Supplemental Material for Dong et al., 2021

Figure S1 shows Δ (SNP-index) in QTL-seq on the other 18 chromosomes. Figure S2 shows the genotype based on a bin map of 200 individuals in the F2 population in Yangluo in 2018. Figure S3 illustrates a matrix of pairwise recombination values for the F2 linkage map using Checkmatrix. Figure S4 describes the QTL scanning for plant height on chromosome A10. Figure S5 shows Spearman’s correlation plot of the four samples based on the RNA-seq data in the study. Table S1 lists the primers used for RT-qPCR. Table S2 shows the log-max-likelihood values and AIC values of genetic models in SEA analysis. Table S3 shows the fitness test of candidate models in SEA analysis. Table S4 shows genetic parameters estimated in the MX1-AD-ADI model. Table S5 shows the quality of the sequencing data from the QTL-seq. Table S6 shows the statistics of comparison between the sequencing reads and reference genome in the two bulks. Table S7 Plant height of 200 individuals in the F2 population in Yangluo in 2018. Table S8 the sequence data quality of 200 individuals in the F2 population. Table S9 shows the bin marker information and the genotype of the 200 individuals in the F2 population. Table S10 shows the genetic position of all the mapped Bin markers in each linkage group. Table S11 shows the physical position of all the Bin markers in each chromosome. Table S12 shows the R2 value between the genetic map and the physical map in each linkage group. Table S13 shows the quality of the RNA-seq. Table S14 shows the DEGs information in the QTL region. Table S15 lists the variant information between the two parents in the QTL interval. Table S16 lists the candidate genes with missense and nonsense mutations.图S1展示了其余18条染色体上数量性状基因座测序（QTL-seq）的Δ(SNP-index)值；图S2展示了2018年阳逻地区F2群体中200个单株基于Bin图谱的基因型；图S3展示了利用Checkmatrix绘制的F2连锁图谱的两两重组值矩阵；图S4描述了A10染色体上株高的数量性状基因座（QTL）扫描结果；图S5展示了本研究中基于RNA测序（RNA-seq）数据的4个样本的斯皮尔曼相关性图谱；表S1列出了实时定量聚合酶链反应（RT-qPCR）所用的引物；表S2展示了SEA分析中各遗传模型的对数极大似然值与赤池信息准则（AIC）值；表S3展示了SEA分析中候选模型的适配性检验结果；表S4展示了MX1-AD-ADI模型中估算得到的遗传参数；表S5展示了QTL-seq测序数据的质量情况；表S6展示了两个混合样本的测序reads与参考基因组比对后的统计结果；表S7展示了2018年阳逻地区F2群体中200个单株的株高数据；表S8展示了F2群体中200个单株的测序数据质量；表S9展示了F2群体中200个单株的Bin标记信息及其基因型；表S10展示了各连锁群中所有已定位Bin标记的遗传位置；表S11展示了各染色体上所有Bin标记的物理位置；表S12展示了各连锁群的遗传图谱与物理图谱之间的R²值；表S13展示了RNA-seq测序数据的质量；表S14展示了QTL区间内的差异表达基因（DEGs）信息；表S15列出了QTL区间内两个亲本之间的变异信息；表S16列出了携带错义突变与无义突变的候选基因。