Science Advances

Supplementary Materials

This PDF file includes:

  • fig. S1. Stepping window ADMIXTURE and RAxML analyses across the Italian sparrow genome.
  • fig. S2. LD decay across all chromosomes.
  • fig. S3. Mitochondrial sequence divergence between each Italian sparrow and the parent populations.
  • fig. S4. Divergence peaks between the Italian sparrow and either parent taxa on microchromosomes.
  • fig. S5. Divergence peaks for PI regions on large chromosomes.
  • fig. S6. Population structuring analysis of sparrow individuals.
  • table S1. Sequencing scheme for the house sparrow reference genome assembly.
  • table S2. Final assembly statistics.
  • table S3. Sample information.
  • table S4. Results from genome-wide RAxML analysis.
  • table S5. Comparison of resolved RAxML phylogenies at variable window sizes.
  • table S6. ENSEMBLE gene IDs for genes within top divergence windows.
  • table S7. Significantly enriched GO pathways from ClueGo analysis in HI outlier windows.
  • table S8. Significantly enriched GO pathways from ClueGo analysis in SI outlier windows.
  • table S9. Significantly enriched GO pathways from ClueGo analysis in PI outlier windows.
  • table S10. Genes among outlier windows identified as candidates for the involvement in melanogenesis and RI in sparrows.
  • table S11. Significantly enriched GO pathways from ClueGo analysis HI outlier windows with chickens as the reference genome.
  • table S12. Significantly enriched GO pathways from ClueGo analysis in SI outlier windows with chickens as the reference genome.
  • table S13. Significantly enriched GO pathways from ClueGo analysis in PI outlier windows with chickens as the reference genome.

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