What test to apply to detect genomic signatures of selection?

Question

[serpalma.v]

Dear community members,

I would like to ask you for your suggestions for selecting a test to detect signatures of selection in the following mouse model:

We have three groups: animals exhibiting trait A, trait B and controls. These animals were selected over the last 4 decades (controls were mated randomly and do not show any of the traits). That is total 170 generations (~4 generations per year).

We want to detect the genomic signatures of selection for trait A and B.

I am new in population genomics, but according to this paper (http://www.ncbi.nlm.nih.gov/pubmed/21218185), showing a decision tree (fig 1). I should apply a the Fst and a Linkage 'Disequilibrium test, given that the time scale would be short (40 years, 170 generations) and there are multiple populations.

Could you corroborate if this is the correct approach?

Thank you

[h.mon]

If you search google scholar for "drosophila artificial selection illumina" you will find many papers to study. One information you did not provide is if you have DNA collected over all the selection period, or just from current samples.

See here for a discussion on this approach.

[serpalma.v]

Thanks. We will collect DNA from the last generation only.