Science Advances

Supplementary Materials

This PDF file includes:

  • Legends for tables S1 and S2
  • network S1. D. mel. ♀ × D. sim. ♂ embryos; >2 isobaric peptide counts per peptide node.
  • network S2. D. sim. ♀ × D. mel. ♂ embryos; >2 isobaric peptide counts per peptide node.
  • network S3. D. mel. ♀ × D. sim. ♂ heads; >2 isobaric peptide counts per peptide node.
  • network S4. D. mel. ♀ × D. sim. ♂ embryos; FDR < 0.01 and Ri > 0.0.
  • network S5. D. mel. ♀ × D. sim. ♂ embryos; FDR < 0.01 and Ri < 0.0.
  • network S6. D. sim. ♀ × D. mel. ♂ embryos; FDR < 0.01 and Ri > 0.0.
  • network S7. D. sim. ♀ × D. mel. ♂ embryos; FDR < 0.01 and Ri < 0.0.
  • network S8. D. mel. ♀ × D. sim. ♂ heads; FDR < 0.01 and Ri > 0.0.
  • network S9. D. mel. ♀ × D. sim. ♂ heads; FDR < 0.01 and Ri < 0.0.
  • network S10. D. mel. ♀ × D. sim. ♂ embryos; proteasomal proteins.
  • network S11. D. sim. ♀ × D. mel. ♂ embryos; proteasomal proteins.
  • network S12. D. mel. ♀ × D. sim. ♂ hybrid heads; proteasomal proteins.
  • Data repositories
  • fig. S1. Only hybrids of D. melanogaster females crossed with D. simulans males are viable.
  • fig. S2. Relative abundance of peptide nodes according to species specificity and sample origin.
  • fig. S3. The Venn diagram displays the relative overlap of peptides retrieved for the D. melanogaster and D. simulans proteome databases when digested in silico with the endoprotease LysC.
  • fig. S4. Venn diagram of proteomes identified in each of the replicate experiments.
  • fig. S5. Sample analysis workflow and detection of species-specific peptides.

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Other Supplementary Material for this manuscript includes the following:

  • table s1 (Microsoft Excel format). Significantly regulated peptide nodes (FDR < 0.05) and associated proteins in D. mel. ♀ × D. sim. ♂ embryos, D. sim. ♀ × D. mel. ♂ embryos, and D. mel. ♀ × D. sim. ♂ heads.
  • table S2 (Microsoft Excel format). PSEA-Quant results obtained for D. mel. ♀ × D. sim. ♂ embryos, D. sim. ♀ × D. mel. ♂ embryos, and heads of the D. mel. ♀ × D. sim. ♂ cross are presented in individual tabs as indicated in the Excel file.

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