Population Biology Grad Group

Population Biology Graduate Group at UC Davis

David Begun
Professor
Evolution and Ecology (College of Biological Sciences)
3350A Storer
Office
Lab
djbegun@ucdavis.edu
http://www.eve.ucdavis.edu/djbegun/

Degrees:
1994 - PhD - Cornell University - Genetics and Development
1989 - MS - Arizona State University - Zoology
1985 - BA - Brandeis University - Biology

Grad Group Affiliations and Specialties:
Genetics
Population Biology

Publications:
Levine, M. T., A. K. Holloway, U. Arshad and D. J. Begun, 2007. Pervasive and largely lineage-specific adaptive protein evolution in the dosage compensation complex of Drosophila melanogaster, Genetics 177:1959-1962

Drosophila 12 Genomes Consortium, 2007. Evolution of genes and genomes on the Drosophila phylogeny. Nature 450:203-218.

Begun, D. J., A. K. Holloway, K. Stevens, et al., 2007. Population genomics: whole genome analysis of polymorphism and divergence in Drosophila simulans. PLoS Biology 5(11): e310.

Holloway, A. K. and D. J. Begun, 2007. Population genomic analysis of protein domain evolution in Drosophila simulans, PLoS ONE 2(10): e1113.

Holloway, A. K., M. K. N. Lawniczak, J. G. Mezey, D. J. Begun and C. D. Jones, 2007. Adaptive gene expression divergence inferred from population genomics. PLoS Genetics 3(10):e187.

Wagstaff, B. J., A. K. Holloway, and D. J. Begun, 2007. Adaptive evolution of recently duplicated accessory gland protein genes in desert Drosophila. Genetics 177: 1023-1030.

Lawniczak, M. K. N. and D. J. Begun, 2007. Molecular population genetics of female-expressed mating induced serine proteases in Drosophila melanogaster. Mol. Biol. Evol. 24(9):1944-1951.

Levine, M. T. and D. J. Begun, 2007. Comparative population genetics of the immunity gene, Relish: Is adaptive evolution idiosyncratic? PLoS ONE: May 16;2;e442.

Begun, D. J., H. A. Lindfors, A. D. Kern, C. D. Jones, 2007. Evidence for de novo evolution of testis-expressed genes in the Drosophila yakuba/Drosophila erecta clade. Genetics 176:1131-1137.

Levine, M. T., C. D. Jones, A. D. Kern, H. A. Lindfors and D. J. Begun, 2006., Novel genes derived from non-coding DNA in Drosophila melanogaster are frequently X-linked and show testis-biased expression. Proc. Natl. Acad. Sci (USA) 103:9935-9939.

Begun, D. J., H. A. Lindfors, M. E. Thompson and A. K. Holloway, 2006. Recently evolved genes identified from Drosophila yakuba and D. erecta accessory gland expressed sequence tags. Genetics 172:1675-1681.

Lawniczak, M. K. N. and D. J. Begun, 2005. A QTL analysis of female variation contributing to refractoriness and sperm competition in Drosophila melanogaster. Genetical Research 86:107-114.

Wagstaff, B. J. and D. J. Begun, 2005. Molecular population genetics of accessory gland protein genes and testis-expressed genes in Drosophila mojavensis and D. arizonae. Genetics 171:1083-1101.

Jones, C. D. and D. J. Begun, 2005. Parallel evolution of chimeric fusion genes, Proc. Natl. Acad. Sci. (USA) 102:11373-11378.

Begun, D. J. and H. A. Lindfors, 2005. Rapid evolution of genomic Acp complement in the melanogaster subgroup of Drosophila, Mol. Biol. Evol. 22:2010-2021.

Jones, C. D., A. W. Custer and D. J. Begun, 2005. Origin and evolution of a chimeric fusion gene in Drosophila subobscura, D. madeirensis and D. guanche. Genetics 170:207-219.

Schlenke, T. A. and D. J. Begun, 2005. Linkage disequilibrium and recent selection in three potential pattern recognition receptor loci in Drosophila simulans, Genetics 169:2013-2022.

Wagstaff, B. J. and D. J. Begun, 2005. Comparative genomics of accessory gland protein genes in Drosophila melanogaster and D. pseudoobscura. Mol. Biol. Evol. 22:818-832.

Kern, A. D. and D. J. Begun, 2005. Patterns of polymorphism and divergence from non-coding sequences of Drosophila melanogaster and D. simulans: Evidence for non-equilibrium processes. Mol. Biol. Evol. 22:51-62.

Lawniczak, M. K. N. and D. J. Begun, 2004. A genome-wide analysis of courting and mating responses in Drosophila melanogaster females. Genome, 47(5):900-910.

Holloway, A. K. and D. J. Begun, 2004. Molecular evolution and population genetics of duplicated accessory gland protein genes in Drosophila, Mol. Biol. Evol. 21:1625-1628.

Kern, A. D., C. D. Jones, and D. J. Begun, 2004. Molecular population genetics of male accessory gland proteins in the Drosophila simulans complex. Genetics 167:725-735.

Schlenke, T. A. and D. J. Begun, 2004. Strong selective sweep associated with a transposon insertion in Drosophila simulans, Proc. Natl. Acad. Sci. USA 101: 1626-1631

Schlenke. T.A. and D. J. Begun, 2003. Natural selection drives Drosophila immune system evolution. Genetics 164:1471-1480

Kern, A. D., C. D. Jones and D. J. Begun, 2002. Genomic effects of nucleotide substitutions in Drosophila simulans. Genetics 162:1753-1761.

Begun, D. J. and P. Whitley, 2002. Molecular population genetics of Xdh and the evolution of base composition in Drosophila. Genetics 162:1725-1735.

Begun, D. J., 2002. Protein variation in Drosophila simulans, and comparison of genes from centromeric vs. non-centromeric regions of chromosome 3. Mol. Biol Evol. 19: 201-203.

Begun, D. J., P. Whitley, B. Todd, H. Waldrip-Diehl, and A. G. Clark, 2000. Molecular population genetics of male accessory gland proteins in Drosophila. Genetics 156: 1879-1888.

Begun DJ and P Whitley. 2000. Reduced X-linked nucleotide polymorphism in Drosophila simulans.. Proc. Natl. Acad. Sci. (USA). 97 (11):5960-5965

Clark AG, DJ Begun, and T Prout. 1999. Female x male interactions in Drosophila sperm competition. Science. 283:217-220

Begun DJ. 1997. Origin and evolution of a new gene descended from alcohol dehydrogenase in Drosophila.. Genetics. 145:375-387

Research Interests:
Population genetics and molecular evolution. Drosophila evolutionary genetics.

Teaching Interests:

Undergraduate: Evolution Graduate: Molecular Evolution, Population Genetics