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Evolution of genes and genomes on the Drosophila phylogeny.
Authors :
Clark, Andrew G. Eisen, Michael B. Smith, Douglas R. Bergman, Casey M. Oliver, Brian Markow, Therese A. Kaufman, Thomas C. Kellis, Manolis Gelbart, William Iyer, Venky N. Pollard, Daniel A. Sackton, Timothy B. Larracuente, Amanda M. Singh, Nadia D. Abad, Jose P. Abt, Dawn N. Adryan, Boris Aguade, Montserrat Akashi, Hiroshi Anderson, Wyatt W. Aquadro, Charles F. Ardell, David H. Arguello, Roman Artieri, Carlo G. Barbash, Daniel A. Barker, Daniel Barsanti, Paolo Batterham, Phil Batzoglou, Serafim Begun, Dave Bhutkar, Arjun Blanco, Enrico Bosak, Stephanie A. Bradley, Robert K. Brand, Adrianne D. Brent, Michael R. Brooks, Angela N. Brown, Randall H. Butlin, Roger K. Caggese, Corrado Calvi, Brian R. de Carvalho, A. Bernardo Caspi, Anat Castrezana, Sergio Celniker, Susan E. Chang, Jean L. Chapple, Charles Chatterji, Sourav Chinwalla, Asif Civetta, Alberto Clifton, Sandra W. Comeron, Josep M. Costello, James C. Coyne, Jerry A. Daub, Jennifer David, Robert G. Delcher, Arthur L. Delehaunty, Kim Do, Chuong B. Ebling, Heather Edwards, Kevin Eickbush, Thomas Evans, Jay D. Filipski, Alan Findeiss, Sven Freyhult, Eva Fulton, Lucinda Fulton, Robert Garcia, Ana C. L. Gardiner, Anastasia Garfield, David A. Garvin, Barry E. Gibson, Greg Gilbert, Don Gnerre, Sante Godfrey, Jennifer Good, Robert Gotea, Valer Gravely, Brenton Greenberg, Anthony J. Griffiths-Jones, Sam Gross, Samuel Guigo, Roderic Gustafson, Erik A. Haerty, Wilfried Hahn, Matthew W. Halligan, Daniel L. Halpern, Aaron L. Halter, Gillian M. Han, Mira V. Heger, Andreas Hillier, LaDeana Hinrichs, Angie S. Holmes, Ian Hoskins, Roger A. Hubisz, Melissa J. Hultmark, Dan Huntley, Melanie A. Jaffe, David B. Jagadeeshan, Santosh Jeck, William R. Johnson, Justin Jones, Corbin D. Jordan, William C. Karpen, Gary H. Kataoka, Eiko Keightley, Peter D. Kheradpour, Pouya Kirkness, Ewen F. Koerich, Leonardo B. Kristiansen, Karsten Kudrna, Dave Kulathinal, Rob J. Kumar, Sudhir Kwok, Roberta Lander, Eric Langley, Charles H. Lapoint, Richard Lazzaro, Brian P. Lee, So-Jeong Levesque, Lisa Li, Ruiqiang Lin, Chiao-Feng Lin, Michael F. Lindblad-Toh, Kerstin Llopart, Ana Long, Manyuan Low, Lloyd Lozovsky, Elena Lu, Jian Luo, Meizhong Machado, Carlos A. Makalowski, Wojciech Marzo, Mar Matsuda, Muneo Matzkin, Luciano McAllister, Bryant McBride, Carolyn S. McKernan, Brendan McKernan, Kevin Mendez-Lago, Maria Minx, Patrick Mollenhauer, Michael U. Montooth, Kristi Mount, Stephen M. Mu, Xu Myers, Eugene Negre, Barbara Newfeld, Stuart Nielsen, Rasmus Noor, Mohamed A. F. O'Grady, Patrick Pachter, Lior Papaceit, Montserrat Parisi, Matthew J. Parisi, Michael Parts, Leopold Pedersen, Jakob S. Pesole, Graziano Phillippy, Adam M. Ponting, Chris P. Pop, Mihai Porcelli, Damiano Powell, Jeffrey R. Prohaska, Sonja Pruitt, Kim Puig, Marta Quesneville, Hadi Ram, Kristipati Ravi Rand, David Rasmussen, Matthew D. Reed, Laura K. Reenan, Robert Reily, Amy Remington, Karin A. Rieger, Tania T. Ritchie, Michael G. Robin, Charles Rogers, Yu-Hui Rohde, Claudia Rozas, Julio Rubenfield, Marc J. Ruiz, Alfredo Russo, Susan Salzberg, Steven L. Sanchez-Gracia, Alejandro Saranga, David J. Sato, Hajime Schaeffer, Stephen W. Schatz, Michael C. Schlenke, Todd Schwartz, Russell Segarra, Carmen Singh, Rama S. Sirot, Laura Sirota, Marina Sisneros, Nicholas B. Smith, Chris D. Smith, Temple F. Spieth, John Stage, Deborah E. Stark, Alexander Stephan, Wolfgang Strausberg, Robert L. Strempel, Sebastian Sturgill, David Sutton, Granger Sutton, Granger G. Tao, Wei Teichmann, Sarah Tobari, Yoshiko N. Tomimura, Yoshihiko Tsolas, Jason M. Valente, Vera L. S. Venter, Eli Venter, J. Craig Vicario, Saverio Vieira, Filipe G. Vilella, Albert J. Villasante, Alfredo Walenz, Brian Wang, Jun Wasserman, Marvin Watts, Thomas Wilson, Derek Wilson, Richard K. Wing, Rod A. Wolfner, Mariana F. Wong, Alex Wong, Gane Ka-Shu Wu, Chung-I Wu, Gabriel Yamamoto, Daisuke Yang, Hsiao-Pei Yang, Shiaw-Pyng Yorke, James A. Yoshida, Kiyohito Zdobnov, Evgeny Zhang, Peili Zhang, Yu Zimin, Aleksey V. Baldwin, Jennifer Abdouelleil, Amr Abdulkadir, Jamal Abebe, Adal Abera, Brikti Abreu, Justin Acer, St Christophe Aftuck, Lynne Alexander, Allen An, Peter Anderson, Erica Anderson, Scott Arachi, Harindra Azer, Marc Bachantsang, Pasang Barry, Andrew Bayul, Tashi Berlin, Aaron Bessette, Daniel Bloom, Toby Blye, Jason Boguslavskiy, Leonid Bonnet, Claude Boukhgalter, Boris Bourzgui, Imane Brown, Adam Cahill, Patrick Channer, Sheridon Cheshatsang, Yama Chuda, Lisa Citroen, Mieke Collymore, Alville Cooke, Patrick Costello, Maura D'Aco, Katie Daza, Riza De Haan, Georgius DeGray, Stuart DeMaso, Christina Dhargay, Norbu Dooley, Kimberly Dooley, Erin Doricent, Missole Dorje, Passang Dorjee, Kunsang Dupes, Alan Elong, Richard Falk, Jill Farina, Abderrahim Faro, Susan Ferguson, Diallo Fisher, Sheila Foley, Chelsea D. Franke, Alicia Friedrich, Dennis Gadbois, Loryn Gearin, Gary Gearin, Christina R. Giannoukos, Georgia Goode, Tina Graham, Joseph Grandbois, Edward Grewal, Sharleen Gyaltsen, Kunsang Hafez, Nabil Hagos, Birhane Hall, Jennifer Henson, Charlotte Hollinger, Andrew Honan, Tracey Huard, Monika D. Hughes, Leanne Hurhula, Brian Husby, M. Erii Kamat, Asha Kanga, Ben Kashin, Seva Khazanovich, Dmitry Kisner, Peter Lance, Krista Lara, Marcia Lee, William Lennon, Niall Letendre, Frances LeVine, Rosie Lipovsky, Alex Liu, Xiaohong Liu, Jinlei Liu, Shangtao Lokyitsang, Tashi Lokyitsang, Yeshi Lubonja, Rakela Lui, Annie MacDonald, Pen Magnisalis, Vasilia Maru, Kebede Matthews, Charles McCusker, William McDonough, Susan Mehta, Teena Meldrim, James Meneus, Louis Mihai, Oana Mihalev, Atanas Mihova, Tanya Mittelman, Rachel Mlenga, Valentine Montmayeur, Anna Mulrain, Leonidas Navidi, Adam Naylor, Jerome Negash, Tamrat Nguyen, Thu Nguyen, Nga Nicol, Robert Norbu, Choe Norbu, Nyima Novod, Nathaniel O'Neill, Barry Osman, Sahal Markiewicz, Eva Oyono, Otero L. Patti, Christopher Phunkhang, Pema Pierre, Fritz Priest, Margaret Raghuraman, Sujaa Rege, Filip Reyes, Rebecca Rise, Cecil Rogov, Peter Ross, Keenan Ryan, Elizabeth Settipalli, Sampath Shea, Terry Sherpa, Ngawang Shi, Lu Shih, Diana Sparrow, Todd Spaulding, Jessica Stalker, John Stange-Thomann, Nicole Stavropoulos, Sharon Stone, Catherine Strader, Christopher Tesfaye, Senait Thomson, Talene Thoulutsang, Yama Thoulutsang, Dawa Topham, Kerri Topping, Ira Tsamla, Tsamla Vassiliev, Helen Vo, Andy Wangchuk, Tsering Wangdi, Tsering Weiand, Michael Wilkinson, Jane Wilson, Adam Yadav, Shailendra Young, Geneva Yu, Qing Zembek, Lisa Zhong, Danni Zimmer, Andrew Zwirko, Zac Alvarez, Pablo Brockman, Will Butler, Jonathan Chin, CheeWhye Grabherr, Manfred Kleber, Michael Mauceli, Evan MacCallum, Iain Clark, Andrew G. Eisen, Michael B. Smith, Douglas R. Bergman, Casey M. Oliver, Brian Markow, Therese A. Kaufman, Thomas C. Kellis, Manolis Gelbart, William Iyer, Venky N. Pollard, Daniel A. Sackton, Timothy B. Larracuente, Amanda M. Singh, Nadia D. Abad, Jose P. Abt, Dawn N. Adryan, Boris Aguade, Montserrat Akashi, Hiroshi Anderson, Wyatt W. Aquadro, Charles F. Ardell, David H. Arguello, Roman Artieri, Carlo G. Barbash, Daniel A. Barker, Daniel Barsanti, Paolo Batterham, Phil Batzoglou, Serafim Begun, Dave Bhutkar, Arjun Blanco, Enrico Bosak, Stephanie A. Bradley, Robert K. Brand, Adrianne D. Brent, Michael R. Brooks, Angela N. Brown, Randall H. Butlin, Roger K. Caggese, Corrado Calvi, Brian R. de Carvalho, A. Bernardo Caspi, Anat Castrezana, Sergio Celniker, Susan E. Chang, Jean L. Chapple, Charles Chatterji, Sourav Chinwalla, Asif Civetta, Alberto Clifton, Sandra W. Comeron, Josep M. Costello, James C. Coyne, Jerry A. Daub, Jennifer David, Robert G. Delcher, Arthur L. Delehaunty, Kim Do, Chuong B. Ebling, Heather Edwards, Kevin Eickbush, Thomas Evans, Jay D. Filipski, Alan Findeiss, Sven Freyhult, Eva Fulton, Lucinda Fulton, Robert Garcia, Ana C. L. Gardiner, Anastasia Garfield, David A. Garvin, Barry E. Gibson, Greg Gilbert, Don Gnerre, Sante Godfrey, Jennifer Good, Robert Gotea, Valer Gravely, Brenton Greenberg, Anthony J. Griffiths-Jones, Sam Gross, Samuel Guigo, Roderic Gustafson, Erik A. Haerty, Wilfried Hahn, Matthew W. Halligan, Daniel L. Halpern, Aaron L. Halter, Gillian M. Han, Mira V. Heger, Andreas Hillier, LaDeana Hinrichs, Angie S. Holmes, Ian Hoskins, Roger A. Hubisz, Melissa J. Hultmark, Dan Huntley, Melanie A. Jaffe, David B. Jagadeeshan, Santosh Jeck, William R. Johnson, Justin Jones, Corbin D. Jordan, William C. Karpen, Gary H. Kataoka, Eiko Keightley, Peter D. Kheradpour, Pouya Kirkness, Ewen F. Koerich, Leonardo B. Kristiansen, Karsten Kudrna, Dave Kulathinal, Rob J. Kumar, Sudhir Kwok, Roberta Lander, Eric Langley, Charles H. Lapoint, Richard Lazzaro, Brian P. Lee, So-Jeong Levesque, Lisa Li, Ruiqiang Lin, Chiao-Feng Lin, Michael F. Lindblad-Toh, Kerstin Llopart, Ana Long, Manyuan Low, Lloyd Lozovsky, Elena Lu, Jian Luo, Meizhong Machado, Carlos A. Makalowski, Wojciech Marzo, Mar Matsuda, Muneo Matzkin, Luciano McAllister, Bryant McBride, Carolyn S. McKernan, Brendan McKernan, Kevin Mendez-Lago, Maria Minx, Patrick Mollenhauer, Michael U. Montooth, Kristi Mount, Stephen M. Mu, Xu Myers, Eugene Negre, Barbara Newfeld, Stuart Nielsen, Rasmus Noor, Mohamed A. F. O'Grady, Patrick Pachter, Lior Papaceit, Montserrat Parisi, Matthew J. Parisi, Michael Parts, Leopold Pedersen, Jakob S. Pesole, Graziano Phillippy, Adam M. Ponting, Chris P. Pop, Mihai Porcelli, Damiano Powell, Jeffrey R. Prohaska, Sonja Pruitt, Kim Puig, Marta Quesneville, Hadi Ram, Kristipati Ravi Rand, David Rasmussen, Matthew D. Reed, Laura K. Reenan, Robert Reily, Amy Remington, Karin A. Rieger, Tania T. Ritchie, Michael G. Robin, Charles Rogers, Yu-Hui Rohde, Claudia Rozas, Julio Rubenfield, Marc J. Ruiz, Alfredo Russo, Susan Salzberg, Steven L. Sanchez-Gracia, Alejandro Saranga, David J. Sato, Hajime Schaeffer, Stephen W. Schatz, Michael C. Schlenke, Todd Schwartz, Russell Segarra, Carmen Singh, Rama S. Sirot, Laura Sirota, Marina Sisneros, Nicholas B. Smith, Chris D. Smith, Temple F. Spieth, John Stage, Deborah E. Stark, Alexander Stephan, Wolfgang Strausberg, Robert L. Strempel, Sebastian Sturgill, David Sutton, Granger Sutton, Granger G. Tao, Wei Teichmann, Sarah Tobari, Yoshiko N. Tomimura, Yoshihiko Tsolas, Jason M. Valente, Vera L. S. Venter, Eli Venter, J. Craig Vicario, Saverio Vieira, Filipe G. Vilella, Albert J. Villasante, Alfredo Walenz, Brian Wang, Jun Wasserman, Marvin Watts, Thomas Wilson, Derek Wilson, Richard K. Wing, Rod A. Wolfner, Mariana F. Wong, Alex Wong, Gane Ka-Shu Wu, Chung-I Wu, Gabriel Yamamoto, Daisuke Yang, Hsiao-Pei Yang, Shiaw-Pyng Yorke, James A. Yoshida, Kiyohito Zdobnov, Evgeny Zhang, Peili Zhang, Yu Zimin, Aleksey V. Baldwin, Jennifer Abdouelleil, Amr Abdulkadir, Jamal Abebe, Adal Abera, Brikti Abreu, Justin Acer, St Christophe Aftuck, Lynne Alexander, Allen An, Peter Anderson, Erica Anderson, Scott Arachi, Harindra Azer, Marc Bachantsang, Pasang Barry, Andrew Bayul, Tashi Berlin, Aaron Bessette, Daniel Bloom, Toby Blye, Jason Boguslavskiy, Leonid Bonnet, Claude Boukhgalter, Boris Bourzgui, Imane Brown, Adam Cahill, Patrick Channer, Sheridon Cheshatsang, Yama Chuda, Lisa Citroen, Mieke Collymore, Alville Cooke, Patrick Costello, Maura D'Aco, Katie Daza, Riza De Haan, Georgius DeGray, Stuart DeMaso, Christina Dhargay, Norbu Dooley, Kimberly Dooley, Erin Doricent, Missole Dorje, Passang Dorjee, Kunsang Dupes, Alan Elong, Richard Falk, Jill Farina, Abderrahim Faro, Susan Ferguson, Diallo Fisher, Sheila Foley, Chelsea D. Franke, Alicia Friedrich, Dennis Gadbois, Loryn Gearin, Gary Gearin, Christina R. Giannoukos, Georgia Goode, Tina Graham, Joseph Grandbois, Edward Grewal, Sharleen Gyaltsen, Kunsang Hafez, Nabil Hagos, Birhane Hall, Jennifer Henson, Charlotte Hollinger, Andrew Honan, Tracey Huard, Monika D. Hughes, Leanne Hurhula, Brian Husby, M. Erii Kamat, Asha Kanga, Ben Kashin, Seva Khazanovich, Dmitry Kisner, Peter Lance, Krista Lara, Marcia Lee, William Lennon, Niall Letendre, Frances LeVine, Rosie Lipovsky, Alex Liu, Xiaohong Liu, Jinlei Liu, Shangtao Lokyitsang, Tashi Lokyitsang, Yeshi Lubonja, Rakela Lui, Annie MacDonald, Pen Magnisalis, Vasilia Maru, Kebede Matthews, Charles McCusker, William McDonough, Susan Mehta, Teena Meldrim, James Meneus, Louis Mihai, Oana Mihalev, Atanas Mihova, Tanya Mittelman, Rachel Mlenga, Valentine Montmayeur, Anna Mulrain, Leonidas Navidi, Adam Naylor, Jerome Negash, Tamrat Nguyen, Thu Nguyen, Nga Nicol, Robert Norbu, Choe Norbu, Nyima Novod, Nathaniel O'Neill, Barry Osman, Sahal Markiewicz, Eva Oyono, Otero L. Patti, Christopher Phunkhang, Pema Pierre, Fritz Priest, Margaret Raghuraman, Sujaa Rege, Filip Reyes, Rebecca Rise, Cecil Rogov, Peter Ross, Keenan Ryan, Elizabeth Settipalli, Sampath Shea, Terry Sherpa, Ngawang Shi, Lu Shih, Diana Sparrow, Todd Spaulding, Jessica Stalker, John Stange-Thomann, Nicole Stavropoulos, Sharon Stone, Catherine Strader, Christopher Tesfaye, Senait Thomson, Talene Thoulutsang, Yama Thoulutsang, Dawa Topham, Kerri Topping, Ira Tsamla, Tsamla Vassiliev, Helen Vo, Andy Wangchuk, Tsering Wangdi, Tsering Weiand, Michael Wilkinson, Jane Wilson, Adam Yadav, Shailendra Young, Geneva Yu, Qing Zembek, Lisa Zhong, Danni Zimmer, Andrew Zwirko, Zac Alvarez, Pablo Brockman, Will Butler, Jonathan Chin, CheeWhye Grabherr, Manfred Kleber, Michael Mauceli, Evan MacCallum, Iain
Publication Year :
2007
Abstract
Comparative analysis of multiple genomes in a phylogenetic framework dramatically improves the precision and sensitivity of evolutionary inference, producing more robust results than single-genome analyses can provide. The genomes of 12 Drosophila species, ten of which are presented here for the first time (sechellia, simulans, yakuba, erecta, ananassae, persimilis, willistoni, mojavensis, virilis and grimshawi), illustrate how rates and patterns of sequence divergence across taxa can illuminate evolutionary processes on a genomic scale. These genome sequences augment the formidable genetic tools that have made Drosophila melanogaster a pre-eminent model for animal genetics, and will further catalyse fundamental research on mechanisms of development, cell biology, genetics, disease, neurobiology, behaviour, physiology and evolution. Despite remarkable similarities among these Drosophila species, we identified many putatively non-neutral changes in protein-coding genes, non-coding RNA genes, and cis-regulatory regions. These may prove to underlie differences in the ecology and behaviour of these diverse species.
Details
Database :
OAIster
Notes :
English
Publication Type :
Electronic Resource
Accession number :
edsoai.on1235183756
Document Type :
Electronic Resource
Full Text :
https://doi.org/10.1038.nature06341