Manhattan and QQ plots of GWAS on salt stress responses in root system architecture parameters of wild tomato (S. pimpinellifolium)

The population of +/2 200 accessions of wild tomato was screened with the protocol described here with the only exception that the plants were transferred 4 days after germination (rather than 3 - described in the protocol). The images were analyzed using the SmartRoot for days 0, 1, 2, 3, and 4 after transfer to treatment plates (0 or 100 mM NaCl, 1/4 MS, 0.5% sucrose, 0.1% MES, 1% Dashin agar). The data analysis was performed as described here, while the pareto front calculations were done according to Chandrasekhar & Julkowska paper (preprint here). The GWAS was performed using the ASReml script similar to Awlia et al. (2021). The raw GWAS outputs can be found here. This dataset represents Manhattan plots and QQ plots made out of the data.本研究采用本方案所载流程对200份左右的野生番茄种质资源进行筛选，唯一差异为：待植株萌发后4天进行移栽（本方案原描述为3天）。在转接至处理培养基平板（含0或100 mM氯化钠、1/4浓度MS培养基、0.5%蔗糖、0.1% MES缓冲液、1% Dashin琼脂）后的第0、1、2、3、4天，使用SmartRoot软件对植株图像开展分析。数据分析流程遵循本方案所述方法，而帕累托前沿（Pareto front）计算则参照Chandrasekhar与Julkowska的预印本论文完成。全基因组关联分析（Genome-Wide Association Study, GWAS）采用与Awlia等人2021年研究相似的ASReml脚本进行，原始GWAS分析结果可在此处获取。本数据集包含基于上述数据生成的曼哈顿图（Manhattan plot）与QQ图（QQ plot）。