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Genomes and Genes | Willie J SwansonSummaryAffiliation: University of Washington Country: USA Publications
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Publications
Pervasive adaptive evolution in mammalian fertilization proteinsWillie J Swanson
Department of Genome Sciences, University of Washington, USA
Mol Biol Evol 20:18-20. 2003..This is a more refined test of positive selection than the previous LRTs which only identified if there was a class of sites with a d(N)/d(S) ratio >1 but did not test if that ratio was significantly greater than one...
Evolutionary expressed sequence tag analysis of Drosophila female reproductive tracts identifies genes subjected to positive selectionWillie J Swanson
Department of Genome Sciences, University of Washington, Seattle, Washington 98195 7730, USA
Genetics 168:1457-65. 2004....- Adaptive evolution of genes and gene familiesWillie J Swanson
Department of Genome Sciences, University of Washington, Box 357730, Seattle, WA 98195 7730, USA
Curr Opin Genet Dev 13:617-22. 2003..The use of comparative genomics to identify adaptive evolution is resulting in predictions of functionally important genes and gene regions. However, the selective pressure driving the adaptive evolution of most genes remains mysterious... - Sex peptide and the sperm effect in Drosophila melanogasterWillie J Swanson
Department of Genome Sciences, University of Washington, Box 357730, Seattle, WA 98195-7730, USA
Proc Natl Acad Sci U S A 100:9643-4. 2003 - ZP domain proteins in the abalone egg coat include a paralog of VERL under positive selection that binds lysin and 18-kDa sperm proteinsJan E Aagaard
Department of Genome Sciences, University of Washington, USA
Mol Biol Evol 27:193-203. 2010..This work identifies an egg coat paralog of VERL under positive selection and the candidate sperm proteins with which it may interact during abalone fertilization... - Proteomic discovery of previously unannotated, rapidly evolving seminal fluid genes in DrosophilaGeoffrey D Findlay
Department of Genome Sciences, University of Washington, Seattle, WA 98195 5065, USA
Genome Res 19:886-96. 2009..Our data demonstrate the utility of applying proteomic gene discovery methods to a specific biological process and provide a more complete picture of the molecules that are critical to reproductive success in Drosophila... 
Proteomics enhances evolutionary and functional analysis of reproductive proteinsGeoffrey D Findlay
Department of Genome Sciences, University of Washington, Seattle, 98195 5065, USA
Bioessays 32:26-36. 2010..Finally, we describe molecular and genomic tools for functional analysis and detail how evolutionary data may be used to make predictions about interactions among reproductive proteins...- Molecular evolution and population genetic analysis of candidate female reproductive genes in DrosophilaTami M Panhuis
Department of Genome Sciences, University of Washington, Seattle, Washington 98195, USA
Genetics 173:2039-47. 2006..We discuss our results in light of potential function as well as interaction with male reproductive proteins... - Duplication and selection on abalone sperm lysin in an allopatric populationNathaniel L Clark
Department of Genome Sciences, University of Washington, USA
Mol Biol Evol 24:2081-90. 2007..The presence of multiple, rapidly evolving lysin genes in H. tuberculata presents an opportunity to study the early stages of diversification of a protein whose function is well understood... - Molecular population genetics of the gene encoding the human fertilization protein zonadhesin reveals rapid adaptive evolutionJoe Gasper
Department of Genome Sciences, University of Washington, Seattle, WA 98195, USA
Am J Hum Genet 79:820-30. 2006..Finally, we observe adaptive evolution in haplotypes segregating for a frameshift mutation that was previously thought to indicate that ZAN was a potential pseudogene... - The molecular basis of sex: linking yeast to humanWillie J Swanson
Department of Genome Sciences, University of Washington, USA
Mol Biol Evol 28:1963-6. 2011..6-1 billion years of evolution, functionally essential domains of a mollusc sperm receptor and a yeast mating protein adopt the same 3D fold as egg zona pellucida proteins mediating the binding between gametes in humans... - Evidence of amino acid diversity-enhancing selection within humans and among primates at the candidate sperm-receptor gene PKDREJDavid Hamm
Department of Genome Sciences, University of Washington, Seattle, WA, 98915 7730, USA
Am J Hum Genet 81:44-52. 2007..It remains unknown whether there are functional differences associated with these diverse alleles, but their existence could have consequences for human fertility... - Adaptive evolution in an avian reproductive protein: ZP3Jennifer D Calkins
Department of Genome Science, University of Washington, Seattle, WA 98195, USA
J Mol Evol 65:555-63. 2007..Clearly, the inclusion of bird species in the study of reproductive proteins across taxa promises to add greatly to the discussion of the factors driving the widespread phenomenon of adaptive evolution in reproductive proteins... - Dietary change and adaptive evolution of enamelin in humans and among primatesJoanna L Kelley
Department of Genome Sciences, University of Washington, Seattle, Washington 98195, USA
Genetics 178:1595-603. 2008..We hypothesize that among primate species the evolved differences in tooth enamel thickness are correlated with the adaptive evolution of enamelin... - Oyster sperm bindin is a combinatorial fucose lectin with remarkable intra-species diversityStevan A Springer
Department of Biology, University of Washington, Seattle, Washington, USA
Int J Dev Biol 52:759-68. 2008..In experimental conditions oyster eggs have poor polyspermy blocks, and bindin diversity could be an evolutionary response by sperm to match egg receptors that have diversified to avoid being fertilized by multiple sperm... - Detecting coevolution through allelic association between physically unlinked lociRori V Rohlfs
Department of Genome Sciences, University of Washington, Seattle, WA 98195, USA
Am J Hum Genet 86:674-85. 2010..The observation of this selection is surprising, but reasonable in the highly selected system of fertilization. If confirmed, this sort of selection provides an exception to the paradigm of chromosomal independent assortment... - Proteomics reveals novel Drosophila seminal fluid proteins transferred at matingGeoffrey D Findlay
Department of Genome Sciences, University of Washington, Seattle, Washington, USA
PLoS Biol 6:e178. 2008.... - Functional diversification and evolution of antifreeze proteins in the antarctic fish Lycodichthys dearborniJoanna L Kelley
Department of Genome Sciences, University of Washington, Seattle, WA, USA
J Mol Evol 71:111-8. 2010..Our molecular evolution study shows that paralogs have diverged under positive selection. We hypothesize that antifreeze protein diversity is an important contributor to depressing the serum freezing point... - Rapid evolution of reproductive proteins in abalone and DrosophilaTami M Panhuis
Department of Genome Sciences, University of Washington, PO Box 357730, Seattle, WA 98195-7730, USA
Philos Trans R Soc Lond B Biol Sci 361:261-8. 2006..We conclude that the key to distinguishing between sexual conflict and other mechanisms of protein evolution will be an integration of genetic, experimental and theoretical data... - Targeted resequencing of two genes, RAGE and POLL, confirms findings from a genome-wide scan for adaptive evolution and provides evidence for positive selection in additional populationsJoanna L Kelley
Department of Genome Sciences, University of Washington, Seattle, WA, USA
Hum Mol Genet 18:779-84. 2009..In addition to confirming the signatures of selection from the genome-wide scan, direct resequencing reveals more extensive patterns of selection than the genotype data... - Evolution of reproductive proteins from animals and plantsNathaniel L Clark
Department of Genome Sciences, University of Washington, Box 357730, Seattle, USA
Reproduction 131:11-22. 2006.... - Trans genomic capture and sequencing of primate exomes reveals new targets of positive selectionRenee D George
Department of Genome Sciences, University of Washington, Seattle, Washington 98195, USA
Genome Res 21:1686-94. 2011..These results demonstrate the power of second-generation sequencing in comparative genomics and greatly expand the repertoire of available primate coding sequences... - Rapidly evolving zona pellucida domain proteins are a major component of the vitelline envelope of abalone eggsJan E Aagaard
Department of Genome Sciences, University of Washington, Box 357730, Seattle, WA 98195, USA
Proc Natl Acad Sci U S A 103:17302-7. 2006..This work provides further evidence of the prominence of ZP proteins as constituents of the egg coat, as well as the prominent role of positive selection in diversification of these reproductive proteins... - Adaptive evolution in rodent seminal vesicle secretion proteinsRobert C Karn
Department of Genome Sciences, University of Washington, Seattle, Washington, USA
Mol Biol Evol 25:2301-10. 2008..We propose that the most likely explanation of the adaptive evolution of Svs7 that we have observed in rodents and primates stems from an important function in sperm competition... 
Pervasive adaptive evolution in primate seminal proteinsNathaniel L Clark
Department of Genome Sciences, University of Washington, Seattle, Washington, USA
PLoS Genet 1:e35. 2005....- Adaptive evolution in the SRZ chemoreceptor families of Caenorhabditis elegans and Caenorhabditis briggsaeJames H Thomas
Department of Genome Sciences, University of Washington, Seattle, WA 91895, USA
Proc Natl Acad Sci U S A 102:4476-81. 2005..We interpret these results as indicating that the srz family is under positive selection, probably driven by ligand binding... - Beyond the phenotypic gambit: molecular behavioural ecology and the evolution of genetic architectureStevan A Springer
Department of Biology, University of Washington, Seattle, WA 98195, USA
Mol Ecol 20:2240-57. 2011.... - TRPV6 exhibits unusual patterns of polymorphism and divergence in worldwide populationsJoshua M Akey
Department of Genome Sciences, University of Washington, Seattle, WA 98195 7730, USA
Hum Mol Genet 15:2106-13. 2006..These data strongly suggest that the TRPV6 haplotype defined by the derived alleles at C157R, M378V and M681T conferred a selective advantage that varied spatially, and perhaps temporally, during human history... - The rapid evolution of reproductive proteinsWillie J Swanson
Department of Biology, University of California Riverside, Riverside, California 92521, USA
Nat Rev Genet 3:137-44. 2002..Sequence comparisons and functional studies are beginning to show the extent to which the rapid divergence of reproductive proteins is involved in the speciation process... - Positive darwinian selection promotes heterogeneity among members of the antifreeze protein multigene familyWillie J Swanson
Department of Biology, University of California, Riverside, Riverside, CA 92521, USA
J Mol Evol 54:403-10. 2002..The selective agent may be related to efficient binding to diverse ice surfaces or some other aspect of AFP function... - Codon-substitution models to detect adaptive evolution that account for heterogeneous selective pressures among site classesZiheng Yang
Galton Laboratory, Department of Biology, University College London, 4 Stephenson Way, London NW1 2HE, UK
Mol Biol Evol 19:49-57. 2002..The analysis demonstrates the utility of the fixed-sites models, as well as the power of previous random-sites models, which do not use the prior information to partition sites... - Full-length sequence of VERL, the egg vitelline envelope receptor for abalone sperm lysinBlanca E Galindo
Center for Biotechnology and Biomedicine, Scripps Institution of Oceanography, University of California San Diego, La Jolla 92093-0202, USA
Gene 288:111-7. 2002..Curiously, comparisons of repeats from other species shows that repeats 1 and 2 of red abalone VERL have not been subjected to concerted evolution since the divergence of the red species from the other six California species... - A test for faster X evolution in DrosophilaAndrea J Betancourt
Mol Biol Evol 19:1816-9. 2002 - Molecular evolution of seminal proteins in field cricketsJose A Andrés
Department of Ecology and Evolutionary Biology, Cornell University, USA
Mol Biol Evol 23:1574-84. 2006..In spite of the contrasting characteristics of the Drosophila and Gryllus mating systems, the mean selection parameter omega and the proportion of loci estimated to be affected by positive selection are very similar... - Identification and comparative analysis of accessory gland proteins in OrthopteraW Evan Braswell
Department of Biology, New Mexico State University, Las Cruces, NM, USA
Genome 49:1069-80. 2006..Despite rapid nucleotide sequence divergence, there appears to be functional conservation of protein classes among Drosophila and cricket taxa... - Positive selection in the egg receptor for abalone sperm lysinBlanca E Galindo
Center for Marine Biotechnology and Biomedicine, Scripps Institution of Oceanography, University of California at San Diego, La Jolla, CA 92093-0202, USA
Proc Natl Acad Sci U S A 100:4639-43. 2003..The result of this continuous coevolution of the gamete recognition system could be the splitting of one population into two that are reproductively isolated (speciation)... - Speciation in birds: genes, geography, and sexual selectionScott V Edwards
Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA 02138, USA
Proc Natl Acad Sci U S A 102:6550-7. 2005.... - Gene duplication and adaptive evolution of digestive proteases in Drosophila arizonae female reproductive tractsErin S Kelleher
Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, Arizona, United States of America
PLoS Genet 3:e148. 2007..Additionally, pervasive gene duplication, adaptive evolution, and rapid acquisition of a novel digestive function by the female reproductive tract points to a novel coevolutionary mechanism of ejaculate-female interaction... - Population genetics of accessory gland proteins and sexual behavior in Drosophila melanogaster populations from Evolution CanyonTami M Panhuis
Department of Biology, University of California, Riverside, California 92521, USA
Evolution 57:2785-91. 2003..We discuss our results in light of the discrepancies that have been published on this enigmatic D. melanogaster system from Evolution Canyon... - A perforin-like protein from a marine molluskSilvia A Mah
Center for Marine Biotechnology and Biomedicine, Scripps Institution of Oceanography, University of California San Diego, La Jolla, CA 92093 0202, USA
Biochem Biophys Res Commun 316:468-75. 2004..The alpha-helices of abMpeg1 are amphipathic as are those of perforin. The conservation among abMpeg1, mammalian Mpeg1, and Epcs50 shows that Mpeg1 proteins represent a novel, ancient protein family of probable immunological function... - Positive selection in the carbohydrate recognition domains of sea urchin sperm receptor for egg jelly (suREJ) proteinsSilvia A Mah
Center for Marine Biotechnology and Biomedicine, Scripps Institution of Oceanography, University of California San Diego, La Jolla, USA
Mol Biol Evol 22:533-41. 2005..This is the first demonstration of positive selection in CRDs and is another example of positive selection acting on the evolution of gamete-recognition proteins...