Additional file 2 of Genomic insights into the origin, domestication and genetic basis of agronomic traits of castor bean

Additional file 2: Table S1. BUSCO (Benchmarking Universal Single-Copy Orthologs) evaluation of genome completeness of wild castor bean. Table S2. Classification and annotation of repetitive sequences in the wild castor bean genome. Table S3. The number and distribution per chromosome of protein-coding genes and non-coding RNAs in the wild castor bean genome. Table S4. Functional annotation of wild castor bean genome. Table S5. Genes specific to castor bean relative to other five eudicot species (Hevea brasiliensis, Jatropha curcas, Manihot esculenta, Mercurialis annua and Vernicia fordii). Table S6. Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment for genes that have undergone expansion in castor bean genome. Table S7. Detailed information of 505 castor bean lines used in this study. Table S8. Information of genome resequencing data and mapping. Table S9. Summary of single nucleotide polymorphism (SNP) and insertions and deletions (indels) among 505 castor bean accessions. Table S10. Estimation of the relative contributions of the eight environmental variables to the Maxent model for all populations. Table S11. Genes identified as potential divergence between WK and WE based FST analysis. Table S12. Gene Ontology (GO) analysis of divergent genes between WK and WE population. Table S13. Domestication-related genes identified by two methods ROD and FST analyses. Table S14. Gene Ontology (GO) analysis of domestication-related genes. Table S15. Genome-wide associated for eight yield-associated traits in castor bean (for SOC no significant SNPs were identified). Table S16. Candidate genes within the domestication sweeps overlapping with the GWAS signals. Table S17. QTL analysis for five seed traits including seed length (SL), seed width (SW), seed thickness (ST), seed oil content (SOC) and single seed weight (SSW). Table S18. Candidate genes within QTL loci (Chr3: 7210428–8,076,805) associated with seed size.