Additional file 11.

Table S7. Analysis of congruence between the chromosomal inversion + per gene phylogeny and CHC data. The reconstructed phylogeny used in the character evolution analysis represents the first out of six most parsimonious trees and was based on 11 populations/species of the D. buzzatii cluster, after deleting the two D. serido populations, plus three species of the D. mojavensis cluster. LP = linear parsimony; SCPG = squared-change parsimony gradual; and SCPP = squared-change parsimony punctuated. Besides the three parsimony methods, the detection of phylogenetic signal was also examined with the test for serial independence (TFSI) (run with 1,000 replicates) using the program Phylogenetic Independence 2.0 [69]. See Table 4 for details. P-values in bold represent significant values after false discovery rate (FDR) analysis. See Additional File 12: Table S8 for FDR calculations.

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Oliveira et al. BMC Evolutionary Biology 2011 11:179   doi:10.1186/1471-2148-11-179