G A Wray

Summary

Affiliation: Duke University Medical Center
Country: USA

Publications

  1. ncbi request reprint The evolution of transcriptional regulation in eukaryotes
    Gregory A Wray
    Department of Biology, Duke University, USA
    Mol Biol Evol 20:1377-419. 2003
  2. pmc Comparative embryology without a microscope: using genomic approaches to understand the evolution of development
    David A Garfield
    Biology Department and Institute for Genome Science and Policy, Duke University, Durham, NC 27708, USA
    J Biol 8:65. 2009
  3. doi request reprint Genetics. Enhancing gene regulation
    Gregory A Wray
    Department of Biology and Institute for Genome Science and Policy, Duke University, Box 90338, Durham, NC 27708, USA
    Science 321:1300-1. 2008
  4. ncbi request reprint Do convergent developmental mechanisms underlie convergent phenotypes?
    Gregory A Wray
    Department of Biology, Duke University, Durham, NC 27708, USA
    Brain Behav Evol 59:327-36. 2002
  5. ncbi request reprint Developmental regulatory genes and echinoderm evolution
    G A Wray
    Department of Ecology and Evolution, State University of New York, Stony Brook, New York 11794 5245, USA
    Syst Biol 49:28-51. 2000
  6. ncbi request reprint Transcriptional regulation and the evolution of development
    Gregory A Wray
    Department of Biology, Duke University, Durham, North Carolina 27708 0338, USA
    Int J Dev Biol 47:675-84. 2003
  7. pmc Dating branches on the tree of life using DNA
    Gregory A Wray
    Department of Biology, Duke University, Durham, NC 27708 0338, USA
    Genome Biol 3:REVIEWS0001. 2002
  8. ncbi request reprint The evolutionary significance of cis-regulatory mutations
    Gregory A Wray
    Department of Biology and Institute for Genome Sciences and Policy, Duke University, Durham, North Carolina 27708, USA
    Nat Rev Genet 8:206-16. 2007
  9. ncbi request reprint The evolution of embryonic patterning mechanisms in animals
    G A Wray
    Department of Biology, Duke University, Durham, NC 27708 0325, USA
    Semin Cell Dev Biol 11:385-93. 2000
  10. pmc Evolutionary analysis of the well characterized endo16 promoter reveals substantial variation within functional sites
    James P Balhoff
    Department of Biology, Duke University, Durham, NC 27708, USA
    Proc Natl Acad Sci U S A 102:8591-6. 2005

Detail Information

Publications46

  1. ncbi request reprint The evolution of transcriptional regulation in eukaryotes
    Gregory A Wray
    Department of Biology, Duke University, USA
    Mol Biol Evol 20:1377-419. 2003
    ..Despite these challenges, important insights have already been gained into the evolution of transcriptional regulation, and the pace of discovery is accelerating...
  2. pmc Comparative embryology without a microscope: using genomic approaches to understand the evolution of development
    David A Garfield
    Biology Department and Institute for Genome Science and Policy, Duke University, Durham, NC 27708, USA
    J Biol 8:65. 2009
    ..Several studies, including one recently published in BMC Biology, have now taken a genomic approach to this classical problem, providing insights into how selection operates differentially across the life cycle...
  3. doi request reprint Genetics. Enhancing gene regulation
    Gregory A Wray
    Department of Biology and Institute for Genome Science and Policy, Duke University, Box 90338, Durham, NC 27708, USA
    Science 321:1300-1. 2008
  4. ncbi request reprint Do convergent developmental mechanisms underlie convergent phenotypes?
    Gregory A Wray
    Department of Biology, Duke University, Durham, NC 27708, USA
    Brain Behav Evol 59:327-36. 2002
    ..Convergence in regulatory gene expression domains is probably more common than generally acknowledged, and can arise for several different reasons...
  5. ncbi request reprint Developmental regulatory genes and echinoderm evolution
    G A Wray
    Department of Ecology and Evolution, State University of New York, Stony Brook, New York 11794 5245, USA
    Syst Biol 49:28-51. 2000
    ..Cases of likely convergence in expression domains suggest caution when using developmental regulatory genes to make inferences about homology among morphological structures of distantly related taxa...
  6. ncbi request reprint Transcriptional regulation and the evolution of development
    Gregory A Wray
    Department of Biology, Duke University, Durham, North Carolina 27708 0338, USA
    Int J Dev Biol 47:675-84. 2003
    ..Understanding how transcriptional regulatory systems evolve, and what contributions these changes have made to the evolution of phenotype, represents a major challenge for Evo-Devo...
  7. pmc Dating branches on the tree of life using DNA
    Gregory A Wray
    Department of Biology, Duke University, Durham, NC 27708 0338, USA
    Genome Biol 3:REVIEWS0001. 2002
    ....
  8. ncbi request reprint The evolutionary significance of cis-regulatory mutations
    Gregory A Wray
    Department of Biology and Institute for Genome Sciences and Policy, Duke University, Durham, North Carolina 27708, USA
    Nat Rev Genet 8:206-16. 2007
    ..Cases in which parallel mutations have produced parallel trait modifications in particular suggest that some phenotypic changes are more likely to result from cis-regulatory mutations than from coding mutations...
  9. ncbi request reprint The evolution of embryonic patterning mechanisms in animals
    G A Wray
    Department of Biology, Duke University, Durham, NC 27708 0325, USA
    Semin Cell Dev Biol 11:385-93. 2000
    ..These differences show surprisingly little correlation with phylogenetic relationships; instead, many are correlated with ecological factors, such as changes in life histories...
  10. pmc Evolutionary analysis of the well characterized endo16 promoter reveals substantial variation within functional sites
    James P Balhoff
    Department of Biology, Duke University, Durham, NC 27708, USA
    Proc Natl Acad Sci U S A 102:8591-6. 2005
    ....
  11. pmc Population genetic and phylogenetic evidence for positive selection on regulatory mutations at the factor VII locus in humans
    Matthew W Hahn
    Department of Biology, Duke University, Durham, North Carolina 27708, USA
    Genetics 167:867-77. 2004
    ..Our results thus further support the hypothesis that regulatory mutations have been important in human evolution...
  12. pmc Ancient and recent positive selection transformed opioid cis-regulation in humans
    Matthew V Rockman
    Department of Biology, Duke University, Durham, North Carolina, USA
    PLoS Biol 3:e387. 2005
    ....
  13. ncbi request reprint Abundant raw material for cis-regulatory evolution in humans
    Matthew V Rockman
    Department of Biology, Duke University, Durham, NC 27708, USA
    Mol Biol Evol 19:1991-2004. 2002
    ..Ordinary small-scale mutations contribute to pervasive variation in transcription rates and consequently to patterns of human phenotypic variation...
  14. ncbi request reprint Rapid evolution of cis-regulatory sequences via local point mutations
    J R Stone
    Department of Ecology and Evolution, State University of New York at Stony Brook, USA
    Mol Biol Evol 18:1764-70. 2001
    ..Even combinations of two new binding sites evolve very quickly. We predict that local point mutations continually generate considerable genetic variation that is capable of altering gene expression...
  15. doi request reprint Allele-specific gene expression in a wild nonhuman primate population
    J Tung
    Department of Biology, Duke University, PO Box 90338, Durham, NC 27708, USA Institute for Genome Sciences and Policy, Durham, NC 27708, USA
    Mol Ecol 20:725-39. 2011
    ..They also highlight the potential importance of early life environmental variation in shaping the genetic architecture of complex traits in wild mammals...
  16. ncbi request reprint Evolution of regeneration and fission in annelids: insights from engrailed- and orthodenticle-class gene expression
    A E Bely
    Department of Ecology and Evolution, State University of New York at Stony Brook, 11794 5245, USA
    Development 128:2781-91. 2001
    ..Furthermore, by comparing our data to existing data from leech embryos, we find evidence that embryonic processes are re-deployed during regeneration and fission...
  17. pmc Ancient polymorphism and functional variation in the primate MHC-DQA1 5' cis-regulatory region
    Dagan A Loisel
    Department of Biology, Duke University, Durham, NC 27705, USA
    Proc Natl Acad Sci U S A 103:16331-6. 2006
    ....
  18. doi request reprint Generation-biased gene expression in a bryophyte model system
    Péter Szövényi
    Department of Biology and Institute for Genome Sciences and Policy, Duke University, USA
    Mol Biol Evol 28:803-12. 2011
    ....
  19. ncbi request reprint Promoter regions of many neural- and nutrition-related genes have experienced positive selection during human evolution
    Ralph Haygood
    Biology Department, Duke University, Durham, North Carolina 27708, USA
    Nat Genet 39:1140-4. 2007
    ....
  20. doi request reprint Functional consequences of genetic variation in primates on tyrosine hydroxylase (TH) expression in vitro
    Lisa R Warner
    Institute for Genome Sciences and Policy, Duke University, Durham 27708, USA Department of Biology, Duke University, Durham 27708, USA
    Brain Res 1288:1-8. 2009
    ..Additionally, the results emphasize the importance of examining more than one cell line, the existence of multiple functional variants in a given promoter region and the presence of non-additive cis-interactions...
  21. pmc Development and application of a phylogenomic toolkit: resolving the evolutionary history of Madagascar's lemurs
    Julie E Horvath
    Institute for Genome Sciences and Policy, Duke University, Durham, North Carolina 27708, USA
    Genome Res 18:489-99. 2008
    ..Moreover, the methods applied will be broadly applicable to other taxonomic groups where phylogenetic relationships have been notoriously difficult to resolve...
  22. doi request reprint Evolution of a malaria resistance gene in wild primates
    Jenny Tung
    Department of Biology, Duke University, North Carolina 27708, USA
    Nature 460:388-91. 2009
    ..Together, our results represent the first reported association and functional characterization linking genetic variation and a complex trait in a natural population of nonhuman primates...
  23. pmc Genomic features that predict allelic imbalance in humans suggest patterns of constraint on gene expression variation
    Jenny Tung
    Department of Biology, Duke University, Durham, NC, USA
    Mol Biol Evol 26:2047-59. 2009
    ..These results suggest that the genomic distribution of functional cis-regulatory variants in the human genome is nonrandom, perhaps due to local differences in evolutionary constraint...
  24. doi request reprint Multiple Functional Variants in cis Modulate PDYN Expression
    Courtney C Babbitt
    Institute for Genome Sciences and Policy, Duke University, USA
    Mol Biol Evol 27:465-79. 2010
    ....
  25. ncbi request reprint Positive selection on a human-specific transcription factor binding site regulating IL4 expression
    Matthew V Rockman
    Department of Biology, Duke University, Box 90338, Durham, NC 27708, USA
    Curr Biol 13:2118-23. 2003
    ..The allele frequencies of this binding site represent local adaptation to diverse pathogenic challenges; disease states associated with the common derived allele are side-effects of positive selection on other IL4 functions...
  26. ncbi request reprint Evolution of the gene network underlying wing polyphenism in ants
    Ehab Abouheif
    Department of Biology, Duke University, Post Office Box 90338, Durham, NC 27708, USA
    Science 297:249-52. 2002
    ....
  27. ncbi request reprint The g-value paradox
    Matthew W Hahn
    Department of Biology, Duke University, Durham, North Carolina 27708, USA
    Evol Dev 4:73-5. 2002
  28. ncbi request reprint Positive selection on MMP3 regulation has shaped heart disease risk
    Matthew V Rockman
    Department of Biology, Duke University, Box 90338, Durham, NC 27708, USA
    Curr Biol 14:1531-9. 2004
    ..The polymorphism contributes to variation in arterial traits and to the risk of coronary heart disease and its progression...
  29. ncbi request reprint Gene expression and larval evolution: changing roles of distal-less and orthodenticle in echinoderm larvae
    Christopher J Lowe
    Department of Ecology and Evolution, State University of New York at Stony Brook, 11732, USA
    Evol Dev 4:111-23. 2002
    ..Caution should be used when making generalizations about gene expression and function based on a single species, which may not accurately reflect developmental processes and life histories of the phyla to which it belongs...
  30. pmc Convergent adaptation of human lactase persistence in Africa and Europe
    Sarah A Tishkoff
    Department of Biology, University of Maryland, College Park, Maryland 20742, USA
    Nat Genet 39:31-40. 2007
    ..These data provide a marked example of convergent evolution due to strong selective pressure resulting from shared cultural traits-animal domestication and adult milk consumption...
  31. pmc Contrasts between adaptive coding and noncoding changes during human evolution
    Ralph Haygood
    Biology Department and Institute for Genome Sciences and Policy, Duke University, Durham, NC 27708, USA
    Proc Natl Acad Sci U S A 107:7853-7. 2010
    ..In contrast, adaptive noncoding changes do not exhibit this pattern. Our findings underscore the probable importance of noncoding changes in the evolution of human traits, particularly cognitive traits...
  32. pmc Evolutionary genetics in wild primates: combining genetic approaches with field studies of natural populations
    Jenny Tung
    Department of Biology, Duke University, P O Box 90338, Durham NC 27708, USA
    Trends Genet 26:353-62. 2010
    ..In combination with the rich history of behavioral, ecological, and physiological work on natural primate populations, genetic approaches promise to provide a compelling picture of primate evolution in the past and in the present day...
  33. pmc Measuring spatial preferences at fine-scale resolution identifies known and novel cis-regulatory element candidates and functional motif-pair relationships
    Ken Daigoro Yokoyama
    Biology Department, Institute for Genome Sciences and Policy, Duke University, Durham, NC 27708, USA
    Nucleic Acids Res 37:e92. 2009
    ..This offers a novel means by which to predict sequence elements with a collective role in gene regulation...
  34. pmc The evolutionary dynamics of alpha-satellite
    M Katharine Rudd
    Institute for Genome Sciences and Policy, Duke University, Durham, North Carolina 27708, USA
    Genome Res 16:88-96. 2006
    ..However, higher-order alpha-satellite is less conserved, suggesting different evolutionary rates for the two types of alpha-satellite...
  35. ncbi request reprint Growth and patterning are evolutionarily dissociated in the vestigial wing discs of workers of the red imported fire ant, Solenopsis invicta
    Julia H Bowsher
    Department of Biology, Duke University, Durham, North Carolina, USA
    J Exp Zool B Mol Dev Evol 308:769-76. 2007
    ..invicta because patterning in these discs is conserved, whereas their growth trajectories are not. The evolutionary dissociation of growth and patterning may be an important feature of gene networks that underlie polyphenic traits...
  36. ncbi request reprint When is homology not homology?
    G A Wray
    Department of Ecology and Evolution, State University of New York, Stony Brook, New York 11794 5245, USA
    Curr Opin Genet Dev 8:675-80. 1998
    ..These dissociations have interesting and important implications for understanding the genetic basis for evolutionary change in morphology...
  37. ncbi request reprint Identification of asteroid genera with species capable of larval cloning
    K Emily Knott
    Department of Ecology and Evolution, State University of New York, Stony Brook 11794 5245, USA
    Biol Bull 204:246-55. 2003
    ..Additionally, we note that cloning occurs regularly and in multiple ways within species that are capable of cloning, emphasizing the need for further investigation of the role of larval cloning in the ecology and evolution of asteroids...
  38. doi request reprint Developmental evolution: how beetles evolved their shields
    Olivier Fedrigo
    Department of Biology, Duke University, Durham NC 27708 0338, USA
    Curr Biol 20:R64-6. 2010
    ..A recent study indicates that the evolution of elytra involved co-opting genes for exoskeleton formation into the wing development gene network of beetles on at least three separate occasions...
  39. ncbi request reprint The effects of selection against spurious transcription factor binding sites
    Matthew W Hahn
    Department of Biology, Duke University, USA
    Mol Biol Evol 20:901-6. 2003
    ..12 for eubacterial genomes and -0.06 for archaeal genomes, similar to that of codon bias. Our results suggest that both coding and noncoding sequences are constrained by selection to avoid specific regions of sequence space...
  40. ncbi request reprint When two is better than one
    Courtney C Babbitt
    Institute for Genome Science and Policy, Duke University, Box 90338, Durham, NC 27708 0338, USA
    Cell 131:225-7. 2007
    ..This combination of evolutionary changes appears to have resolved an adaptive conflict, leading to increased organismal fitness...
  41. ncbi request reprint Molecular phylogeny of naidid worms (Annelida: Clitellata) based on cytochrome oxidase I
    Alexandra E Bely
    Department of Ecology and Evolution, State University of New York at Stony Brook, Stony Brook, NY 11794 5245, USA
    Mol Phylogenet Evol 30:50-63. 2004
    ..The simplest form of fission, architomy (fragmentation), occurs in two of the most basally branching naidid genera, and may represent the plesiomorphic condition for naidids...
  42. ncbi request reprint Endo16 is required for gastrulation in the sea urchin Lytechinus variegatus
    Laura A Romano
    Department of Biology, Duke University, Durham, North Carolina 27708, USA
    Dev Growth Differ 48:487-97. 2006
    ..Taken together, our data suggest that Endo16 may be required for the cell-extracellular matrix (ECM) interactions that are required for endoderm differentiation in the sea urchin embryo...
  43. ncbi request reprint Evolution: spot on (and off)
    Gregory A Wray
    Nature 440:1001-2. 2006
  44. ncbi request reprint The invertebrate deuterostomes: an introduction to their phylogeny, reproduction, development, and genomics
    Charles A Ettensohn
    Department of Biological Sciences, Carnegie Mellon University, Pittsburgh, Pennsylvania 15213, USA
    Methods Cell Biol 74:1-13. 2004
  45. ncbi request reprint Arrays in rays: terminal addition in echinoderms and its correlation with gene expression
    Rich Mooi
    Department of Invertebrate Zoology and Geology, California Academy of Sciences, 875 Howard Street, San Francisco, CA 94103 3009, USA
    Evol Dev 7:542-55. 2005
    ..We integrate morphological and genetic information, particularly with respect to the origins of radial symmetry in the rudiment, and the concomitant development of the rays...
  46. ncbi request reprint Conservation of Endo16 expression in sea urchins despite evolutionary divergence in both cis and trans-acting components of transcriptional regulation
    Laura A Romano
    Department of Biology, Duke University, Durham, NC 27708, USA
    Development 130:4187-99. 2003
    ..purpuratus and L. variegatus, despite dramatic divergence in promoter sequence and mechanisms of transcriptional regulation...