Supplementary Materials

The PDF file includes:

  • Fig. S1. Workflow for identifying gene losses that are lost in the cetacean stem lineage.
  • Fig. S2. Raw DNA sequencing read validation of shared inactivating mutations.
  • Fig. S3. Expression of the remnants of genes lost in cetaceans.
  • Fig. S4. Inactivating mutations in F12 in cetaceans.
  • Fig. S5. Inactivating mutations in KLKB1.
  • Fig. S6. Inactivating mutations in POLM.
  • Fig. S7. Inactivating mutations in MAP3K19.
  • Fig. S8. Inactivating mutations in SEC14L3.
  • Fig. S9. Inactivating mutations in SLC6A18.
  • Fig. S10. Inactivating mutations in SLC4A9.
  • Fig. S11. Inactivating mutations in AANAT.
  • Fig. S12. Inactivating mutations in MTNR1B.
  • Fig. S13. Inactivating mutations in ASMT.
  • Fig. S14. Inactivating mutations in MTNR1A.
  • Fig. S15. Inactivating mutations in TRIM14.
  • Fig. S16. Inactivating mutations in TREM1.
  • Fig. S17. Inactivating mutations in PGLYRP1.
  • Fig. S18. Inactivating mutations in PGLYRP3.
  • Fig. S19. Inactivating mutations in PGLYRP4.
  • Fig. S20. Inactivating mutations in MSS51.
  • Fig. S21. Inactivating mutations in ACSM3.
  • Fig. S22. Inactivating mutations in ADH4.
  • Fig. S23. Inactivating mutations in SPINK7.
  • Fig. S24. Inactivating mutations in FABP12.
  • Fig. S25. Inactivating mutations in ASIC5.
  • Fig. S26. Inactivating mutations in C10orf82.
  • Fig. S27. Convergent gene losses between any of the three aquatic or semi-aquatic mammalian lineages.
  • References (71–84)

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Other Supplementary Material for this manuscript includes the following:

  • Table S1 (Microsoft Excel format). Species and genome assemblies used in this study.
  • Table S2 (Microsoft Excel format). Genes lost in the cetacean stem lineage.
  • Table S3 (Microsoft Excel format). Validation of all smaller inactivating mutations with raw DNA sequencing reads.
  • Table S4 (Microsoft Excel format). Analysis of relaxed selection.
  • Table S5 (Microsoft Excel format). Convergently inactivated genes between (semi-) aquatic mammalian clades, represented by killer whale, manatee, and Pacific walrus.

Files in this Data Supplement: