1038/s41438-019-0184-9

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© The Author(s) 2019

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. 3 — The outputs depict quantitative trait loci (QTL) scans with different models. a linkage group (LG)27 of ‘Hort16A’, (b) LG22 of P1, both for Psa_score_Field. From stab assay phenotypes major QTLs on: (c) LG13 in ‘Hort16A’ for Stem_necrosis, and in P1 on (d) the upper arm of LG27 for Ooze, (e) LG10 for Wilt and (f) LG1 for Psa_score_Stab. SNPs at peaks are indicated and a key for the QTL mapping models is provided. The red line at LOD 3 represents a minimum threshold level for a candidate QTL and the dashed line at LOD 4.5 represents a statistically significant level for a QTL using a genome-wide permutation test at alpha 0.05. A geom_smooth, a function of ggplot2, is added to the graph in form of a blue line with pink background to represent a smoothed conditional mean with span = 1.1. g shows dot-plot analysis of the allelotypes of markers underlying quantitative trait loci derived from the Psa_score_Field for the population ‘Hort 16A’ × P1’