Additional file 1 of Structural and evolutionary features of red algal UV sex chromosomes

Additional file 1: Table S1–S15. Table S1. Data used in this study, published in (Lipinska et al. 2023). Table S2. Gracilaria female genomes assembly statistics. Table S3. Sex-linked scaffolds/genomic regions per species. Table S4. Repeat content, coding sequence and GC content in sex-linked scaffolds. Table S5. Characteristics of sex-linked genes. Table S6. Synonymous (KS) and non-synonymous (KN) divergence between PAR and autosomal genes in G. vermiculophylla (PAML4, codeml) including evolutionary gene ages calculated using GenEra. Table S7. Distribution of gene ages on autosomes and sex chromosome in G. vermiculophylla (pseudoautosomal region (PAR) and male sex-determining region (VSDR), showing depletion of ‘young’ genes (Rank 5) on the PAR compared to autosomes. Table S8. Gene orthology analysis across the four Gracilaria species, highlighting the orthogroups containing sex-linked genes (blue—V-SDR genes, red—U-SDR genes). Table S9. Expression of SDR genes and their autosomal paralogs (log2(TPM + 1). Table S10. Synonymous (KS) and non-synonymous (KN) divergence between gametologs per species (PAML4, codeml). Table S11. Sex-biased gene expression (transcriptos per million, TPM) in Gracilaria species. Table S12. Functional enrichment analysis of GO-terms among sex-biased genes. Table S13. Distribution of sex-biased genes on the chromosomes of G. vermiculophylla. Table S14. KN/KS analysis of sex-biased and unbiased genes in Gracilaria species. Table S15. PCR primers used for experimental validation of sex linkage.