David Begun - Publications

University of California, Davis, Davis, CA 
Evolutionary Genetics, population genetics

79 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2021 Sarikaya DP, Rickelton K, Cridland JM, Hatmaker R, Sheehy HK, Davis S, Khan N, Kochummen A, Begun DJ. Sex and tissue-specific evolution of developmental plasticity in . Ecology and Evolution. 11: 1334-1341. PMID 33598134 DOI: 10.1002/ece3.7136  0.72
2020 Sarikaya DP, Cridland J, Tarakji A, Sheehy H, Davis S, Kochummen A, Hatmaker R, Khan N, Chiu J, Begun DJ. Phenotypic coupling of sleep and starvation resistance evolves in D. melanogaster. Bmc Evolutionary Biology. 20: 126. PMID 32962630 DOI: 10.1186/s12862-020-01691-8  0.44
2020 Cridland JM, Majane AC, Sheehy HK, Begun DJ. Polymorphism and Divergence of Novel Gene Expression Patterns in . Genetics. PMID 32737121 DOI: 10.1534/Genetics.120.303515  0.72
2018 Adrion JR, Begun DJ, Hahn MW. Patterns of transposable element variation and clinality in Drosophila. Molecular Ecology. PMID 30484926 DOI: 10.1111/mec.14961  0.68
2018 Svetec N, Saelao P, Cridland JM, Hoffmann AA, Begun DJ. Functional Analysis of a Putative Target of Spatially Varying Selection in the Gene of . G3 (Bethesda, Md.). PMID 30404774 DOI: 10.1534/G3.118.200818  0.8
2017 Zhao L, Begun DJ. Genomics of parallel adaptation at two timescales in Drosophila. Plos Genetics. 13: e1007016. PMID 28968391 DOI: 10.1371/Journal.Pgen.1007016  0.96
2016 Svetec N, Cridland JM, Zhao L, Begun DJ. The Adaptive Significance of Natural Genetic Variation in the DNA Damage Response of Drosophila melanogaster. Plos Genetics. 12: e1005869. PMID 26950216 DOI: 10.1371/Journal.Pgen.1005869  0.96
2016 Schrider DR, Hahn MW, Begun DJ. Parallel evolution of copy-number variation across continents in Drosophila melanogaster. Molecular Biology and Evolution. PMID 26809315 DOI: 10.1093/Molbev/Msw014  0.68
2016 Sedghifar A, Saelao P, Begun DJ. Genomic Patterns of Geographic Differentiation in Drosophila simulans. Genetics. PMID 26801179 DOI: 10.1534/Genetics.115.185496  0.8
2015 Zhao L, Wit J, Svetec N, Begun DJ. Parallel Gene Expression Differences between Low and High Latitude Populations of Drosophila melanogaster and D. simulans. Plos Genetics. 11: e1005184. PMID 25950438 DOI: 10.1371/Journal.Pgen.1005184  1
2015 Svetec N, Zhao L, Saelao P, Chiu JC, Begun DJ. Evidence that natural selection maintains genetic variation for sleep in Drosophila melanogaster. Bmc Evolutionary Biology. 15: 41. PMID 25887180 DOI: 10.1186/S12862-015-0316-2  1
2014 Hamm CA, Begun DJ, Vo A, Smith CC, Saelao P, Shaver AO, Jaenike J, Turelli M. Wolbachia do not live by reproductive manipulation alone: infection polymorphism in Drosophila suzukii and D. subpulchrella. Molecular Ecology. 23: 4871-85. PMID 25156506 DOI: 10.1111/Mec.12901  1
2014 Reinhardt JA, Kolaczkowski B, Jones CD, Begun DJ, Kern AD. Parallel geographic variation in Drosophila melanogaster. Genetics. 197: 361-73. PMID 24610860 DOI: 10.1534/Genetics.114.161463  1
2014 Zhao L, Saelao P, Jones CD, Begun DJ. Origin and spread of de novo genes in Drosophila melanogaster populations. Science (New York, N.Y.). 343: 769-72. PMID 24457212 DOI: 10.1126/Science.1248286  1
2014 Lee YC, Langley CH, Begun DJ. Differential strengths of positive selection revealed by hitchhiking effects at small physical scales in Drosophila melanogaster. Molecular Biology and Evolution. 31: 804-16. PMID 24361994 DOI: 10.1093/molbev/mst270  1
2013 Reinhardt JA, Wanjiru BM, Brant AT, Saelao P, Begun DJ, Jones CD. De novo ORFs in Drosophila are important to organismal fitness and evolved rapidly from previously non-coding sequences. Plos Genetics. 9: e1003860. PMID 24146629 DOI: 10.1371/Journal.Pgen.1003860  1
2013 Chiu JC, Jiang X, Zhao L, Hamm CA, Cridland JM, Saelao P, Hamby KA, Lee EK, Kwok RS, Zhang G, Zalom FG, Walton VM, Begun DJ. Genome of Drosophila suzukii, the spotted wing drosophila. G3 (Bethesda, Md.). 3: 2257-71. PMID 24142924 DOI: 10.1534/G3.113.008185  1
2013 Schrider DR, Begun DJ, Hahn MW. Detecting highly differentiated copy-number variants from pooled population sequencing. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 344-55. PMID 23424139  1
2012 Pool JE, Corbett-Detig RB, Sugino RP, Stevens KA, Cardeno CM, Crepeau MW, Duchen P, Emerson JJ, Saelao P, Begun DJ, Langley CH. Population Genomics of sub-saharan Drosophila melanogaster: African diversity and non-African admixture. Plos Genetics. 8: e1003080. PMID 23284287 DOI: 10.1371/Journal.Pgen.1003080  1
2012 Poh YP, Ting CT, Fu HW, Langley CH, Begun DJ. Population genomic analysis of base composition evolution in Drosophila melanogaster. Genome Biology and Evolution. 4: 1245-55. PMID 23160062 DOI: 10.1093/gbe/evs097  1
2012 Langley CH, Stevens K, Cardeno C, Lee YC, Schrider DR, Pool JE, Langley SA, Suarez C, Corbett-Detig RB, Kolaczkowski B, Fang S, Nista PM, Holloway AK, Kern AD, Dewey CN, ... ... Begun DJ, et al. Genomic variation in natural populations of Drosophila melanogaster. Genetics. 192: 533-98. PMID 22673804 DOI: 10.1534/Genetics.112.142018  1
2011 Kolaczkowski B, Kern AD, Holloway AK, Begun DJ. Genomic differentiation between temperate and tropical Australian populations of Drosophila melanogaster. Genetics. 187: 245-60. PMID 21059887 DOI: 10.1534/Genetics.110.123059  1
2011 Levine MT, Eckert ML, Begun DJ. Whole-genome expression plasticity across tropical and temperate Drosophila melanogaster populations from Eastern Australia. Molecular Biology and Evolution. 28: 249-56. PMID 20671040 DOI: 10.1093/Molbev/Msq197  1
2008 Lawniczak MK, Holloway AK, Begun DJ, Jones CD. Genomic analysis of the relationship between gene expression variation and DNA polymorphism in Drosophila simulans. Genome Biology. 9: R125. PMID 18700012 DOI: 10.1186/Gb-2008-9-8-R125  1
2008 Holloway AK, Begun DJ, Siepel A, Pollard KS. Accelerated sequence divergence of conserved genomic elements in Drosophila melanogaster. Genome Research. 18: 1592-601. PMID 18583644 DOI: 10.1101/Gr.077131.108  1
2008 Kern AD, Begun DJ. Recurrent deletion and gene presence/absence polymorphism: telomere dynamics dominate evolution at the tip of 3L in Drosophila melanogaster and D. simulans. Genetics. 179: 1021-7. PMID 18505885 DOI: 10.1534/genetics.107.078345  1
2008 Turner TL, Levine MT, Eckert ML, Begun DJ. Genomic analysis of adaptive differentiation in Drosophila melanogaster. Genetics. 179: 455-73. PMID 18493064 DOI: 10.1534/Genetics.107.083659  1
2008 Levine MT, Begun DJ. Evidence of spatially varying selection acting on four chromatin-remodeling loci in Drosophila melanogaster. Genetics. 179: 475-85. PMID 18245821 DOI: 10.1534/Genetics.107.085423  1
2007 Levine MT, Holloway AK, Arshad U, Begun DJ. Pervasive and largely lineage-specific adaptive protein evolution in the dosage compensation complex of Drosophila melanogaster. Genetics. 177: 1959-62. PMID 18039888 DOI: 10.1534/Genetics.107.079459  1
2007 Clark AG, Eisen MB, Smith DR, Bergman CM, Oliver B, Markow TA, Kaufman TC, Kellis M, Gelbart W, Iyer VN, Pollard DA, Sackton TB, Larracuente AM, Singh ND, ... ... Begun D, et al. Evolution of genes and genomes on the Drosophila phylogeny. Nature. 450: 203-18. PMID 17994087 DOI: 10.1038/Nature06341  1
2007 Begun DJ, Holloway AK, Stevens K, Hillier LW, Poh YP, Hahn MW, Nista PM, Jones CD, Kern AD, Dewey CN, Pachter L, Myers E, Langley CH. Population genomics: whole-genome analysis of polymorphism and divergence in Drosophila simulans. Plos Biology. 5: e310. PMID 17988176 DOI: 10.1371/Journal.Pbio.0050310  1
2007 Holloway AK, Begun DJ. Rampant adaptive evolution in regions of proteins with unknown function in Drosophila simulans. Plos One. 2: e1113. PMID 17971876 DOI: 10.1371/Journal.Pone.0001113  1
2007 Holloway AK, Lawniczak MK, Mezey JG, Begun DJ, Jones CD. Adaptive gene expression divergence inferred from population genomics. Plos Genetics. 3: 2007-13. PMID 17967066 DOI: 10.1371/Journal.Pgen.0030187  1
2007 Wagstaff BJ, Begun DJ. Adaptive evolution of recently duplicated accessory gland protein genes in desert Drosophila. Genetics. 177: 1023-30. PMID 17720912 DOI: 10.1534/Genetics.107.077503  1
2007 Lawniczak MK, Begun DJ. Molecular population genetics of female-expressed mating-induced serine proteases in Drosophila melanogaster. Molecular Biology and Evolution. 24: 1944-51. PMID 17573377 DOI: 10.1093/molbev/msm122  1
2007 Levine MT, Begun DJ. Comparative population genetics of the immunity gene, Relish: is adaptive evolution idiosyncratic? Plos One. 2: e442. PMID 17505533 DOI: 10.1371/Journal.Pone.0000442  1
2007 Begun DJ, Lindfors HA, Kern AD, Jones CD. Evidence for de novo evolution of testis-expressed genes in the Drosophila yakuba/Drosophila erecta clade. Genetics. 176: 1131-7. PMID 17435230 DOI: 10.1534/genetics.106.069245  1
2006 Levine MT, Jones CD, Kern AD, Lindfors HA, Begun DJ. Novel genes derived from noncoding DNA in Drosophila melanogaster are frequently X-linked and exhibit testis-biased expression. Proceedings of the National Academy of Sciences of the United States of America. 103: 9935-9. PMID 16777968 DOI: 10.1073/Pnas.0509809103  1
2006 Begun DJ, Lindfors HA, Thompson ME, Holloway AK. Recently evolved genes identified from Drosophila yakuba and D. erecta accessory gland expressed sequence tags. Genetics. 172: 1675-81. PMID 16361246 DOI: 10.1534/Genetics.105.050336  1
2005 Lawniczak MK, Begun DJ. A QTL analysis of female variation contributing to refractoriness and sperm competition in Drosophila melanogaster. Genetical Research. 86: 107-14. PMID 16356284 DOI: 10.1017/S0016672305007755  1
2005 Wagstaff BJ, Begun DJ. Molecular population genetics of accessory gland protein genes and testis-expressed genes in Drosophila mojavensis and D. arizonae. Genetics. 171: 1083-101. PMID 16085702 DOI: 10.1534/Genetics.105.043372  1
2005 Jones CD, Begun DJ. Parallel evolution of chimeric fusion genes. Proceedings of the National Academy of Sciences of the United States of America. 102: 11373-8. PMID 16076957 DOI: 10.1073/pnas.0503528102  1
2005 Begun DJ, Lindfors HA. Rapid evolution of genomic Acp complement in the melanogaster subgroup of Drosophila. Molecular Biology and Evolution. 22: 2010-21. PMID 15987879 DOI: 10.1093/molbev/msi201  1
2005 Jones CD, Custer AW, Begun DJ. Origin and evolution of a chimeric fusion gene in Drosophila subobscura, D. madeirensis and D. guanche. Genetics. 170: 207-19. PMID 15781692 DOI: 10.1534/Genetics.104.037283  1
2005 Hahn MW, Mezey JG, Begun DJ, Gillespie JH, Kern AD, Langley CH, Moyle LC. Evolutionary genomics: codon bias and selection on single genomes. Nature. 433: E5-6; discussion E7-. PMID 15662370 DOI: 10.1038/Nature03221  1
2005 Schlenke TA, Begun DJ. Linkage disequilibrium and recent selection at three immunity receptor loci in Drosophila simulans. Genetics. 169: 2013-22. PMID 15654108 DOI: 10.1534/genetics.104.035337  1
2005 Wagstaff BJ, Begun DJ. Comparative genomics of accessory gland protein genes in Drosophila melanogaster and D. pseudoobscura. Molecular Biology and Evolution. 22: 818-32. PMID 15601888 DOI: 10.1093/Molbev/Msi067  1
2005 Kern AD, Begun DJ. Patterns of polymorphism and divergence from noncoding sequences of Drosophila melanogaster and D. simulans: evidence for nonequilibrium processes. Molecular Biology and Evolution. 22: 51-62. PMID 15456897 DOI: 10.1093/molbev/msh269  1
2004 Lawniczak MK, Begun DJ. A genome-wide analysis of courting and mating responses in Drosophila melanogaster females. Genome / National Research Council Canada = GéNome / Conseil National De Recherches Canada. 47: 900-10. PMID 15499404 DOI: 10.1139/g04-050  1
2004 Kern AD, Jones CD, Begun DJ. Molecular population genetics of male accessory gland proteins in the Drosophila simulans complex. Genetics. 167: 725-35. PMID 15238524 DOI: 10.1534/genetics.103.020883  1
2004 Holloway AK, Begun DJ. Molecular evolution and population genetics of duplicated accessory gland protein genes in Drosophila. Molecular Biology and Evolution. 21: 1625-8. PMID 15215320 DOI: 10.1093/Molbev/Msh195  1
2004 Schlenke TA, Begun DJ. Strong selective sweep associated with a transposon insertion in Drosophila simulans. Proceedings of the National Academy of Sciences of the United States of America. 101: 1626-31. PMID 14745026 DOI: 10.1073/pnas.0303793101  1
2003 Schlenke TA, Begun DJ. Natural selection drives Drosophila immune system evolution. Genetics. 164: 1471-80. PMID 12930753  1
2002 Kern AD, Jones CD, Begun DJ. Genomic effects of nucleotide substitutions in Drosophila simulans. Genetics. 162: 1753-61. PMID 12524346  1
2002 Begun DJ, Whitley P. Molecular population genetics of Xdh and the evolution of base composition in Drosophila. Genetics. 162: 1725-35. PMID 12524344  1
2002 Begun DJ. Protein variation in Drosophila simulans, and comparison of genes from centromeric versus noncentromeric regions of chromosome 3. Molecular Biology and Evolution. 19: 201-3. PMID 11801748  1
2001 Begun DJ. The frequency distribution of nucleotide variation in Drosophila simulans. Molecular Biology and Evolution. 18: 1343-52. PMID 11420372  1
2000 Begun DJ, Whitley P, Todd BL, Waldrip-Dail HM, Clark AG. Molecular population genetics of male accessory gland proteins in Drosophila. Genetics. 156: 1879-88. PMID 11102381  1
2000 Begun DJ, Whitley P. Genetics of alpha-amanitin resistance in a natural population of Drosophila melanogaster. Heredity. 85: 184-90. PMID 11012721 DOI: 10.1046/j.1365-2540.2000.00729.x  1
2000 Begun DJ, Whitley P. Reduced X-linked nucleotide polymorphism in Drosophila simulans. Proceedings of the National Academy of Sciences of the United States of America. 97: 5960-5. PMID 10823947 DOI: 10.1073/pnas.97.11.5960  1
2000 Begun DJ, Whitley P. Adaptive evolution of relish, a Drosophila NF-kappaB/IkappaB protein. Genetics. 154: 1231-8. PMID 10757765  1
1999 Begun DJ, Betancourt AJ, Langley CH, Stephan W. Is the fast/slow allozyme variation at the Adh locus of Drosophila melanogaster an ancient balanced polymorphism? Molecular Biology and Evolution. 16: 1816-9. PMID 10605124 DOI: 10.1093/Oxfordjournals.Molbev.A026095  1
1999 Clark AG, Begun DJ, Prout T. Female x male interactions in Drosophila sperm competition. Science (New York, N.Y.). 283: 217-20. PMID 9880253 DOI: 10.1126/Science.283.5399.217  1
1998 Clark AG, Begun DJ. Female genotypes affect sperm displacement in Drosophila. Genetics. 149: 1487-93. PMID 9649536  1
1997 Turelli M, Begun DJ. Haldane's rule and X-chromosome size in Drosophila. Genetics. 147: 1799-815. PMID 9409837  1
1997 Begun DJ. Origin and evolution of a new gene descended from alcohol dehydrogenase in Drosophila. Genetics. 145: 375-82. PMID 9071591  1
1996 Begun DJ. Population genetics of silent and replacement variation in Drosophila simulans and D. melanogaster: X/autosome differences? Molecular Biology and Evolution. 13: 1405-7. PMID 8952085  1
1995 Begun DJ, Aquadro CF. Evolution at the tip and base of the X chromosome in an African population of Drosophila melanogaster. Molecular Biology and Evolution. 12: 382-90. PMID 7739380  1
1995 Wu CI, Hollocher H, Begun DJ, Aquadro CF, Xu Y, Wu ML. Sexual isolation in Drosophila melanogaster: a possible case of incipient speciation. Proceedings of the National Academy of Sciences of the United States of America. 92: 2519-23. PMID 7708677 DOI: 10.1073/pnas.92.7.2519  1
1995 Begun DJ, Aquadro CF. Molecular variation at the vermilion locus in geographically diverse populations of Drosophila melanogaster and D. simulans. Genetics. 140: 1019-32. PMID 7672574  1
1995 Jones TR, Routman EJ, Begun DJ, Collins JP. Ancestry of an isolated subspecies of salamander, Ambystoma tigrinum stebbinsi Lowe: the evolutionary significance of hybridization. Molecular Phylogenetics and Evolution. 4: 194-202. PMID 7663764 DOI: 10.1006/mpev.1995.1019  1
1994 Singh RS, Hale LR. Regional variation in fruitflies. Nature. 369: 450. PMID 8202135 DOI: 10.1038/369450a0  1
1994 Begun DJ, Aquadro CF. Evolutionary inferences from DNA variation at the 6-phosphogluconate dehydrogenase locus in natural populations of drosophila: selection and geographic differentiation. Genetics. 136: 155-71. PMID 8138153  1
1994 Begun DJ, Boyer SN, Aquadro CF. Cut locus variation in natural populations of Drosophila. Molecular Biology and Evolution. 11: 806-9. PMID 7968494  1
1994 Begun DJ, Aquadro CF. Regional variation in fruitflies [11] Nature. 369: 450.  1
1993 Begun DJ, Aquadro CF. African and North American populations of Drosophila melanogaster are very different at the DNA level. Nature. 365: 548-50. PMID 8413609 DOI: 10.1038/365548a0  1
1992 Begun DJ, Collins JP. Biochemical plasticity in the Arizona tiger salamander (Ambystoma tigrinum nebulosum). The Journal of Heredity. 83: 224-7. PMID 1624768 DOI: 10.1093/Oxfordjournals.Jhered.A111198  1
1992 Begun DJ, Aquadro CF. Levels of naturally occurring DNA polymorphism correlate with recombination rates in D. melanogaster. Nature. 356: 519-20. PMID 1560824 DOI: 10.1038/356519a0  1
1991 Begun DJ, Aquadro CF. Molecular population genetics of the distal portion of the X chromosome in Drosophila: evidence for genetic hitchhiking of the yellow-achaete region. Genetics. 129: 1147-58. PMID 1664405  1
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