BiogeoSR

R script for data analysis and figure

qPCRdata

Raw data (Cq) for the qPCR experimen

Algt_org1

Alignment for the org-1 marke

Algt_CG12065

Alignment for the CG12065 marke

Algt_NRG

Alignment for the NRG marke

Algt_Junction

Alignment for the Junction marke

Haplotype file

Excel file with haplotypes at all loci in all populations with genotypes at the markers in the junction region

Genome-wide association study of female abdominal pigmentation.

<p>A) Manhattan plot for abdominal pigmentation in the full data set (including all five replicates). The–log₁₀<i>p</i>-values are plotted against the position on each chromosome. The horizontal dashed line indicates the genome-wide significance threshold at an FDR of 0.05. The red bars indicate candidate genes previously shown to affect pigmentation. B) Detailed view of the <i>tan</i> (left), <i>bab1</i> (middle) and <i>ebony</i> (right) regions. The positions on the x-axis are indicated in kb. The red bars indicate regulatory regions previously shown to affect pigmentation. C) Detailed view of top ranked polymorphisms located within or close to the three pigmentation genes. For every gene, the most significant SNPs fall in regulatory regions.</p

Overview of the experimental design.

<p>Wild <i>D. melanogaster</i> flies were collected from Vienna, Austria, and Bolzano, Italy, brought into a controlled environment in the laboratory, and treated as shown in the figure. The same procedure was used for all five replicates, with each replicate resulting in 1,500 females for phenotyping, and with 100 light and dark flies from each replicate sequenced.</p