Additional file 1: Table S1. of Genetic diversity and population structure analysis to construct a core collection from a large Capsicum germplasm

Summary of SNP markers used in the genetic analysis of pepper germplasm collection. Table S2. Description of various traits used in this study. Table S3. Genetic diversity analysis of the 4,652 pepper accessions. Table S4. Distribution of Capsicum species in STRUCTURE clusters within 3,821 germplasm accessions. Table S5. Accession in the ‘CC240’ core collection and group position of every accession in ‘CC240’ and the 3,821 germplasm collection. Table S6. Multiple allelic markers used to evaluate the core collection in Capsicum. Table S7. Analysis of molecular variance (AMOVA) among various subpopulations based on different clustering methods within 3,821 Capsicum accessions. Table S8. Comparison among different core collections established by diverse genetic clustering methods. CG3-CG5: Core collections based on unrooted phylogenetic tree clusters (A to E) grouped by 3 (A + B, C, D + E), 4 (A + B, C, D, E), and 5 (A, B, C, D, E) in respectively. CST10: Core collection based on 10 clustered population structure as in Fig. 1. Evaluated parameters; MD %: the mean difference percentage, CR %: the coincidence rate, VD %: the variance difference percentage, VR %: variable rate, I: Shannon’s information index of diversity, J': Genetics evenness, I max: logarithmic number of classes in entire collection. (XLSX 51 kb)

用于辣椒种质资源遗传分析的单核苷酸多态性（Single Nucleotide Polymorphism, SNP）标记汇总。补充表S2：本研究所用各类性状的描述。补充表S3：4652份辣椒种质的遗传多样性分析。补充表S4：3821份辣椒种质资源中辣椒属（Capsicum）物种在STRUCTURE聚类群中的分布情况。补充表S5：‘CC240’核心种质库中的种质材料，以及‘CC240’与3821份种质资源集合中每份材料的类群归属。补充表S6：用于评价辣椒属（Capsicum）核心种质库的多等位基因标记。补充表S7：基于3821份辣椒属（Capsicum）种质的不同聚类方法所得到的各亚群间的分子方差（Analysis of Molecular Variance, AMOVA）分析结果。补充表S8：不同遗传聚类方法构建的核心种质库间的比较。CG3-CG5：分别基于按3组（A+B、C、D+E）、4组（A+B、C、D、E）及5组（A、B、C、D、E）划分的无根系统发育树聚类群（A至E）所构建的核心种质库。CST10：基于图1所示的10个聚类群体结构所构建的核心种质库。评估参数如下：MD%为均值差百分比（mean difference percentage），CR%为重合率（coincidence rate），VD%为方差差百分比（variance difference percentage），VR%为变异率（variable rate），I为多样性香农信息指数（Shannon’s information index of diversity），J'为遗传均匀度（Genetics evenness），Imax为全集合的类群对数数量。（XLSX格式，文件大小51KB）