Peter Andolfatto

Summary

Affiliation: University of California
Country: USA

Publications

  1. pmc Patterns of intron sequence evolution in Drosophila are dependent upon length and GC content
    Penelope R Haddrill
    Institute of Evolutionary Biology, School of Biological Sciences, University of Edinburgh, Edinburgh EH9 3JT, UK
    Genome Biol 6:R67. 2005
  2. pmc Hitchhiking effects of recurrent beneficial amino acid substitutions in the Drosophila melanogaster genome
    Peter Andolfatto
    Division of Biological Sciences, University of California San Diego, La Jolla, California 92093, USA
    Genome Res 17:1755-62. 2007
  3. ncbi request reprint Adaptive evolution of non-coding DNA in Drosophila
    Peter Andolfatto
    Section of Ecology, Behavior and Evolution, Division of Biological Sciences, University of California San Diego, La Jolla, California 92093, USA
    Nature 437:1149-52. 2005
  4. pmc An approximate bayesian estimator suggests strong, recurrent selective sweeps in Drosophila
    Jeffrey D Jensen
    Section of Ecology, Behavior and Evolution, University of California San Diego, La Jolla, California, United States of America
    PLoS Genet 4:e1000198. 2008
  5. ncbi request reprint Discordant divergence times among Z-chromosome regions between two ecologically distinct swallowtail butterfly species
    Andrea S Putnam
    Section of Ecology, Behavior, and Evolution, Division of Biological Sciences, University of California, San Diego, La Jolla, California 92093, USA
    Evolution 61:912-27. 2007
  6. pmc Selection, recombination and demographic history in Drosophila miranda
    Doris Bachtrog
    Division of Biological Sciences, University of California, San Diego, California 92093, USA
    Genetics 174:2045-59. 2006
  7. ncbi request reprint Extensive introgression of mitochondrial DNA relative to nuclear genes in the Drosophila yakuba species group
    Doris Bachtrog
    Section of Ecology, Behavior and Evolution, University of California San Diego, La Jolla, California 92093, USA
    Evolution 60:292-302. 2006
  8. pmc X chromosomes and autosomes evolve at similar rates in Drosophila: no evidence for faster-X protein evolution
    Kevin Thornton
    Department of Molecular Biology and Genetics, Cornell University, Ithaca, New York 14853, USA
    Genome Res 16:498-504. 2006
  9. pmc Multilocus patterns of nucleotide variability and the demographic and selection history of Drosophila melanogaster populations
    Penelope R Haddrill
    Institute of Evolutionary Biology, School of Biological Sciences, University of Edinburgh, Edinburgh, EH9 3JT, United Kingdom
    Genome Res 15:790-9. 2005
  10. pmc Patterns of evolutionary constraints in intronic and intergenic DNA of Drosophila
    Daniel L Halligan
    University of Edinburgh, School of Biological Sciences, Edinburgh EH9 3JT, UK
    Genome Res 14:273-9. 2004

Detail Information

Publications16

  1. pmc Patterns of intron sequence evolution in Drosophila are dependent upon length and GC content
    Penelope R Haddrill
    Institute of Evolutionary Biology, School of Biological Sciences, University of Edinburgh, Edinburgh EH9 3JT, UK
    Genome Biol 6:R67. 2005
    ..No consistent patterns have emerged from studies that have investigated general levels of evolutionary constraint in introns...
  2. pmc Hitchhiking effects of recurrent beneficial amino acid substitutions in the Drosophila melanogaster genome
    Peter Andolfatto
    Division of Biological Sciences, University of California San Diego, La Jolla, California 92093, USA
    Genome Res 17:1755-62. 2007
    ....
  3. ncbi request reprint Adaptive evolution of non-coding DNA in Drosophila
    Peter Andolfatto
    Section of Ecology, Behavior and Evolution, Division of Biological Sciences, University of California San Diego, La Jolla, California 92093, USA
    Nature 437:1149-52. 2005
    ..These results imply that, although positive selection is clearly an important facet of protein evolution, adaptive changes to non-coding DNA might have been considerably more common in the evolution of D. melanogaster...
  4. pmc An approximate bayesian estimator suggests strong, recurrent selective sweeps in Drosophila
    Jeffrey D Jensen
    Section of Ecology, Behavior and Evolution, University of California San Diego, La Jolla, California, United States of America
    PLoS Genet 4:e1000198. 2008
    ..It will thus be of great interest to apply this method to emerging whole-genome polymorphism data sets in many taxa...
  5. ncbi request reprint Discordant divergence times among Z-chromosome regions between two ecologically distinct swallowtail butterfly species
    Andrea S Putnam
    Section of Ecology, Behavior, and Evolution, Division of Biological Sciences, University of California, San Diego, La Jolla, California 92093, USA
    Evolution 61:912-27. 2007
    ..Our approach can be used to test alternative models of speciation and can potentially assign chronological order to the appearance of factors contributing to reproductive isolation between species...
  6. pmc Selection, recombination and demographic history in Drosophila miranda
    Doris Bachtrog
    Division of Biological Sciences, University of California, San Diego, California 92093, USA
    Genetics 174:2045-59. 2006
    ..These departures from neutral equilibrium expectations are discussed in the context of nonequilibrium models of demography and selection...
  7. ncbi request reprint Extensive introgression of mitochondrial DNA relative to nuclear genes in the Drosophila yakuba species group
    Doris Bachtrog
    Section of Ecology, Behavior and Evolution, University of California San Diego, La Jolla, California 92093, USA
    Evolution 60:292-302. 2006
    ..Although natural selection is usually thought of as accentuating divergence between species, our results imply that it can also act as a homogenizing force...
  8. pmc X chromosomes and autosomes evolve at similar rates in Drosophila: no evidence for faster-X protein evolution
    Kevin Thornton
    Department of Molecular Biology and Genetics, Cornell University, Ithaca, New York 14853, USA
    Genome Res 16:498-504. 2006
    ..The lack of a detectable faster-X effect in these species suggests either that beneficial amino acids are not partially recessive on average, or that adaptive evolution does not often use newly arising amino acid mutations...
  9. pmc Multilocus patterns of nucleotide variability and the demographic and selection history of Drosophila melanogaster populations
    Penelope R Haddrill
    Institute of Evolutionary Biology, School of Biological Sciences, University of Edinburgh, Edinburgh, EH9 3JT, United Kingdom
    Genome Res 15:790-9. 2005
    ..Demographic departures from equilibrium expectations in both ancestral and derived populations thus represent a serious challenge to detecting positive selection in genome-wide scans using current methodologies...
  10. pmc Patterns of evolutionary constraints in intronic and intergenic DNA of Drosophila
    Daniel L Halligan
    University of Edinburgh, School of Biological Sciences, Edinburgh EH9 3JT, UK
    Genome Res 14:273-9. 2004
    ....
  11. pmc Inference of population structure under a Dirichlet process model
    John P Huelsenbeck
    Department of Integrative Biology, University of California, Berkeley, California 94720, USA
    Genetics 175:1787-802. 2007
    ..We develop the notion of the mean population partition, which is the partition of individuals to populations that minimizes the squared partition distance to the partitions sampled by the MCMC algorithm...
  12. pmc Linkage disequilibrium patterns across a recombination gradient in African Drosophila melanogaster
    Peter Andolfatto
    Department of Zoology, University of Toronto, Toronto, Ontario M5S 3G5, Canada
    Genetics 165:1289-305. 2003
    ..e., toward an excess of LD) in this Zimbabwean population. Our results also have implications for the dynamics of weakly selected mutations in regions of reduced crossing over...
  13. ncbi request reprint No association between mitochondrial DNA haplotypes and a female-limited mimicry phenotype in Papilio glaucus
    Peter Andolfatto
    Institute of Cell, Animal and Population Biology, University of Edinburgh, Edinburgh Scotland, EH9 3JT United Kingdom
    Evolution 57:305-16. 2003
    ..This finding suggests that genetic exchanges between maternal and paternal mitochondrial DNAs may have contributed to the lack of association we observe between phenotype and genotype...
  14. doi request reprint The evolution of gene regulation underlies a morphological difference between two Drosophila sister species
    Sangyun Jeong
    Howard Hughes Medical Institute and Laboratory of Molecular Biology, University of Wisconsin, 1525 Linden Drive, Madison, WI 53706, USA
    Cell 132:783-93. 2008
    ..We submit that there is sufficient empirical evidence to support the general prediction that functional evolutionary changes at pleiotropic loci will most often involve mutations in their discrete, modular cis-regulatory elements...
  15. pmc Positive and negative selection on noncoding DNA in Drosophila simulans
    Penelope R Haddrill
    Institute of Evolutionary Biology, School of Biological Sciences, University of Edinburgh, Edinburgh, United Kingdom
    Mol Biol Evol 25:1825-34. 2008
    ..simulans lineage difficult to reconcile with demographic explanations...
  16. pmc Testing models of selection and demography in Drosophila simulans
    Jeffrey D Wall
    Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, Massachusetts 02138, USA
    Genetics 162:203-16. 2002
    ..autosome variability levels, they suggest that demography alone may account for patterns of linkage disequilibrium and the frequency spectrum of segregating mutations in this population of D. simulans...