Supplementary Materials

Parallel adaptation of rabbit populations to myxoma virus

Joel M. Alves, Miguel Carneiro, Jade Y. Cheng, Ana Lemos de Matos, Masmudur M. Rahman, Liisa Loog, Paula F. Campos, Nathan Wales, Anders Eriksson, Andrea Manica, Tanja Strive, Stephen C. Graham, Sandra Afonso, Diana J. Bell, Laura Belmont, Jonathan P. Day, Susan J. Fuller, Stéphane Marchandeau, William J. Palmer, Guillaume Queney, Alison K. Surridge, Filipe G. Vieira, Grant McFadden, Rasmus Nielsen, M. Thomas P. Gilbert, Pedro J. Esteves, Nuno Ferrand, Francis M. Jiggins

Materials/Methods, Supplementary Text, Tables, Figures, and/or References

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  • Materials and Methods
  • Figs. S1 to S7
  • Tables S1 to S4
  • Captions for Data Files S1 to S10
  • References
Data File S1
List of all samples used in this study.
Data File S2
List containing the top 1000 SNPs based on FST for each population.
Data File S3
List containing the top 1000 SNPs based on Ohana (Parallelism).
Data File S4
List containing the top 1000 SNPs based on Ohana (Population-specific).
Data File S5
Bayes factors for most significant SNP per gene (Population-specific).
Data File S6
Likelihood ratios and parameter estimation for SNP trajectories over time.
Data File S7
BED file with probe coordinates for the exome capture.
Data File S8
Sanger and exome-sequencing genotypes for pre-myxomatosis, pre-RHDV and post-RHDV samples for four SNPs located at IFN-α21A, FCRL3, CD96 genes and at the MHC region. Sanger sequencing genotypes of four SNPs, one insertion, and one deletion, located in PSMG3 gene for 68 modern individuals from Australia, France, the UK and the rabbit cell line RK13.
Data File S9
Sequencing metrics for exome sequencing data.
Data File S10
Wild type and variant Interferon-α21A (IFN-α21A) protein sequences.