Search Results - "Scott W. Roy"

Mechanism for DNA transposons to generate introns on genomic scales by Huff, Jason T., Zilberman, Daniel, Roy, Scott W.

“…The observations that introns are acquired in bursts and that exons are often nucleosome-sized can be explained by the generation of introns from DNA…”
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Nematode histone H2A variant evolution reveals diverse histories of retention and loss and evidence for conserved core-like variant histone genes by Singh, Swadha, Anderson, Noelle, Chu, Diana, Roy, Scott W

“…Histone variants are paralogs that replace canonical histones in nucleosomes, often imparting novel functions. However, how histone variants arise and evolve…”
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Comprehensive database and evolutionary dynamics of U12-type introns by Moyer, Devlin C, Larue, Graham E, Hershberger, Courtney E, Roy, Scott W, Padgett, Richard A

“…Abstract During nuclear maturation of most eukaryotic pre-messenger RNAs and long non-coding RNAs, introns are removed through the process of RNA splicing…”
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ExOrthist: a tool to infer exon orthologies at any evolutionary distance by Márquez, Yamile, Mantica, Federica, Cozzuto, Luca, Burguera, Demian, Hermoso-Pulido, Antonio, Ponomarenko, Julia, Roy, Scott W, Irimia, Manuel

“…Several bioinformatic tools have been developed for genome-wide identification of orthologous and paralogous genes. However, no corresponding tool allows the…”
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Novel RNA viruses associated with avian haemosporidian parasites by Rodrigues, Jose Roberto, Roy, Scott W, Sehgal, Ravinder N. M

“…Avian haemosporidian parasites can cause malaria-like symptoms in their hosts and have been implicated in the demise of some bird species. The newly described…”
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The Macronuclear Genome of Stentor coeruleus Reveals Tiny Introns in a Giant Cell by Slabodnick, Mark M., Ruby, J. Graham, Reiff, Sarah B., Swart, Estienne C., Gosai, Sager, Prabakaran, Sudhakaran, Witkowska, Ewa, Larue, Graham E., Fisher, Susan, Freeman, Robert M., Gunawardena, Jeremy, Chu, William, Stover, Naomi A., Gregory, Brian D., Nowacki, Mariusz, Derisi, Joseph, Roy, Scott W., Marshall, Wallace F., Sood, Pranidhi

“…The giant, single-celled organism Stentor coeruleus has a long history as a model system for studying pattern formation and regeneration in single cells…”
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Genomic Assessment of the Contribution of the Wolbachia Endosymbiont of Eurosta solidaginis to Gall Induction by Fiutek, Natalie, Couger, Matthew B, Pirro, Stacy, Roy, Scott W, de la Torre, José R, Connor, Edward F

“…We explored the genome of the strain, Esol, symbiotic with the plant-gall-inducing fly with the goal of determining if Esol contributes to gall induction by…”
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Extensive conservation of ancient microsynteny across metazoans due to cis-regulatory constraints by Irimia, Manuel, Tena, Juan J, Alexis, Maria S, Fernandez-Miñan, Ana, Maeso, Ignacio, Bogdanovic, Ozren, de la Calle-Mustienes, Elisa, Roy, Scott W, Gómez-Skarmeta, José L, Fraser, Hunter B

“…The order of genes in eukaryotic genomes has generally been assumed to be neutral, since gene order is largely scrambled over evolutionary time. Only a handful…”
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Patterns of conservation of spliceosomal intron structures and spliceosome divergence in representatives of the diplomonad and parabasalid lineages by Hudson, Andrew J, McWatters, David C, Bowser, Bradley A, Moore, Ashley N, Larue, Graham E, Roy, Scott W, Russell, Anthony G

“…Two spliceosomal intron types co-exist in eukaryotic precursor mRNAs and are excised by distinct U2-dependent and U12-dependent spliceosomes. In the diplomonad…”
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Complex Early Genes by Roy, Scott W., Gilbert, Walter

“…We use the pattern of intron conservation in 684 groups of orthologs from seven fully sequenced eukaryotic genomes to provide maximum likelihood estimates of…”
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Comparative genomic analysis of fungal genomes reveals intron-rich ancestors by Stajich, Jason E, Dietrich, Fred S, Roy, Scott W

“…Eukaryotic protein-coding genes are interrupted by spliceosomal introns, which are removed from transcripts before protein translation. Many facets of…”
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Deciphering neo-sex and B chromosome evolution by the draft genome of Drosophila albomicans by Zhou, Qi, Zhu, Hong-mei, Huang, Quan-fei, Zhao, Li, Zhang, Guo-jie, Roy, Scott W, Vicoso, Beatriz, Xuan, Zhao-lin, Ruan, Jue, Zhang, Yue, Zhao, Ruo-ping, Ye, Chen, Zhang, Xiu-qing, Wang, Jun, Wang, Wen, Bachtrog, Doris

“…Drosophila albomicans is a unique model organism for studying both sex chromosome and B chromosome evolution. A pair of its autosomes comprising roughly 40% of…”
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Analyses of alternatively processed genes in ciliates provide insights into the origins of scrambled genomes and may provide a mechanism for speciation by Gao, Feng, Roy, Scott W, Katz, Laura A

“…Chromosome rearrangements occur in a variety of eukaryotic life cycles, including during the development of the somatic macronuclear genome in ciliates…”
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The Pattern of Intron Loss by Roy, Scott W., Gilbert, Walter

“…We studied intron loss in 684 groups of orthologous genes from seven fully sequenced eukaryotic genomes. We found that introns closer to the 3′ ends of genes…”
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Large-Scale Comparison of Intron Positions in Mammalian Genes Shows Intron Loss but No Gain by Roy, Scott W., Fedorov, Alexei, Gilbert, Walter

“…We compared intron-exon structures in 1,560 human-mouse orthologs and 360 mouse-rat orthologs. The origin of differences in intron positions between species…”
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Coevolution of genomic intron number and splice sites by Irimia, Manuel, Penny, David, Roy, Scott W

“…Spliceosomal intron numbers and boundary sequences vary dramatically in eukaryotes. We found a striking correspondence between low intron number and strong…”
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Transcriptome sequencing and analysis of Plasmodium gallinaceum reveals polymorphisms and selection on the apical membrane antigen-1 by Lauron, Elvin J, Oakgrove, Khouanchy S, Tell, Lisa A, Biskar, Kevin, Roy, Scott W, Sehgal, Ravinder N M

“…Plasmodium erythrocyte invasion genes play a key role in malaria parasite transmission, host-specificity and immuno-evasion. However, the evolution of the…”
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A new model for the origins of allelic dimorphism in Plasmodium falciparum by Roy, Scott W, Ferreira, Marcelo U

“…Abstract In his landmark 1987 study of the merozoite surface protein-1 locus in Plasmodium falciparum , Kazuyuki Tanabe and coauthors introduced the phenomenon…”
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Intronization, de-intronization and intron sliding are rare in Cryptococcus by Roy, Scott W

“…Eukaryotic pre-mRNA gene transcripts are processed by the spliceosome to remove portions of the transcript, called spliceosomal introns. The spliceosome…”
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Where the minor things are: a pan-eukaryotic survey suggests neutral processes may explain much of minor intron evolution by Larue, Graham E, Roy, Scott W

“…Abstract Spliceosomal introns are gene segments removed from RNA transcripts by ribonucleoprotein machineries called spliceosomes. In some eukaryotes a second…”
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