Scott W Roy

Summary

Publications

  1. Roy S. How Common Is Parallel Intron Gain? Rapid Evolution Versus Independent Creation in Recently Created Introns in Daphnia. Mol Biol Evol. 2016;33:1902-6 pubmed publisher
    ..pulex These findings strengthen the notion that shared intron positions generally reflect ancestral introns, and thus the notion of complex genes in early eukaryotes. ..
  2. request reprint
    Roy S. Is Genome Complexity a Consequence of Inefficient Selection? Evidence from Intron Creation in Nonrecombining Regions. Mol Biol Evol. 2016;33:3088-3094 pubmed
    ..Instead, rates of spontaneous intron-creating and intron-deleting mutations may play the central role in shaping intron-exon structures. ..
  3. request reprint
    Roy S, Penny D. Smoke without fire: most reported cases of intron gain in nematodes instead reflect intron losses. Mol Biol Evol. 2006;23:2259-62 pubmed
    ....
  4. McDevitt S, Bredeson J, Roy S, Lane J, Noble J. HAPCAD: An open-source tool to detect PCR crossovers in next-generation sequencing generated HLA data. Hum Immunol. 2016;77:257-63 pubmed publisher
    ..The Hybrid Amplicon/PCR Crossover Artifact Detector (HAPCAD) program mimics jumping PCR in silico and flags allele sequences that may also be generated as hybrid amplicon. ..
  5. Roy S. Is Mutation Random or Targeted?: No Evidence for Hypermutability in Snail Toxin Genes. Mol Biol Evol. 2016;33:2642-7 pubmed publisher
    ..The current findings suggest that mutation and codon bias in conotoxin genes may not be atypical, and that random mutation and selection can explain the evolution of even these exceptional loci. ..
  6. Zhou Q, Zhu H, Huang Q, Zhao L, Zhang G, Roy S, et al. Deciphering neo-sex and B chromosome evolution by the draft genome of Drosophila albomicans. BMC Genomics. 2012;13:109 pubmed publisher
    ..12 million years ago, thereby creating the youngest and most gene-rich neo-sex system reported to date. This species also possesses recently derived B chromosomes that show non-Mendelian inheritance and significantly influence fertility...
  7. Hoogewijs D, De Henau S, Dewilde S, Moens L, Couvreur M, Borgonie G, et al. The Caenorhabditis globin gene family reveals extensive nematode-specific radiation and diversification. BMC Evol Biol. 2008;8:279 pubmed publisher
    ..Strong purifying selection subsequently dampened further evolution and facilitated fixation of the duplicated genes in the genome. ..
  8. Roy S, Penny D. Large-scale intron conservation and order-of-magnitude variation in intron loss/gain rates in apicomplexan evolution. Genome Res. 2006;16:1270-5 pubmed
    ..We suggest that intron loss/gain in some eukaryotic lineages may be concentrated in relatively short episodes coincident with occasional TE invasions...
  9. request reprint
    Roy S, Penny D, Neafsey D. Evolutionary conservation of UTR intron boundaries in Cryptococcus. Mol Biol Evol. 2007;24:1140-8 pubmed
    ..These results focus attention on the functional roles of eukaryotic UTRs and deepen the mystery of UTR intron splicing. ..
  10. Roy S, Irimia M. When good transcripts go bad: artifactual RT-PCR 'splicing' and genome analysis. Bioessays. 2008;30:601-5 pubmed publisher
    ..Supplementary material for this article can be found on the BioEssays website (http://www.interscience.wiley.com/jpages/0265-9247/suppmat/index.html). ..

Locale

Detail Information

Publications11

  1. Roy S. How Common Is Parallel Intron Gain? Rapid Evolution Versus Independent Creation in Recently Created Introns in Daphnia. Mol Biol Evol. 2016;33:1902-6 pubmed publisher
    ..pulex These findings strengthen the notion that shared intron positions generally reflect ancestral introns, and thus the notion of complex genes in early eukaryotes. ..
  2. request reprint
    Roy S. Is Genome Complexity a Consequence of Inefficient Selection? Evidence from Intron Creation in Nonrecombining Regions. Mol Biol Evol. 2016;33:3088-3094 pubmed
    ..Instead, rates of spontaneous intron-creating and intron-deleting mutations may play the central role in shaping intron-exon structures. ..
  3. request reprint
    Roy S, Penny D. Smoke without fire: most reported cases of intron gain in nematodes instead reflect intron losses. Mol Biol Evol. 2006;23:2259-62 pubmed
    ....
  4. McDevitt S, Bredeson J, Roy S, Lane J, Noble J. HAPCAD: An open-source tool to detect PCR crossovers in next-generation sequencing generated HLA data. Hum Immunol. 2016;77:257-63 pubmed publisher
    ..The Hybrid Amplicon/PCR Crossover Artifact Detector (HAPCAD) program mimics jumping PCR in silico and flags allele sequences that may also be generated as hybrid amplicon. ..
  5. Roy S. Is Mutation Random or Targeted?: No Evidence for Hypermutability in Snail Toxin Genes. Mol Biol Evol. 2016;33:2642-7 pubmed publisher
    ..The current findings suggest that mutation and codon bias in conotoxin genes may not be atypical, and that random mutation and selection can explain the evolution of even these exceptional loci. ..
  6. Zhou Q, Zhu H, Huang Q, Zhao L, Zhang G, Roy S, et al. Deciphering neo-sex and B chromosome evolution by the draft genome of Drosophila albomicans. BMC Genomics. 2012;13:109 pubmed publisher
    ..12 million years ago, thereby creating the youngest and most gene-rich neo-sex system reported to date. This species also possesses recently derived B chromosomes that show non-Mendelian inheritance and significantly influence fertility...
  7. Hoogewijs D, De Henau S, Dewilde S, Moens L, Couvreur M, Borgonie G, et al. The Caenorhabditis globin gene family reveals extensive nematode-specific radiation and diversification. BMC Evol Biol. 2008;8:279 pubmed publisher
    ..Strong purifying selection subsequently dampened further evolution and facilitated fixation of the duplicated genes in the genome. ..
  8. Roy S, Penny D. Large-scale intron conservation and order-of-magnitude variation in intron loss/gain rates in apicomplexan evolution. Genome Res. 2006;16:1270-5 pubmed
    ..We suggest that intron loss/gain in some eukaryotic lineages may be concentrated in relatively short episodes coincident with occasional TE invasions...
  9. request reprint
    Roy S, Penny D, Neafsey D. Evolutionary conservation of UTR intron boundaries in Cryptococcus. Mol Biol Evol. 2007;24:1140-8 pubmed
    ..These results focus attention on the functional roles of eukaryotic UTRs and deepen the mystery of UTR intron splicing. ..
  10. Roy S, Irimia M. When good transcripts go bad: artifactual RT-PCR 'splicing' and genome analysis. Bioessays. 2008;30:601-5 pubmed publisher
    ..Supplementary material for this article can be found on the BioEssays website (http://www.interscience.wiley.com/jpages/0265-9247/suppmat/index.html). ..
  11. Slabodnick M, Ruby J, Reiff S, Swart E, Gosai S, Prabakaran S, et al. The Macronuclear Genome of Stentor coeruleus Reveals Tiny Introns in a Giant Cell. Curr Biol. 2017;27:569-575 pubmed publisher
    ..Finally, in the Stentor genome, we discover the smallest spliceosomal introns reported for any species. The sequenced genome opens the door to molecular analysis of single-cell regeneration in Stentor. ..