Additional file 3 of The spinach YY genome reveals sex chromosome evolution, domestication, and introgression history of the species

Additional file 3. Supplementary tables. Table S1. Sequencing information of “Cornell-NO.9” (YY) genome. Table S2. Comparison of contig assemblies among three genomes of Spinacia accessions. Table S3. Statistics of Hi-C mapping of “Cornell-NO.9” (YY) genome. Table S4. Assembly and annotation evaluation in S. oleracea cultivar “Cornell-NO.9” (YY) and “Viroflay” (XX) genomes. Table S5. TE annotation of S. oleracea cultivar “Cornell-NO. 9” (YY) and “Viroflay” (XX) genomes. Table S6. Summary of sequencing statistics and sex phenotypes (F: female; M: male) in F1 population. Table S7. Summary of genes identified from SDR (MSY) and X-counterpart. Table S8. Gene information of sex-determination region (SDR) of Y chromosome. Table S9. Gene information of X-counterpart of SDR in X chromosome. Table S10. Statistics summary of Pacbio reads mapping onto junction regions of structure variations within SDR. Table S11. SDR genes having sex-biased expression during flower development. Table S12. Expression of genes that are mentioned in proposed sex-determination/differentiation pathway. Table S13. Accessions of spinach S. oleracea and wild sibling species used for resequencing and population genomics as well as sex-chromosome analyses. Table S14. Details of genes in a swept region with strong selection signals on Chr3:106112216-108343948. Table S15. D statistic values of ABBA-BABA tests for different geographical regions of S. oleracea and wild species. Table S16. Introgression loci with strong signals from S. tetrandra, S. turkestanica and India cultivars respectively. Table S17. Primers used in qRT-PCR for validating the expression patterns of key candidate genes found in this study [123–132].