Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences

Tarjei S. Mikkelsen, Matthew J. Wakefield, Bronwen Aken, Chris T. Amemiya, Jean L. Chang, Shannon Duke, Manuel Garber, Andrew J. Gentles, Leo Goodstadt, Andreas Heger, Jerzy Jurka, Michael Kamal, Evan Mauceli, Stephen M J Searle, Ted Sharpe, Michelle L. Baker, Mark A. Batzer, Panayiotis V. Benos, Katherine Belov, Michele ClampApril Cook, James Cuff, Radhika Das, Lance Davidow, Janine E. Deakin, Melissa J. Fazzari, Jacob L. Glass, Manfred Grabherr, John M. Greally, Wanjun Gu, Timothy A. Hore, Gavin A. Huttley, Michael Kleber, Randy L. Jirtle, Edda Koina, Jeannie T. Lee, Shaun Mahony, Marco A. Marra, Robert D. Miller, Robert D. Nicholls, Mayumi Oda, Anthony T. Papenfuss, Zuly E. Parra, David D. Pollock, David A. Ray, Jacqueline E. Schein, Terence P. Speed, Katherine Thompson, John L. VandeBerg, Claire M. Wade, Jerilyn A. Walker, Paul D. Waters, Caleb Webber, Jennifer R. Weidman, Xiaohui Xie, Michael C. Zody, Jennifer Baldwin, Amr Abdouelleil, Jamal Abdulkadir, Adal Abebe, Brikti Abera, Justin Abreu, St Christophe Acer, Lynne Aftuck, Allen Alexander, Peter An, Erica Anderson, Scott Anderson, Harindra Arachi, Marc Azer, Pasang Bachantsang, Andrew Barry, Tashi Bayul, Aaron Berlin, Daniel Bessette, Toby Bloom, Jason Blye, Leonid Boguslavskiy, Claude Bonnet, Boris Boukhgalter, Imane Bourzgui, Adam Brown, Patrick Cahill, Sheridon Channer, Yama Cheshatsang, Lisa Chuda, Mieke Citroen, Alville Collymore, Patrick Cooke, Maura Costello, Katie D'Aco, Riza Daza, Georgius De Haan, Stuart DeGray, Christina DeMaso, Norbu Dhargay, Kimberly Dooley, Erin Dooley, Missole Doricent, Passang Dorje, Kunsang Dorjee, Alan Dupes, Richard Elong, Jill Falk, Abderrahim Farina, Susan Faro, Diallo Ferguson, Sheila Fisher, Chelsea D. Foley, Alicia Franke, Dennis Friedrich, Loryn Gadbois, Gary Gearin, Christina R. Gearin, Georgia Giannoukos, Tina Goode, Joseph Graham, Edward Grandbois, Sharleen Grewal, Kunsang Gyaltsen, Nabil Hafez, Birhane Hagos, Jennifer Hall, Charlotte Henson, Andrew Hollinger, Tracey Honan, Monika D. Huard, Leanne Hughes, Brian Hurhula, M. Erii Husby, Asha Kamat, Ben Kanga, Seva Kashin, Dmitry Khazanovich, Peter Kisner, Krista Lance, Marcia Lara, William Lee, Niall Lennon, Frances Letendre, Rosie LeVine, Alex Lipovsky, Xiaohong Liu, Jinlei Liu, Shangtao Liu, Tashi Lokyitsang, Yeshi Lokyitsang, Rakela Lubonja, Annie Lui, Pen MacDonald, Vasilia Magnisalis, Kebede Maru, Charles Matthews, William McCusker, Susan McDonough, Teena Mehta, James Meldrim, Louis Meneus, Oana Mihai, Atanas Mihalev, Tanya Mihova, Rachel Mittelman, Valentine Mlenga, Anna Montmayeur, Leonidas Mulrain, Adam Navidi, Jerome Naylor, Tamrat Negash, Thu Nguyen, Nga Nguyen, Robert Nicol, Choe Norbu, Nyima Norbu, Nathaniel Novod, Barry O'Neill, Sahal Osman, Eva Markiewicz, Otero L. Oyono, Christopher Patti, Pema Phunkhang, Fritz Pierre, Margaret Priest, Sujaa Raghuraman, Filip Rege, Rebecca Reyes, Cecil Rise, Peter Rogov, Keenan Ross, Elizabeth Ryan, Sampath Settipalli, Terry Shea, Ngawang Sherpa, Lu Shi, Diana Shih, Todd Sparrow, Jessica Spaulding, John Stalker, Nicole Stange-Thomann, Sharon Stavropoulos, Catherine Stone, Christopher Strader, Senait Tesfaye, Talene Thomson, Yama Thoulutsang, Dawa Thoulutsang, Kerri Topham, Ira Topping, Tsamla Tsamla, Helen Vassiliev, Andy Vo, Tsering Wangchuk, Tsering Wangdi, Michael Weiand, Jane Wilkinson, Adam Wilson, Shailendra Yadav, Geneva Young, Qing Yu, Lisa Zembek, Danni Zhong, Andrew Zimmer, Zac Zwirko, David B. Jaffe, Pablo Alvarez, Will Brockman, Jonathan Butler, CheeWhye Chin, Sante Gnerre, Iain MacCallum, Jennifer A Marshall Graves, Chris P. Ponting, Matthew Breen, Paul B. Samollow, Eric S. Lander, Kerstin Lindblad-Toh

研究成果: Article

492 引用 (Scopus)

抄録

We report a high-quality draft of the genome sequence of the grey, short-tailed opossum (Monodelphis domestica). As the first metatherian ('marsupial') species to be sequenced, the opossum provides a unique perspective on the organization and evolution of mammalian genomes. Distinctive features of the opossum chromosomes provide support for recent theories about genome evolution and function, including a strong influence of biased gene conversion on nucleotide sequence composition, and a relationship between chromosomal characteristics and X chromosome inactivation. Comparison of opossum and eutherian genomes also reveals a sharp difference in evolutionary innovation between protein-coding and non-coding functional elements. True innovation in protein-coding genes seems to be relatively rare, with lineage-specific differences being largely due to diversification and rapid turnover in gene families involved in environmental interactions. In contrast, about 20% of eutherian conserved non-coding elements (CNEs) are recent inventions that postdate the divergence of Eutheria and Metatheria. A substantial proportion of these eutherian-specific CNEs arose from sequence inserted by transposable elements, pointing to transposons as a major creative force in the evolution of mammalian gene regulation.

元の言語English
ページ(範囲)167-177
ページ数11
ジャーナルNature
447
発行部数7141
DOI
出版物ステータスPublished - 2007 5 10
外部発表Yes

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Monodelphis
Marsupialia
Opossums
Genome
X Chromosome Inactivation
Gene Conversion
DNA Transposable Elements
Genes
Proteins
Chromosomes

ASJC Scopus subject areas

  • General

これを引用

Mikkelsen, T. S., Wakefield, M. J., Aken, B., Amemiya, C. T., Chang, J. L., Duke, S., ... Lindblad-Toh, K. (2007). Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences. Nature, 447(7141), 167-177. https://doi.org/10.1038/nature05805

Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences. / Mikkelsen, Tarjei S.; Wakefield, Matthew J.; Aken, Bronwen; Amemiya, Chris T.; Chang, Jean L.; Duke, Shannon; Garber, Manuel; Gentles, Andrew J.; Goodstadt, Leo; Heger, Andreas; Jurka, Jerzy; Kamal, Michael; Mauceli, Evan; Searle, Stephen M J; Sharpe, Ted; Baker, Michelle L.; Batzer, Mark A.; Benos, Panayiotis V.; Belov, Katherine; Clamp, Michele; Cook, April; Cuff, James; Das, Radhika; Davidow, Lance; Deakin, Janine E.; Fazzari, Melissa J.; Glass, Jacob L.; Grabherr, Manfred; Greally, John M.; Gu, Wanjun; Hore, Timothy A.; Huttley, Gavin A.; Kleber, Michael; Jirtle, Randy L.; Koina, Edda; Lee, Jeannie T.; Mahony, Shaun; Marra, Marco A.; Miller, Robert D.; Nicholls, Robert D.; Oda, Mayumi; Papenfuss, Anthony T.; Parra, Zuly E.; Pollock, David D.; Ray, David A.; Schein, Jacqueline E.; Speed, Terence P.; Thompson, Katherine; VandeBerg, John L.; Wade, Claire M.; Walker, Jerilyn A.; Waters, Paul D.; Webber, Caleb; Weidman, Jennifer R.; Xie, Xiaohui; Zody, Michael C.; 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; Jaffe, David B.; Alvarez, Pablo; Brockman, Will; Butler, Jonathan; Chin, CheeWhye; Gnerre, Sante; MacCallum, Iain; Graves, Jennifer A Marshall; Ponting, Chris P.; Breen, Matthew; Samollow, Paul B.; Lander, Eric S.; Lindblad-Toh, Kerstin.

:: Nature, 巻 447, 番号 7141, 10.05.2007, p. 167-177.

研究成果: Article

Mikkelsen, TS, Wakefield, MJ, Aken, B, Amemiya, CT, Chang, JL, Duke, S, Garber, M, Gentles, AJ, Goodstadt, L, Heger, A, Jurka, J, Kamal, M, Mauceli, E, Searle, SMJ, Sharpe, T, Baker, ML, Batzer, MA, Benos, PV, Belov, K, Clamp, M, Cook, A, Cuff, J, Das, R, Davidow, L, Deakin, JE, Fazzari, MJ, Glass, JL, Grabherr, M, Greally, JM, Gu, W, Hore, TA, Huttley, GA, Kleber, M, Jirtle, RL, Koina, E, Lee, JT, Mahony, S, Marra, MA, Miller, RD, Nicholls, RD, Oda, M, Papenfuss, AT, Parra, ZE, Pollock, DD, Ray, DA, Schein, JE, Speed, TP, Thompson, K, VandeBerg, JL, Wade, CM, Walker, JA, Waters, PD, Webber, C, Weidman, JR, Xie, X, Zody, MC, Baldwin, J, Abdouelleil, A, Abdulkadir, J, Abebe, A, Abera, B, Abreu, J, Acer, SC, Aftuck, L, Alexander, A, An, P, Anderson, E, Anderson, S, Arachi, H, Azer, M, Bachantsang, P, Barry, A, Bayul, T, Berlin, A, Bessette, D, Bloom, T, Blye, J, Boguslavskiy, L, Bonnet, C, Boukhgalter, B, Bourzgui, I, Brown, A, Cahill, P, Channer, S, Cheshatsang, Y, Chuda, L, Citroen, M, Collymore, A, Cooke, P, Costello, M, D'Aco, K, Daza, R, De Haan, G, DeGray, S, DeMaso, C, Dhargay, N, Dooley, K, Dooley, E, Doricent, M, Dorje, P, Dorjee, K, Dupes, A, Elong, R, Falk, J, Farina, A, Faro, S, Ferguson, D, Fisher, S, Foley, CD, Franke, A, Friedrich, D, Gadbois, L, Gearin, G, Gearin, CR, Giannoukos, G, Goode, T, Graham, J, Grandbois, E, Grewal, S, Gyaltsen, K, Hafez, N, Hagos, B, Hall, J, Henson, C, Hollinger, A, Honan, T, Huard, MD, Hughes, L, Hurhula, B, Husby, ME, Kamat, A, Kanga, B, Kashin, S, Khazanovich, D, Kisner, P, Lance, K, Lara, M, Lee, W, Lennon, N, Letendre, F, LeVine, R, Lipovsky, A, Liu, X, Liu, J, Liu, S, Lokyitsang, T, Lokyitsang, Y, Lubonja, R, Lui, A, MacDonald, P, Magnisalis, V, Maru, K, Matthews, C, McCusker, W, McDonough, S, Mehta, T, Meldrim, J, Meneus, L, Mihai, O, Mihalev, A, Mihova, T, Mittelman, R, Mlenga, V, Montmayeur, A, Mulrain, L, Navidi, A, Naylor, J, Negash, T, Nguyen, T, Nguyen, N, Nicol, R, Norbu, C, Norbu, N, Novod, N, O'Neill, B, Osman, S, Markiewicz, E, Oyono, OL, Patti, C, Phunkhang, P, Pierre, F, Priest, M, Raghuraman, S, Rege, F, Reyes, R, Rise, C, Rogov, P, Ross, K, Ryan, E, Settipalli, S, Shea, T, Sherpa, N, Shi, L, Shih, D, Sparrow, T, Spaulding, J, Stalker, J, Stange-Thomann, N, Stavropoulos, S, Stone, C, Strader, C, Tesfaye, S, Thomson, T, Thoulutsang, Y, Thoulutsang, D, Topham, K, Topping, I, Tsamla, T, Vassiliev, H, Vo, A, Wangchuk, T, Wangdi, T, Weiand, M, Wilkinson, J, Wilson, A, Yadav, S, Young, G, Yu, Q, Zembek, L, Zhong, D, Zimmer, A, Zwirko, Z, Jaffe, DB, Alvarez, P, Brockman, W, Butler, J, Chin, C, Gnerre, S, MacCallum, I, Graves, JAM, Ponting, CP, Breen, M, Samollow, PB, Lander, ES & Lindblad-Toh, K 2007, 'Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences', Nature, 巻. 447, 番号 7141, pp. 167-177. https://doi.org/10.1038/nature05805
Mikkelsen TS, Wakefield MJ, Aken B, Amemiya CT, Chang JL, Duke S その他. Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences. Nature. 2007 5 10;447(7141):167-177. https://doi.org/10.1038/nature05805
Mikkelsen, Tarjei S. ; Wakefield, Matthew J. ; Aken, Bronwen ; Amemiya, Chris T. ; Chang, Jean L. ; Duke, Shannon ; Garber, Manuel ; Gentles, Andrew J. ; Goodstadt, Leo ; Heger, Andreas ; Jurka, Jerzy ; Kamal, Michael ; Mauceli, Evan ; Searle, Stephen M J ; Sharpe, Ted ; Baker, Michelle L. ; Batzer, Mark A. ; Benos, Panayiotis V. ; Belov, Katherine ; Clamp, Michele ; Cook, April ; Cuff, James ; Das, Radhika ; Davidow, Lance ; Deakin, Janine E. ; Fazzari, Melissa J. ; Glass, Jacob L. ; Grabherr, Manfred ; Greally, John M. ; Gu, Wanjun ; Hore, Timothy A. ; Huttley, Gavin A. ; Kleber, Michael ; Jirtle, Randy L. ; Koina, Edda ; Lee, Jeannie T. ; Mahony, Shaun ; Marra, Marco A. ; Miller, Robert D. ; Nicholls, Robert D. ; Oda, Mayumi ; Papenfuss, Anthony T. ; Parra, Zuly E. ; Pollock, David D. ; Ray, David A. ; Schein, Jacqueline E. ; Speed, Terence P. ; Thompson, Katherine ; VandeBerg, John L. ; Wade, Claire M. ; Walker, Jerilyn A. ; Waters, Paul D. ; Webber, Caleb ; Weidman, Jennifer R. ; Xie, Xiaohui ; Zody, Michael C. ; 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 ; Jaffe, David B. ; Alvarez, Pablo ; Brockman, Will ; Butler, Jonathan ; Chin, CheeWhye ; Gnerre, Sante ; MacCallum, Iain ; Graves, Jennifer A Marshall ; Ponting, Chris P. ; Breen, Matthew ; Samollow, Paul B. ; Lander, Eric S. ; Lindblad-Toh, Kerstin. / Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences. :: Nature. 2007 ; 巻 447, 番号 7141. pp. 167-177.
@article{0eb76c81c8da4ae68e7ecf5de1fb022e,
title = "Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences",
abstract = "We report a high-quality draft of the genome sequence of the grey, short-tailed opossum (Monodelphis domestica). As the first metatherian ('marsupial') species to be sequenced, the opossum provides a unique perspective on the organization and evolution of mammalian genomes. Distinctive features of the opossum chromosomes provide support for recent theories about genome evolution and function, including a strong influence of biased gene conversion on nucleotide sequence composition, and a relationship between chromosomal characteristics and X chromosome inactivation. Comparison of opossum and eutherian genomes also reveals a sharp difference in evolutionary innovation between protein-coding and non-coding functional elements. True innovation in protein-coding genes seems to be relatively rare, with lineage-specific differences being largely due to diversification and rapid turnover in gene families involved in environmental interactions. In contrast, about 20{\%} of eutherian conserved non-coding elements (CNEs) are recent inventions that postdate the divergence of Eutheria and Metatheria. A substantial proportion of these eutherian-specific CNEs arose from sequence inserted by transposable elements, pointing to transposons as a major creative force in the evolution of mammalian gene regulation.",
author = "Mikkelsen, {Tarjei S.} and Wakefield, {Matthew J.} and Bronwen Aken and Amemiya, {Chris T.} and Chang, {Jean L.} and Shannon Duke and Manuel Garber and Gentles, {Andrew J.} and Leo Goodstadt and Andreas Heger and Jerzy Jurka and Michael Kamal and Evan Mauceli and Searle, {Stephen M J} and Ted Sharpe and Baker, {Michelle L.} and Batzer, {Mark A.} and Benos, {Panayiotis V.} and Katherine Belov and Michele Clamp and April Cook and James Cuff and Radhika Das and Lance Davidow and Deakin, {Janine E.} and Fazzari, {Melissa J.} and Glass, {Jacob L.} and Manfred Grabherr and Greally, {John M.} and Wanjun Gu and Hore, {Timothy A.} and Huttley, {Gavin A.} and Michael Kleber and Jirtle, {Randy L.} and Edda Koina and Lee, {Jeannie T.} and Shaun Mahony and Marra, {Marco A.} and Miller, {Robert D.} and Nicholls, {Robert D.} and Mayumi Oda and Papenfuss, {Anthony T.} and Parra, {Zuly E.} and Pollock, {David D.} and Ray, {David A.} and Schein, {Jacqueline E.} and Speed, {Terence P.} and Katherine Thompson and VandeBerg, {John L.} and Wade, {Claire M.} and Walker, {Jerilyn A.} and Waters, {Paul D.} and Caleb Webber and Weidman, {Jennifer R.} and Xiaohui Xie and Zody, {Michael C.} and Jennifer Baldwin and Amr Abdouelleil and Jamal Abdulkadir and Adal Abebe and Brikti Abera and Justin Abreu and Acer, {St Christophe} and Lynne Aftuck and Allen Alexander and Peter An and Erica Anderson and Scott Anderson and Harindra Arachi and Marc Azer and Pasang Bachantsang and Andrew Barry and Tashi Bayul and Aaron Berlin and Daniel Bessette and Toby Bloom and Jason Blye and Leonid Boguslavskiy and Claude Bonnet and Boris Boukhgalter and Imane Bourzgui and Adam Brown and Patrick Cahill and Sheridon Channer and Yama Cheshatsang and Lisa Chuda and Mieke Citroen and Alville Collymore and Patrick Cooke and Maura Costello and Katie D'Aco and Riza Daza and {De Haan}, Georgius and Stuart DeGray and Christina DeMaso and Norbu Dhargay and Kimberly Dooley and Erin Dooley and Missole Doricent and Passang Dorje and Kunsang Dorjee and Alan Dupes and Richard Elong and Jill Falk and Abderrahim Farina and Susan Faro and Diallo Ferguson and Sheila Fisher and Foley, {Chelsea D.} and Alicia Franke and Dennis Friedrich and Loryn Gadbois and Gary Gearin and Gearin, {Christina R.} and Georgia Giannoukos and Tina Goode and Joseph Graham and Edward Grandbois and Sharleen Grewal and Kunsang Gyaltsen and Nabil Hafez and Birhane Hagos and Jennifer Hall and Charlotte Henson and Andrew Hollinger and Tracey Honan and Huard, {Monika D.} and Leanne Hughes and Brian Hurhula and Husby, {M. Erii} and Asha Kamat and Ben Kanga and Seva Kashin and Dmitry Khazanovich and Peter Kisner and Krista Lance and Marcia Lara and William Lee and Niall Lennon and Frances Letendre and Rosie LeVine and Alex Lipovsky and Xiaohong Liu and Jinlei Liu and Shangtao Liu and Tashi Lokyitsang and Yeshi Lokyitsang and Rakela Lubonja and Annie Lui and Pen MacDonald and Vasilia Magnisalis and Kebede Maru and Charles Matthews and William McCusker and Susan McDonough and Teena Mehta and James Meldrim and Louis Meneus and Oana Mihai and Atanas Mihalev and Tanya Mihova and Rachel Mittelman and Valentine Mlenga and Anna Montmayeur and Leonidas Mulrain and Adam Navidi and Jerome Naylor and Tamrat Negash and Thu Nguyen and Nga Nguyen and Robert Nicol and Choe Norbu and Nyima Norbu and Nathaniel Novod and Barry O'Neill and Sahal Osman and Eva Markiewicz and Oyono, {Otero L.} and Christopher Patti and Pema Phunkhang and Fritz Pierre and Margaret Priest and Sujaa Raghuraman and Filip Rege and Rebecca Reyes and Cecil Rise and Peter Rogov and Keenan Ross and Elizabeth Ryan and Sampath Settipalli and Terry Shea and Ngawang Sherpa and Lu Shi and Diana Shih and Todd Sparrow and Jessica Spaulding and John Stalker and Nicole Stange-Thomann and Sharon Stavropoulos and Catherine Stone and Christopher Strader and Senait Tesfaye and Talene Thomson and Yama Thoulutsang and Dawa Thoulutsang and Kerri Topham and Ira Topping and Tsamla Tsamla and Helen Vassiliev and Andy Vo and Tsering Wangchuk and Tsering Wangdi and Michael Weiand and Jane Wilkinson and Adam Wilson and Shailendra Yadav and Geneva Young and Qing Yu and Lisa Zembek and Danni Zhong and Andrew Zimmer and Zac Zwirko and Jaffe, {David B.} and Pablo Alvarez and Will Brockman and Jonathan Butler and CheeWhye Chin and Sante Gnerre and Iain MacCallum and Graves, {Jennifer A Marshall} and Ponting, {Chris P.} and Matthew Breen and Samollow, {Paul B.} and Lander, {Eric S.} and Kerstin Lindblad-Toh",
year = "2007",
month = "5",
day = "10",
doi = "10.1038/nature05805",
language = "English",
volume = "447",
pages = "167--177",
journal = "Nature Cell Biology",
issn = "1465-7392",
publisher = "Nature Publishing Group",
number = "7141",

}

TY - JOUR

T1 - Genome of the marsupial Monodelphis domestica reveals innovation in non-coding sequences

AU - Mikkelsen, Tarjei S.

AU - Wakefield, Matthew J.

AU - Aken, Bronwen

AU - Amemiya, Chris T.

AU - Chang, Jean L.

AU - Duke, Shannon

AU - Garber, Manuel

AU - Gentles, Andrew J.

AU - Goodstadt, Leo

AU - Heger, Andreas

AU - Jurka, Jerzy

AU - Kamal, Michael

AU - Mauceli, Evan

AU - Searle, Stephen M J

AU - Sharpe, Ted

AU - Baker, Michelle L.

AU - Batzer, Mark A.

AU - Benos, Panayiotis V.

AU - Belov, Katherine

AU - Clamp, Michele

AU - Cook, April

AU - Cuff, James

AU - Das, Radhika

AU - Davidow, Lance

AU - Deakin, Janine E.

AU - Fazzari, Melissa J.

AU - Glass, Jacob L.

AU - Grabherr, Manfred

AU - Greally, John M.

AU - Gu, Wanjun

AU - Hore, Timothy A.

AU - Huttley, Gavin A.

AU - Kleber, Michael

AU - Jirtle, Randy L.

AU - Koina, Edda

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AU - Wilson, Adam

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AU - Lindblad-Toh, Kerstin

PY - 2007/5/10

Y1 - 2007/5/10

N2 - We report a high-quality draft of the genome sequence of the grey, short-tailed opossum (Monodelphis domestica). As the first metatherian ('marsupial') species to be sequenced, the opossum provides a unique perspective on the organization and evolution of mammalian genomes. Distinctive features of the opossum chromosomes provide support for recent theories about genome evolution and function, including a strong influence of biased gene conversion on nucleotide sequence composition, and a relationship between chromosomal characteristics and X chromosome inactivation. Comparison of opossum and eutherian genomes also reveals a sharp difference in evolutionary innovation between protein-coding and non-coding functional elements. True innovation in protein-coding genes seems to be relatively rare, with lineage-specific differences being largely due to diversification and rapid turnover in gene families involved in environmental interactions. In contrast, about 20% of eutherian conserved non-coding elements (CNEs) are recent inventions that postdate the divergence of Eutheria and Metatheria. A substantial proportion of these eutherian-specific CNEs arose from sequence inserted by transposable elements, pointing to transposons as a major creative force in the evolution of mammalian gene regulation.

AB - We report a high-quality draft of the genome sequence of the grey, short-tailed opossum (Monodelphis domestica). As the first metatherian ('marsupial') species to be sequenced, the opossum provides a unique perspective on the organization and evolution of mammalian genomes. Distinctive features of the opossum chromosomes provide support for recent theories about genome evolution and function, including a strong influence of biased gene conversion on nucleotide sequence composition, and a relationship between chromosomal characteristics and X chromosome inactivation. Comparison of opossum and eutherian genomes also reveals a sharp difference in evolutionary innovation between protein-coding and non-coding functional elements. True innovation in protein-coding genes seems to be relatively rare, with lineage-specific differences being largely due to diversification and rapid turnover in gene families involved in environmental interactions. In contrast, about 20% of eutherian conserved non-coding elements (CNEs) are recent inventions that postdate the divergence of Eutheria and Metatheria. A substantial proportion of these eutherian-specific CNEs arose from sequence inserted by transposable elements, pointing to transposons as a major creative force in the evolution of mammalian gene regulation.

UR - http://www.scopus.com/inward/record.url?scp=34248576291&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=34248576291&partnerID=8YFLogxK

U2 - 10.1038/nature05805

DO - 10.1038/nature05805

M3 - Article

C2 - 17495919

AN - SCOPUS:34248576291

VL - 447

SP - 167

EP - 177

JO - Nature Cell Biology

JF - Nature Cell Biology

SN - 1465-7392

IS - 7141

ER -