Active Research Evolutionary genomics of Drosophila Genetic diversity of P. falciparum Evolution of hybrid incompatibilities Evolution of gene expression Natural selection and protein evolution   Past Research Evolution of novel gene functions Bioinformatics Selective sweep C-value paradox Transposable element mariner Structure and sequence of the Drosophila genome Genome structure and evolution in D. virilis Cosuppression of transposable elements Molecular evolution in enteric bacteria Gregor Mendel		Evolutionary genomics of Drosophila A major challenge in evolutionary genomics is to learn how genes that affect complex phenotypes are coordinately regulated and how such patterns of regulation evolve among species. We are therefore interested in the evolution of regulatory mechanisms that affect the expression of multiple genes simultaneously. Our recent work with Drosophila has focused on manifold affects of different Y chromosomes on the expression of X-linked and autosomal genes, on the distribution and abundance of copy-number polymorphisms in natural populations, on the factors influencing the spatial distribution of transposable elements in the genome, on the coordinated evolution of expression of genes in the visual pathway, and on the role of microRNAs in the regulation of activity of transposable elements.   Selected publications: PDF Lemos, B., L. O. Araripe, and D. L. Hartl. 2008. Polymorphic Y chromosomes harbor cryptic variation with manifold functional consequences. Science 319: 91-93.     PDF Dopman, E. B., and D. L. Hartl. 2007. A portrait of copy-number polymorphism in Drosophila melanogaster. Proc. Natl. Acad. Sci. USA 104:19920-19925.     PDF Fontanillas, P., D. L. Hartl, and M. Reuter. 2007. Genome organization and gene expression shape the transposable element distribution in the Drosophila melanogaster euchromatin. PLoS Genet. 3:e210.     PDF Landry, C. R., C. I. Castillo-Davis, A. Ogura, J. S. Liu, and D. L. Hartl. 2007. Systems-level analysis and evolution of the phototransduction network in Drosophila. Proc. Natl. Acad. Sci. USA 104:3283-3288.     PDF Blumenstiel, J. P., and D. L. Hartl. 2005. Evidence for maternally transmitted small interfering RNA in the repression of transposition in Drosophila virilis. Proc. Natl. Acad. Sci. USA 102:15965-15970.