Table of Contents
International Journal of Evolutionary Biology
Volume 2011, Article ID 595121, 11 pages
Research Article

Is Speciation Accompanied by Rapid Evolution? Insights from Comparing Reproductive and Nonreproductive Transcriptomes in Drosophila

1Department of Biology, McMaster University, Hamilton, ON, Canada L8S 4KI
2Smithsonian Tropical Research Institute, P. O. Box 0834-03092, Balboa, Ancón, Panama

Received 10 January 2011; Revised 4 April 2011; Accepted 19 May 2011

Academic Editor: Jose M. Eirin-Lopez

Copyright © 2011 Santosh Jagadeeshan et al. This is an open access article distributed under the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

Supplementary Material

Additional file 1: Comparison between D. melanogaster – D. simulans / D. yakuba – D. erecta.

Additional file 2: Distribution of protiendivergence log2 (P1/P2) to divergencetime ratio log2 (T1/T2), between D. melanogaster D. simulans vs. D. yakuba D. erecta (Supplementary Table 1). The upper limit of the clockwise category is given by the log2 ratio of of divergence times (6.5/8.1) and the lower limit by the log2 ratio 4.3/12.7. Color codes: Red circlesaccelerated evolution, Grey – clocklike, green slow evolution categories.

Additional file 3: Dendrogram of average ω estimates of genes falling under slow, clock-like and accelerated rate categories. Branch lengths represent the proportion of genes with ω values greater than background ω values. P-values for the different tests were corrected using a Bonferroni correction prior to the comparisons. mel: D. melanogaster, sim: D. simulans, sec: D. sechellia, simsecmel: branch leading to the D. melanogaster clade, yak: D. yakuba, ere: D. erecta, yakere, branch leading to the D. yakuba clade, ana: D. ananassae.

Additional file 4: Genes with evidence of positive selection using site models (M8 vs M7) from PAML.

Supplementary data 5: Comparison of gene classification in between the D. simulans - D. Sechellia / D. yakuba – D. erecta and D. simulans – D. melanogaster / D. yakuba – D. erecta analyses.

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