Data for "Drone-Imaging Assisted GWAS Reveal Key QTLs for Emergence and Late Blight Resistance in Tetraploid Potato"

The data applied in the study includes phenotypic and genotypic information on two panels of breeding clones from Danespo A/S. Due to proprietary rights of the clones, they are masked by IdX numbers in the data. The genotypic data was generated by SNP array using a custom 20k Affymetrix chip. This chip is also proprietary, and the SNP positions on each chromosome are also masked, but retain colinearity along the chromosome. The phenotypic data was computed from image data as a commercial service by Phenoyard AB without preprocessing. The phenotypes submitted here include the 1-9 grading of clone emergence across day 0-20 of the early growth season. 9 denotes early emergence, and 1 denotes late emergence. Late blight resistance is reported as an area-under-disease-progression-curve normalized by total monitoration period, i.e. a single across-season phenotype for each clone. File descriptions:SNP_map.RData - .RData file holding the masked marker coordinates on the chromosomes. Chromosome 0 is scaffolds, chromosome 13 is unmapped. The SNPs are based on the v6.1 potato DM reference genome, but positions are masked within chromosome. The colinearity of the SNPs along the chromosomes are conserved relative to the true positions. gt_emergence_panel.RData - .RData file holding imputed genotypic data of 8,731 SNPs for 2,576 clones in the emergence panel. The row names are clone IdX. The column names are SNP ID. gt_late_blight_resistance_panel.RData - .RData file holding imputed genotypic data of 8,731 SNPs for 1,520 clones in the late blight resistance panel. The row names are clone IdX. The column names are SNP ID. pt_emergence.RData - .RData file holding "Emergence" phenotypic data for the emergence panel, including 6,262 observations. Also including metadata such as field location, year of phenotyping, and clone market group. pt_late_blight_resistance.RData - .RData file holding late blight resistance phenotypic data for the late blight resistance panel at each time point across the infection period for each clone in each testing year with field location metadata, including 6,972 observations. Also including metadata such as year of phenotyping, and clone market group.本研究采用的数据包含来自Danispo A/S的两个育种克隆群体的表型与基因型信息。鉴于克隆材料的专有产权，数据中所有克隆均以IdX编号进行掩码处理。基因型数据通过定制20k Affymetrix芯片完成单核苷酸多态性（Single Nucleotide Polymorphism, SNP）阵列检测生成。该芯片同样属于专有资产，每条染色体上的SNP位点均已掩码，但保留了沿染色体的共线性关系。表型数据由Phenoyard AB作为商业服务基于图像数据计算得到，未经过预处理。本次提交的表型性状包含作物生长早期（第0至20天）的克隆出苗分级评分：采用1-9级计分，9代表出苗较早，1代表出苗较晚。晚疫病抗性以经总监测时长归一化的病害进展曲线下面积表示，即每个克隆的全季单值表型性状。 文件说明如下： 1. SNP_map.RData：该.RData文件存储了染色体上已掩码的标记坐标。其中0号染色体为支架序列（scaffold），13号染色体为未定位序列。本研究的SNP位点基于马铃薯DM参考基因组v6.1版本构建，但染色体内部的位点坐标已被掩码，不过SNP沿染色体的共线性关系与真实位置保持一致。 2. gt_emergence_panel.RData：该.RData文件包含出苗群体中2576个克隆的8731个SNP的填充基因型数据。行名为克隆IdX，列名为SNP编号。 3. gt_late_blight_resistance_panel.RData：该.RData文件包含晚疫病抗性群体中1520个克隆的8731个SNP的填充基因型数据。行名为克隆IdX，列名为SNP编号。 4. pt_emergence.RData：该.RData文件包含出苗群体的"出苗"表型数据，共计6262条观测值，同时包含田间位置、表型鉴定年份以及克隆市场类群等元数据。 5. pt_late_blight_resistance.RData：该.RData文件包含晚疫病抗性群体的晚疫病抗性表型数据，记录了每个测试年份中每个克隆在侵染期各时间点的表型，附带田间位置元数据，共计6972条观测值，同时包含表型鉴定年份以及克隆市场类群等元数据。