Additional file 2 of Asymmetric and parallel subgenome selection co-shape common carp domestication

Additional file 2: Table S1. Detailed information of samples and genomic data used in this study. Table S2. The genome-wide average genetic differentiation (FST) of pairwise common carp strains. Table S3. The average genetic diversity in each common carp strain. Table S4. Strains used in selective sweep analysis for each domesticated trait. Table S5. Genomic regions with selection signatures related to scale reduction in common carp domestication. Table S6. Function annotation of the 56 genes in genomic regions with selection signals associated with scale reduction in common carp domestication. Table S7. Genomic regions with selection signatures related to skin color variation in common carp domestication. Table S8. Function annotation of the 77 genes in genomic regions with selection signals associated with skin color variation in common carp domestication. Table S9. RNA-seq data involved in this study. Table S10. Expression of the five pair ohnologs related to skin color variation in common carp domestication. Table S11. Genomic regions with selection signatures related to high growth rate in common carp domestication. Table S12. Function annotation of the 266 genes in genomic regions with selection signals associated with high growth rate in common carp domestication. Table S13. Ohnolog pairs in the genomic regions with selection signatures associated with domestication and the whole genome in yxYR, GM, and HB strains. Table S14. Statistics of duplicate gene pairs in the selection regions. Table S15. Expression of the 121 ohnolog pairs (1:1) between subgenomes associated with high growth rate in European common carps. Table S16. TE content in genomic regions related to candidate genes under selection on fast growth in European common carps and their ohnologs in GM genome.