Originally published as Genetics Published Articles Ahead of Print on February 3, 2008.

Genetics, Vol. 179, 475-485, May 2008, Copyright © 2008
doi:10.1534/genetics.107.085423

Evidence of Spatially Varying Selection Acting on Four Chromatin-Remodeling Loci in Drosophila melanogaster

Mia T. Levine1 and David J. Begun

Center for Population Biology, University of California, Davis, California 95616

1 Corresponding author: Center for Population Biology, University of California, 1 Shields Ave., Davis, CA 95616.
E-mail: mialevine{at}ucdavis.edu

The packaging of DNA into proper chromatin structure contributes to transcriptional regulation. This packaging is environment sensitive, yet its role in adaptation to novel environmental conditions is completely unknown. We set out to identify candidate chromatin-remodeling loci that are differentiated between tropical and temperate populations in Drosophila melanogaster, an ancestrally equatorial African species that has recently colonized temperate environments around the world. Here we describe sequence variation at seven such chromatin-remodeling loci, four of which (chd1, ssrp, chm, and glu) exhibit strong differentiation between tropical and temperate populations. An in-depth analysis of chm revealed sequence differentiation restricted to a small portion of the gene, as well as evidence of clinal variation along the east coasts of both the United States and Australia. The functions of chd1, chm, ssrp, and glu point to several novel hypotheses for the role of chromatin-based transcriptional regulation in adaptation to a novel environment. Specifically, both stress-induced transcription and developmental homeostasis emerge as potential functional targets of environment-dependent selection.