Figure S1

1. Dsim\rux-PA Dsec\rux-PA Dere\rux-PA Dyak\rux-PA Dana\GF22065-PA Dwil\GK19724-PA Dvir\GJ16032-PA Dpse\GA18118-PA Dper\GL14959-PA Dmoj\GI16487-PA Dgri\GH17896-PA Recurrent events of positive selection in independent Drosophila lineages at the spermatogenesis gene roughex Supplemental Material Amino Acid Identities (%) Figure S1 Non C-domain Rux C-domain 75.8 93.3 55.6 75.0 93.9 53.5 66.4 81.2 47.0 65.8 79.6 48.0 51.5 52.9 na 39.3 44.9 na 36.4 42.0 na 39.9 41.1 na 39.4 40.6 na 35.6 36.2 na 30.3 29.9 na 400 100 200 300 Dmel\rux-PA C-terminal domain

2. Figure S1. Results of the BLASTP search of the 12 Drosophila genomes (http://flybase.net/blast/) using the complete D. melanogaster Rux amino acid sequence (335 amino acids, bottom). Red bars indicate homology regions detected using BLASTP with default parameters; dashed bars indicate annotated amino acid sequences with no detectable homology with D. melanogaster Rux. Table shows amino acid identities (%) for the complete sequence, the non C-terminal domain and the C-terminal domain of Rux. Green bars indicate the position of probes with hybridization signal scores greater than 50 based on cDNA microarray analyses for D. ananassae, D. virilis, D. pseudoobscura and D. mojavensis (ZHANG et al. 2007). Dmel, D. melanogaster; Dsim, D. simulans; Dsec, D. sechellia; Dere, D. erecta; Dyak, D. yakuba; Dana, D. ananassae; D.wil, D. willistoni; Dvir, D. virilis; Dpse, D. pseudoobscura; Dper, D. persimilis; Dmoj, D. mojavensis; Dgri, D. grimshawi. na indicates non-detectable homology with D. melanogaster Rux. Equivalent results are obtained using TBLASTN.