Files in this data supplement:
- Supporting Information: Figures S1-S5 and Tables S1-S7 (PDF, 1 MB)
- Figure S1: For each species, the magnitude of sex-biased expression (log2 sex expression ratio, (Male/Female) FPKM) is plotted against the level of expression (log10 FPKM) in males (left panels) and females (right panels). (PDF, 234 KB)
- Figure S2: (A) As in Figure S1, for C. elegans (fog-2) data. Plots are separated by X (left panels) and autosomes (right panels). (B) For all species, boxplots indicate the range of expression (calculated as the log10 FPKM) of each sex-bias category. (PDF, 223 KB)
- Figure S3: (A) Sets of male and female-biased genes were determined individually using C. elegans (N2) (male-hermaphrodite) and (fog-2) (male-female) data. (B) Same as in A but overlap of female-biased genes is plotted. (C) C. elegans (fog-2) mapped reads were resampled to match the number of mapped reads in P. pacificus. (D) Overlap of high male-biased genes in the original and the resampled C. elegans (fog-2) data. (E) Same as in D but for high female-biased genes. (PDF, 1 MB)
- Figure S4: (A) C. elegans genes were grouped into genes expressed in gonad and soma (gray), soma-only (light green), and gonad-only (dark green). For each category, the percentage of genes that fall into the indicated sex-bias category is plotted. (B) For each expression category the percentage of genes located on the X chromosome was plotted. (C) As in Figure 4C, magnitude of male-biased expression (log2 male over female expression) was calculated for each male-biased gene. (D) Same as C, but for all female-biased genes. (E) In Figure 6A we used a defined set of 1:1:1:1 orthologs to determine locational conservation of biased and unbiased genes. Here we define a set of 1:1 orthologs between C. elegans and C. briggsae. (F) Macrosynteny is high amongst the Caenorhabditis species. (PDF, 167 KB)
- Figure S5: (A) The percentage of genes in C. elegans with a similarly sex-biased 1:1 ortholog in the indicated species is plotted. (B) Using Caenorhabditis 1:1:1:1 orthologs, we calculated the interspecies expression divergence for each gene as the coefficient of variation (sigma/mu). (PDF, 160 KB)
- Table S1: Overview of DNAseq Data, DNAseq Replicates, RNAseq data-read numbers, and GEO Numbers (.xlsx, 58 KB)
- Table S2: Contig Assignments (.xlsx, 3 MB)
- Table S3: Sex-Biased Genes (.xlsx, 9 MB)
- Table S4: Gonochorist-specific genes (.xlsx, 93 KB)
- Table S5: Caenorhabditis orthologs (.xlsx, 378 KB)
- Table S6: RNAseq proccesing - Cufflinks and DESeq (.xlsx, 25 MB)
- Table S7: Yeast 1:1 Orthologs (.xls, 104 KB)