作者
Wilson Leung, Christopher D Shaffer, Laura K Reed, Sheryl T Smith, William Barshop, William Dirkes, Matthew Dothager, Paul Lee, Jeannette Wong, David Xiong, Han Yuan, James EJ Bedard, Joshua F Machone, Seantay D Patterson, Amber L Price, Bryce A Turner, Srebrenka Robic, Erin K Luippold, Shannon R McCartha, Tezin A Walji, Chelsea A Walker, Kenneth Saville, Marita K Abrams, Andrew R Armstrong, William Armstrong, Robert J Bailey, Chelsea R Barberi, Lauren R Beck, Amanda L Blaker, Christopher E Blunden, Jordan P Brand, Ethan J Brock, Dana W Brooks, Marie Brown, Sarah C Butzler, Eric M Clark, Nicole B Clark, Ashley A Collins, Rebecca J Cotteleer, Peterson R Cullimore, Seth G Dawson, Carter T Docking, Sasha L Dorsett, Grace A Dougherty, Kaitlyn A Downey, Andrew P Drake, Erica K Earl, Trevor G Floyd, Joshua D Forsyth, Jonathan D Foust, Spencer L Franchi, James F Geary, Cynthia K Hanson, Taylor S Harding, Cameron B Harris, Jonathan M Heckman, Heather L Holderness, Nicole A Howey, Dontae A Jacobs, Elizabeth S Jewell, Maria Kaisler, Elizabeth A Karaska, James L Kehoe, Hannah C Koaches, Jessica Koehler, Dana Koenig, Alexander J Kujawski, Jordan E Kus, Jennifer A Lammers, Rachel R Leads, Emily C Leatherman, Rachel N Lippert, Gregory S Messenger, Adam T Morrow, Victoria Newcomb, Haley J Plasman, Stephanie J Potocny, Michelle K Powers, Rachel M Reem, Jonathan P Rennhack, Katherine R Reynolds, Lyndsey A Reynolds, Dong K Rhee, Allyson B Rivard, Adam J Ronk, Meghan B Rooney, Lainey S Rubin, Luke R Salbert, Rasleen K Saluja, Taylor Schauder, Allison R Schneiter, Robert W Schulz, Karl E Smith, Sarah Spencer, Bryant R Swanson, Melissa A Tache, Ashley A Tewilliager, Amanda K Tilot, Eve VanEck, Matthew M Villerot, Megan B Vylonis, David T Watson, Juliana A Wurzler, Lauren M Wysocki, Monica Yalamanchili, Matthew A Zaborowicz, Julia A Emerson, Carlos Ortiz, Frederic J Deuschle, Lauren A DiLorenzo, Katie L Goeller, Christopher R Macchi, Sarah E Muller, Brittany D Pasierb, Joseph E Sable, Jessica M Tucci, Marykathryn Tynon, David A Dunbar, Levent H Beken, Alaina C Conturso, Benjamin L Danner, Gabriella A DeMichele, Justin A Gonzales, Maureen S Hammond, Colleen V Kelley, Elisabeth A Kelly, Danielle Kulich, Catherine M Mageeney, Nikie L McCabe, Alyssa M Newman, Lindsay A Spaeder, Richard A Tumminello, Dennis Revie, Jonathon M Benson, Michael C Cristostomo, Paolo A DaSilva, Katherine S Harker, Jenifer N Jarrell, Luis A Jimenez, Brandon M Katz, William R Kennedy, Kimberly S Kolibas, Mark T LeBlanc, Trung T Nguyen, Daniel S Nicolas, Melissa D Patao, Shane M Patao, Bryan J Rupley, Bridget J Sessions, Jennifer A Weaver
发表日期
2015/5/1
期刊
G3: Genes, Genomes, Genetics
卷号
5
期号
5
页码范围
719-740
出版商
Oxford University Press
简介
The Muller F element (4.2 Mb, ~80 protein-coding genes) is an unusual autosome of Drosophila melanogaster; it is mostly heterochromatic with a low recombination rate. To investigate how these properties impact the evolution of repeats and genes, we manually improved the sequence and annotated the genes on the D. erecta, D. mojavensis, and D. grimshawi F elements and euchromatic domains from the Muller D element. We find that F elements have greater transposon density (25–50%) than euchromatic reference regions (3–11%). Among the F elements, D. grimshawi has the lowest transposon density (particularly DINE-1: 2% vs. 11–27%). F element genes have larger coding spans, more coding exons, larger introns, and lower codon bias. Comparison of the Effective Number of Codons with the Codon Adaptation Index shows that, in contrast to the other species, codon bias in D. grimshawi F element …
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W Leung, CD Shaffer, LK Reed, ST Smith, W Barshop… - G3: Genes, Genomes, Genetics, 2015