Peter Andolfatto - Publications

Affiliations: 
Princeton University, Princeton, NJ 
Area:
Population genetics, Genomics
Website:
http://genomics.princeton.edu/AndolfattoLab/Andolfatto_Lab.html

80 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 Korgaonkar A, Han C, Lemire AL, Siwanowicz I, Bennouna D, Kopec RE, Andolfatto P, Shigenobu S, Stern DL. A novel family of secreted insect proteins linked to plant gall development. Current Biology : Cb. PMID 33657407 DOI: 10.1016/j.cub.2021.01.104  0.52
2021 Powell DL, Payne C, Banerjee SM, Keegan M, Bashkirova E, Cui R, Andolfatto P, Rosenthal GG, Schumer M. The Genetic Architecture of Variation in the Sexually Selected Sword Ornament and Its Evolution in Hybrid Populations. Current Biology : Cb. PMID 33513352 DOI: 10.1016/j.cub.2020.12.049  0.68
2020 Fuller ZL, Mocellin VJL, Morris LA, Cantin N, Shepherd J, Sarre L, Peng J, Liao Y, Pickrell J, Andolfatto P, Matz M, Bay LK, Przeworski M. Population genetics of the coral : Toward genomic prediction of bleaching. Science (New York, N.Y.). 369. PMID 32675347 DOI: 10.1126/science.aba4674  1
2020 Powell DL, García-Olazábal M, Keegan M, Reilly P, Du K, Díaz-Loyo AP, Banerjee S, Blakkan D, Reich D, Andolfatto P, Rosenthal GG, Schartl M, Schumer M. Natural hybridization reveals incompatible alleles that cause melanoma in swordtail fish. Science (New York, N.Y.). 368: 731-736. PMID 32409469 DOI: 10.1126/science.aba5216  0.68
2019 Taverner AM, Yang L, Barile ZJ, Lin B, Peng J, Pinharanda AP, Rao AS, Roland BP, Talsma AD, Wei D, Petschenka G, Palladino MJ, Andolfatto P. Adaptive substitutions underlying cardiac glycoside insensitivity in insects exhibit epistasis . Elife. 8. PMID 31453806 DOI: 10.7554/eLife.48224  0.48
2019 Liu Y, Ramos-Womack M, Han C, Reilly P, Brackett KL, Rogers W, Williams TM, Andolfatto P, Stern DL, Rebeiz M. Changes throughout a Genetic Network Mask the Contribution of Hox Gene Evolution. Current Biology : Cb. PMID 31257142 DOI: 10.1016/j.cub.2019.05.074  0.52
2019 Yang L, Ravikanthachari N, Mariño-Pérez R, Deshmukh R, Wu M, Rosenstein A, Kunte K, Song H, Andolfatto P. Predictability in the evolution of Orthopteran cardenolide insensitivity. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences. 374: 20180246. PMID 31154978 DOI: 10.1098/rstb.2018.0246  0.48
2018 Schumer M, Xu C, Powell DL, Durvasula A, Skov L, Holland C, Blazier JC, Sankararaman S, Andolfatto P, Rosenthal GG, Przeworski M. Natural selection interacts with recombination to shape the evolution of hybrid genomes. Science (New York, N.Y.). PMID 29674434 DOI: 10.1126/science.aar3684  1
2018 Rosenthal GG, Schumer M, Andolfatto P. How the manakin got its crown: A novel trait that is unlikely to cause speciation. Proceedings of the National Academy of Sciences of the United States of America. PMID 29669913 DOI: 10.1073/pnas.1804061115  0.68
2018 Schumer M, Rosenthal GG, Andolfatto P. What do we mean when we talk about hybrid speciation? Heredity. PMID 29302049 DOI: 10.1038/s41437-017-0036-z  0.68
2017 Schumer M, Powell DL, Delclós PJ, Squire M, Cui R, Andolfatto P, Rosenthal GG. Assortative mating and persistent reproductive isolation in hybrids. Proceedings of the National Academy of Sciences of the United States of America. PMID 28973863 DOI: 10.1073/pnas.1711238114  0.68
2017 Crowley-Gall A, Date P, Han C, Rhodes N, Andolfatto P, Layne JE, Rollmann SM. Correction to 'Population differences in olfaction accompany host shift in Drosophila mojavensis'. Proceedings. Biological Sciences. 284. PMID 28701567 DOI: 10.1098/rspb.2017.1260  0.52
2017 McCulloch KJ, Yuan F, Zhen Y, Aardema ML, Smith G, Llorente-Bousquets J, Andolfatto P, Briscoe AD. Sexual Dimorphism and Retinal Mosaic Diversification Following the Evolution of a Violet Receptor in Butterflies. Molecular Biology and Evolution. PMID 28505307 DOI: 10.1093/molbev/msx163  1
2016 Crowley-Gall A, Date P, Han C, Rhodes N, Andolfatto P, Layne JE, Rollmann SM. Population differences in olfaction accompany host shift in Drosophila mojavensis. Proceedings. Biological Sciences / the Royal Society. 283. PMID 27581882 DOI: 10.1098/rspb.2016.1562  0.52
2016 Elyashiv E, Sattath S, Hu TT, Strutsovsky A, McVicker G, Andolfatto P, Coop G, Sella G. A Genomic Map of the Effects of Linked Selection in Drosophila. Plos Genetics. 12: e1006130. PMID 27536991 DOI: 10.1371/journal.pgen.1006130  0.52
2016 Aardema ML, Andolfatto P. Phylogenetic incongruence and the evolutionary origins of cardenolide-resistant forms of Na(+) ,K(+) -ATPase in Danaus butterflies. Evolution; International Journal of Organic Evolution. PMID 27405795 DOI: 10.1111/evo.12999  1
2016 Schumer M, Cui R, Powell DL, Rosenthal GG, Andolfatto P. Ancient hybridization and genomic stabilization in a swordtail fish. Molecular Ecology. PMID 26937625 DOI: 10.1111/mec.13602  0.52
2015 Rogers RL, Cridland JM, Shao L, Hu TT, Andolfatto P, Thornton KR. Tandem Duplications and the Limits of Natural Selection in Drosophila yakuba and Drosophila simulans. Plos One. 10: e0132184. PMID 26176952 DOI: 10.1371/journal.pone.0132184  1
2015 Ghosh R, Bloom JS, Mohammadi A, Schumer ME, Andolfatto P, Ryu W, Kruglyak L. Genetics of Intra-Species Variation in Avoidance Behavior Induced by a Thermal Stimulus in Caenorhabditis elegans. Genetics. PMID 26092720 DOI: 10.1534/genetics.115.178491  1
2015 Schumer M, Cui R, Rosenthal GG, Andolfatto P. simMSG: an experimental design tool for high-throughput genotyping of hybrids. Molecular Ecology Resources. PMID 26032857 DOI: 10.1111/1755-0998.12434  1
2015 Smith HA, White BJ, Kundert P, Cheng C, Romero-Severson J, Andolfatto P, Besansky NJ. Genome-wide QTL mapping of saltwater tolerance in sibling species of Anopheles (malaria vector) mosquitoes. Heredity. PMID 25920668 DOI: 10.1038/hdy.2015.39  1
2015 Schumer M, Cui R, Rosenthal GG, Andolfatto P. Reproductive isolation of hybrid populations driven by genetic incompatibilities. Plos Genetics. 11: e1005041. PMID 25768654 DOI: 10.1371/journal.pgen.1005041  1
2014 Rogers RL, Shao L, Sanjak JS, Andolfatto P, Thornton KR. Revised annotations, sex-biased expression, and lineage-specific genes in the Drosophila melanogaster group. G3 (Bethesda, Md.). 4: 2345-51. PMID 25273863 DOI: 10.1534/g3.114.013532  1
2014 Schumer M, Cui R, Powell DL, Dresner R, Rosenthal GG, Andolfatto P. High-resolution mapping reveals hundreds of genetic incompatibilities in hybridizing fish species. Elife. 3. PMID 24898754 DOI: 10.7554/eLife.02535  1
2014 Rogers RL, Cridland JM, Shao L, Hu TT, Andolfatto P, Thornton KR. Landscape of standing variation for tandem duplications in Drosophila yakuba and Drosophila simulans. Molecular Biology and Evolution. 31: 1750-66. PMID 24710518 DOI: 10.1093/molbev/msu124  1
2014 Schumer M, Rosenthal GG, Andolfatto P. How common is homoploid hybrid speciation? Evolution; International Journal of Organic Evolution. 68: 1553-60. PMID 24620775 DOI: 10.1111/evo.12399  1
2013 Cui R, Schumer M, Kruesi K, Walter R, Andolfatto P, Rosenthal GG. Phylogenomics reveals extensive reticulate evolution in Xiphophorus fishes. Evolution; International Journal of Organic Evolution. 67: 2166-79. PMID 23888843 DOI: 10.1111/evo.12099  1
2013 Slotte T, Hazzouri KM, Ã…gren JA, Koenig D, Maumus F, Guo YL, Steige K, Platts AE, Escobar JS, Newman LK, Wang W, Mandáková T, Vello E, Smith LM, Henz SR, ... ... Andolfatto P, et al. The Capsella rubella genome and the genomic consequences of rapid mating system evolution. Nature Genetics. 45: 831-5. PMID 23749190 DOI: 10.1038/ng.2669  1
2013 Schumer M, Cui R, Boussau B, Walter R, Rosenthal G, Andolfatto P. An evaluation of the hybrid speciation hypothesis for Xiphophorus clemenciae based on whole genome sequences. Evolution; International Journal of Organic Evolution. 67: 1155-68. PMID 23550763 DOI: 10.1111/evo.12009  1
2013 Hu TT, Eisen MB, Thornton KR, Andolfatto P. A second-generation assembly of the Drosophila simulans genome provides new insights into patterns of lineage-specific divergence. Genome Research. 23: 89-98. PMID 22936249 DOI: 10.1101/gr.141689.112  1
2012 Zhen Y, Aardema ML, Medina EM, Schumer M, Andolfatto P. Parallel molecular evolution in an herbivore community. Science (New York, N.Y.). 337: 1634-7. PMID 23019645 DOI: 10.1126/science.1226630  1
2012 Leffler EM, Bullaughey K, Matute DR, Meyer WK, Ségurel L, Venkat A, Andolfatto P, Przeworski M. Revisiting an old riddle: what determines genetic diversity levels within species? Plos Biology. 10: e1001388. PMID 22984349 DOI: 10.1371/journal.pbio.1001388  1
2012 Cande J, Andolfatto P, Prud'homme B, Stern DL, Gompel N. Evolution of multiple additive loci caused divergence between Drosophila yakuba and D. santomea in wing rowing during male courtship. Plos One. 7: e43888. PMID 22952802 DOI: 10.1371/journal.pone.0043888  1
2012 Garrigan D, Kingan SB, Geneva AJ, Andolfatto P, Clark AG, Thornton KR, Presgraves DC. Genome sequencing reveals complex speciation in the Drosophila simulans clade. Genome Research. 22: 1499-511. PMID 22534282 DOI: 10.1101/gr.130922.111  1
2012 Slotte T, Hazzouri KM, Stern D, Andolfatto P, Wright SI. Genetic architecture and adaptive significance of the selfing syndrome in Capsella. Evolution; International Journal of Organic Evolution. 66: 1360-74. PMID 22519777 DOI: 10.1111/j.1558-5646.2011.01540.x  1
2012 Zhen Y, Andolfatto P. Methods to detect selection on noncoding DNA. Methods in Molecular Biology (Clifton, N.J.). 856: 141-59. PMID 22399458 DOI: 10.1007/978-1-61779-585-5_6  1
2012 Aardema ML, Zhen Y, Andolfatto P. The evolution of cardenolide-resistant forms of Na⁺,K⁺ -ATPase in Danainae butterflies. Molecular Ecology. 21: 340-9. PMID 22126595 DOI: 10.1111/j.1365-294X.2011.05379.x  1
2011 Wilson DJ, Hernandez RD, Andolfatto P, Przeworski M. A population genetics-phylogenetics approach to inferring natural selection in coding sequences. Plos Genetics. 7: e1002395. PMID 22144911 DOI: 10.1371/journal.pgen.1002395  1
2011 Huelsenbeck JP, Andolfatto P, Huelsenbeck ET. Structurama: bayesian inference of population structure. Evolutionary Bioinformatics Online. 7: 55-9. PMID 21698091 DOI: 10.4137/EBO.S6761  1
2011 Callahan B, Neher RA, Bachtrog D, Andolfatto P, Shraiman BI. Correlated evolution of nearby residues in Drosophilid proteins. Plos Genetics. 7: e1001315. PMID 21383965 DOI: 10.1371/journal.pgen.1001315  1
2011 Andolfatto P, Davison D, Erezyilmaz D, Hu TT, Mast J, Sunayama-Morita T, Stern DL. Multiplexed shotgun genotyping for rapid and efficient genetic mapping. Genome Research. 21: 610-7. PMID 21233398 DOI: 10.1101/gr.115402.110  1
2011 Andolfatto P, Wong KM, Bachtrog D. Effective population size and the efficacy of selection on the X chromosomes of two closely related Drosophila species. Genome Biology and Evolution. 3: 114-28. PMID 21173424 DOI: 10.1093/gbe/evq086  1
2010 Parsch J, Novozhilov S, Saminadin-Peter SS, Wong KM, Andolfatto P. On the utility of short intron sequences as a reference for the detection of positive and negative selection in Drosophila. Molecular Biology and Evolution. 27: 1226-34. PMID 20150340 DOI: 10.1093/molbev/msq046  1
2009 Rebeiz M, Ramos-Womack M, Jeong S, Andolfatto P, Werner T, True J, Stern DL, Carroll SB. Evolution of the tan locus contributed to pigment loss in Drosophila santomea: a response to Matute et al. Cell. 139: 1189-96. PMID 20005811 DOI: 10.1016/j.cell.2009.11.004  1
2009 Sella G, Petrov DA, Przeworski M, Andolfatto P. Pervasive natural selection in the Drosophila genome? Plos Genetics. 5: e1000495. PMID 19503600 DOI: 10.1371/journal.pgen.1000495  1
2008 Jensen JD, Thornton KR, Andolfatto P. An approximate bayesian estimator suggests strong, recurrent selective sweeps in Drosophila. Plos Genetics. 4: e1000198. PMID 18802463 DOI: 10.1371/journal.pgen.1000198  1
2008 Andolfatto P. Controlling type-I error of the McDonald-Kreitman test in genomewide scans for selection on noncoding DNA. Genetics. 180: 1767-71. PMID 18791238 DOI: 10.1534/genetics.108.091850  1
2008 Haddrill PR, Bachtrog D, Andolfatto P. Positive and negative selection on noncoding DNA in Drosophila simulans. Molecular Biology and Evolution. 25: 1825-34. PMID 18515263 DOI: 10.1093/molbev/msn125  1
2008 Jeong S, Rebeiz M, Andolfatto P, Werner T, True J, Carroll SB. The evolution of gene regulation underlies a morphological difference between two Drosophila sister species. Cell. 132: 783-93. PMID 18329365 DOI: 10.1016/j.cell.2008.01.014  1
2008 Wright SI, Andolfatto P. The impact of natural selection on the genome: Emerging patterns in Drosophila and Arabidopsis Annual Review of Ecology, Evolution, and Systematics. 39: 193-213. DOI: 10.1146/annurev.ecolsys.39.110707.173342  1
2008 Andolfatto P. Hitchhiking effects of recurrent beneficial amino acid substitutions in the Drosophila melanogaster genome (Genome Research (2007) 17, (1755-1762)) Genome Research. 18: 197.  1
2007 Andolfatto P. Hitchhiking effects of recurrent beneficial amino acid substitutions in the Drosophila melanogaster genome. Genome Research. 17: 1755-62. PMID 17989248 DOI: 10.1101/gr.6691007  1
2007 Thornton KR, Jensen JD, Becquet C, Andolfatto P. Progress and prospects in mapping recent selection in the genome. Heredity. 98: 340-8. PMID 17473869 DOI: 10.1038/sj.hdy.6800967  1
2007 Putnam AS, Scriber JM, Andolfatto P. Discordant divergence times among Z-chromosome regions between two ecologically distinct swallowtail butterfly species. Evolution; International Journal of Organic Evolution. 61: 912-27. PMID 17439621 DOI: 10.1111/j.1558-5646.2007.00076.x  1
2007 Huelsenbeck JP, Andolfatto P. Inference of population structure under a Dirichlet process model. Genetics. 175: 1787-802. PMID 17237522 DOI: 10.1534/genetics.106.061317  1
2006 Bachtrog D, Andolfatto P. Selection, recombination and demographic history in Drosophila miranda. Genetics. 174: 2045-59. PMID 17028331 DOI: 10.1534/genetics.106.062760  1
2006 Bachtrog D, Thornton K, Clark A, Andolfatto P. Extensive introgression of mitochondrial DNA relative to nuclear genes in the Drosophila yakuba species group. Evolution; International Journal of Organic Evolution. 60: 292-302. PMID 16610321 DOI: 10.1554/05-337.1  1
2006 Thornton K, Bachtrog D, Andolfatto P. X chromosomes and autosomes evolve at similar rates in Drosophila: no evidence for faster-X protein evolution. Genome Research. 16: 498-504. PMID 16520459 DOI: 10.1101/gr.4447906  1
2006 Thornton K, Andolfatto P. Approximate Bayesian inference reveals evidence for a recent, severe bottleneck in a Netherlands population of Drosophila melanogaster. Genetics. 172: 1607-19. PMID 16299396 DOI: 10.1534/genetics.105.048223  1
2005 Andolfatto P. Adaptive evolution of non-coding DNA in Drosophila. Nature. 437: 1149-52. PMID 16237443 DOI: 10.1038/nature04107  1
2005 Haddrill PR, Charlesworth B, Halligan DL, Andolfatto P. Patterns of intron sequence evolution in Drosophila are dependent upon length and GC content. Genome Biology. 6: R67. PMID 16086849 DOI: 10.1186/gb-2005-6-8-r67  1
2005 Haddrill PR, Thornton KR, Charlesworth B, Andolfatto P. Multilocus patterns of nucleotide variability and the demographic and selection history of Drosophila melanogaster populations. Genome Research. 15: 790-9. PMID 15930491 DOI: 10.1101/gr.3541005  1
2004 Halligan DL, Eyre-Walker A, Andolfatto P, Keightley PD. Patterns of evolutionary constraints in intronic and intergenic DNA of Drosophila. Genome Research. 14: 273-9. PMID 14762063 DOI: 10.1101/gr.1329204  1
2003 Andolfatto P, Wall JD. Linkage disequilibrium patterns across a recombination gradient in African Drosophila melanogaster. Genetics. 165: 1289-305. PMID 14668383  1
2003 Andolfatto P, Scriber JM, Charlesworth B. No association between mitochondrial DNA haplotypes and a female-limited mimicry phenotype in Papilio glaucus. Evolution; International Journal of Organic Evolution. 57: 305-16. PMID 12683527  0.52
2002 Wall JD, Andolfatto P, Przeworski M. Testing models of selection and demography in Drosophila simulans. Genetics. 162: 203-16. PMID 12242234  1
2001 Andolfatto P. Adaptive hitchhiking effects on genome variability. Current Opinion in Genetics & Development. 11: 635-41. PMID 11682306 DOI: 10.1016/S0959-437X(00)00246-X  1
2001 Andolfatto P, Przeworski M. Regions of lower crossing over harbor more rare variants in African populations of Drosophila melanogaster. Genetics. 158: 657-65. PMID 11404330  1
2001 Andolfatto P, Depaulis F, Navarro A. Inversion polymorphisms and nucleotide variability in Drosophila. Genetical Research. 77: 1-8. PMID 11279826 DOI: 10.1017/S0016672301004955  1
2001 Wu Q, Andolfatto P, Haunerland NH. Cloning and sequence of the gene encoding the muscle fatty acid binding protein from the desert locust, Schistocerca gregaria. Insect Biochemistry and Molecular Biology. 31: 553-62. PMID 11267894 DOI: 10.1016/S0965-1748(00)00158-2  1
2001 Przeworski M, Wall JD, Andolfatto P. Recombination and the frequency spectrum in Drosophila melanogaster and Drosophila simulans. Molecular Biology and Evolution. 18: 291-8. PMID 11230530  1
2001 Andolfatto P. Contrasting patterns of X-linked and autosomal nucleotide variation in Drosophila melanogaster and Drosophila simulans. Molecular Biology and Evolution. 18: 279-90. PMID 11230529  0.52
2000 Kliman RM, Andolfatto P, Coyne JA, Depaulis F, Kreitman M, Berry AJ, McCarter J, Wakeley J, Hey J. The population genetics of the origin and divergence of the Drosophila simulans complex species. Genetics. 156: 1913-31. PMID 11102384  1
2000 Andolfatto P, Przeworski M. A genome-wide departure from the standard neutral model in natural populations of Drosophila. Genetics. 156: 257-68. PMID 10978290  1
2000 Andolfatto P, Kreitman M. Molecular variation at the In(2L)t proximal breakpoint site in natural populations of Drosophila melanogaster and D. simulans. Genetics. 154: 1681-91. PMID 10747062  1
1999 Andolfatto P, Wall JD, Kreitman M. Unusual haplotype structure at the proximal breakpoint of In(2L)t in a natural population of Drosophila melanogaster. Genetics. 153: 1297-311. PMID 10545460  1
1998 Andolfatto P, Nordborg M. The effect of gene conversion on intralocus associations. Genetics. 148: 1397-9. PMID 9539452  1
1994 Andolfatto P, Bornhouser A, Bohnert HJ, Thomas JC. Transformed hairy roots of Mesembryanthemum crystallinum: Gene expression patterns upon salt stress Physiologia Plantarum. 90: 708-714. DOI: 10.1034/j.1399-3054.1994.900412.x  1
1993 Haunerland NH, Chen X, Andolfatto P, Chisholm JM, Wang Z. Developmental changes of FABP concentration, expression, and intracellular distribution in locust flight muscle. Molecular and Cellular Biochemistry. 123: 153-8. PMID 8232258 DOI: 10.1007/BF01076487  1
1992 Haunerland NH, Andolfatto P, Chisholm JM, Wang Z, Chen X. Fatty-acid-binding protein in locust flight muscle. Developmental changes of expression, concentration and intracellular distribution. European Journal of Biochemistry / Febs. 210: 1045-51. PMID 1282884 DOI: 10.1111/j.1432-1033.1992.tb17510.x  1
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