Abstract
Gibbons are small arboreal apes that display an accelerated rate of evolutionary chromosomal rearrangement and occupy a key node in the primate phylogeny between Old World monkeys and great apes. Here we present the assembly and analysis of a northern white-cheeked gibbon (Nomascus leucogenys) genome. We describe the propensity for a gibbon-specific retrotransposon (LAVA) to insert into chromosome segregation genes and alter transcription by providing a premature termination site, suggesting a possible molecular mechanism for the genome plasticity of the gibbon lineage. We further show that the gibbon genera (Nomascus, Hylobates, Hoolock and Symphalangus) experienced a near-instantaneous radiation ∼5 million years ago, coincident with major geographical changes in southeast Asia that caused cycles of habitat compression and expansion. Finally, we identify signatures of positive selection in genes important for forelimb development (TBX5) and connective tissues (COL1A1) that may have been involved in the adaptation of gibbons to their arboreal habitat.
| Original language | English (US) |
|---|---|
| Pages (from-to) | 195-201 |
| Number of pages | 7 |
| Journal | Nature |
| Volume | 513 |
| Issue number | 7517 |
| DOIs | |
| State | Published - Sep 11 2014 |
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Cite this
Gibbon genome and the fast karyotype evolution of small apes. / Carbone, Lucia; Alan Harris, R.; Gnerre, Sante; Veeramah, Krishna R.; Lorente-Galdos, Belen; Huddleston, John; Meyer, Thomas J.; Herrero, Javier; Roos, Christian; Aken, Bronwen; Anaclerio, Fabio; Archidiacono, Nicoletta; Baker, Carl; Barrell, Daniel; Batzer, Mark A.; Beal, Kathryn; Blancher, Antoine; Bohrson, Craig L.; Brameier, Markus; Campbell, Michael S.; Capozzi, Oronzo; Casola, Claudio; Chiatante, Giorgia; Cree, Andrew; Damert, Annette; De Jong, Pieter J.; Dumas, Laura; Fernandez-Callejo, Marcos; Flicek, Paul; Fuchs, Nina V.; Gut, Ivo; Gut, Marta; Hahn, Matthew W.; Hernandez-Rodriguez, Jessica; Hillier, Ladeana W.; Hubley, Robert; Ianc, Bianca; Izsvák, Zsuzsanna; Jablonski, Nina G.; Johnstone, Laurel M.; Karimpour-Fard, Anis; Konkel, Miriam K.; Kostka, Dennis; Lazar, Nathan H.; Lee, Sandra L.; Lewis, Lora R.; Liu, Yue; Locke, Devin P.; Mallick, Swapan; Mendez, Fernando L.; Muffato, Matthieu; Nazareth, Lynne V.; Nevonen, Kimberly A.; O'Bleness, Majesta; Ochis, Cornelia; Odom, Duncan T.; Pollard, Katherine S.; Quilez, Javier; Reich, David; Rocchi, Mariano; Schumann, Gerald G.; Searle, Stephen; Sikela, James M.; Skollar, Gabriella; Smit, Arian; Sonmez, Mustafa (Kemal); Ten Hallers, Boudewijn; Terhune, Elizabeth; Thomas, Gregg W C; Ullmer, Brygg; Ventura, Mario; Walker, Jerilyn A.; Wall, Jeffrey D.; Walter, Lutz; Ward, Michelle C.; Wheelan, Sarah J.; Whelan, Christopher W.; White, Simon; Wilhelm, Larry J.; Woerner, August E.; Yandell, Mark; Zhu, Baoli; Hammer, Michael F.; Marques-Bonet, Tomas; Eichler, Evan E.; Fulton, Lucinda; Fronick, Catrina; Muzny, Donna M.; Warren, Wesley C.; Worley, Kim C.; Rogers, Jeffrey; Wilson, Richard K.; Gibbs, Richard A.
In: Nature, Vol. 513, No. 7517, 11.09.2014, p. 195-201.Research output: Contribution to journal › Article
}
TY - JOUR
T1 - Gibbon genome and the fast karyotype evolution of small apes
AU - Carbone, Lucia
AU - Alan Harris, R.
AU - Gnerre, Sante
AU - Veeramah, Krishna R.
AU - Lorente-Galdos, Belen
AU - Huddleston, John
AU - Meyer, Thomas J.
AU - Herrero, Javier
AU - Roos, Christian
AU - Aken, Bronwen
AU - Anaclerio, Fabio
AU - Archidiacono, Nicoletta
AU - Baker, Carl
AU - Barrell, Daniel
AU - Batzer, Mark A.
AU - Beal, Kathryn
AU - Blancher, Antoine
AU - Bohrson, Craig L.
AU - Brameier, Markus
AU - Campbell, Michael S.
AU - Capozzi, Oronzo
AU - Casola, Claudio
AU - Chiatante, Giorgia
AU - Cree, Andrew
AU - Damert, Annette
AU - De Jong, Pieter J.
AU - Dumas, Laura
AU - Fernandez-Callejo, Marcos
AU - Flicek, Paul
AU - Fuchs, Nina V.
AU - Gut, Ivo
AU - Gut, Marta
AU - Hahn, Matthew W.
AU - Hernandez-Rodriguez, Jessica
AU - Hillier, Ladeana W.
AU - Hubley, Robert
AU - Ianc, Bianca
AU - Izsvák, Zsuzsanna
AU - Jablonski, Nina G.
AU - Johnstone, Laurel M.
AU - Karimpour-Fard, Anis
AU - Konkel, Miriam K.
AU - Kostka, Dennis
AU - Lazar, Nathan H.
AU - Lee, Sandra L.
AU - Lewis, Lora R.
AU - Liu, Yue
AU - Locke, Devin P.
AU - Mallick, Swapan
AU - Mendez, Fernando L.
AU - Muffato, Matthieu
AU - Nazareth, Lynne V.
AU - Nevonen, Kimberly A.
AU - O'Bleness, Majesta
AU - Ochis, Cornelia
AU - Odom, Duncan T.
AU - Pollard, Katherine S.
AU - Quilez, Javier
AU - Reich, David
AU - Rocchi, Mariano
AU - Schumann, Gerald G.
AU - Searle, Stephen
AU - Sikela, James M.
AU - Skollar, Gabriella
AU - Smit, Arian
AU - Sonmez, Mustafa (Kemal)
AU - Ten Hallers, Boudewijn
AU - Terhune, Elizabeth
AU - Thomas, Gregg W C
AU - Ullmer, Brygg
AU - Ventura, Mario
AU - Walker, Jerilyn A.
AU - Wall, Jeffrey D.
AU - Walter, Lutz
AU - Ward, Michelle C.
AU - Wheelan, Sarah J.
AU - Whelan, Christopher W.
AU - White, Simon
AU - Wilhelm, Larry J.
AU - Woerner, August E.
AU - Yandell, Mark
AU - Zhu, Baoli
AU - Hammer, Michael F.
AU - Marques-Bonet, Tomas
AU - Eichler, Evan E.
AU - Fulton, Lucinda
AU - Fronick, Catrina
AU - Muzny, Donna M.
AU - Warren, Wesley C.
AU - Worley, Kim C.
AU - Rogers, Jeffrey
AU - Wilson, Richard K.
AU - Gibbs, Richard A.
PY - 2014/9/11
Y1 - 2014/9/11
N2 - Gibbons are small arboreal apes that display an accelerated rate of evolutionary chromosomal rearrangement and occupy a key node in the primate phylogeny between Old World monkeys and great apes. Here we present the assembly and analysis of a northern white-cheeked gibbon (Nomascus leucogenys) genome. We describe the propensity for a gibbon-specific retrotransposon (LAVA) to insert into chromosome segregation genes and alter transcription by providing a premature termination site, suggesting a possible molecular mechanism for the genome plasticity of the gibbon lineage. We further show that the gibbon genera (Nomascus, Hylobates, Hoolock and Symphalangus) experienced a near-instantaneous radiation ∼5 million years ago, coincident with major geographical changes in southeast Asia that caused cycles of habitat compression and expansion. Finally, we identify signatures of positive selection in genes important for forelimb development (TBX5) and connective tissues (COL1A1) that may have been involved in the adaptation of gibbons to their arboreal habitat.
AB - Gibbons are small arboreal apes that display an accelerated rate of evolutionary chromosomal rearrangement and occupy a key node in the primate phylogeny between Old World monkeys and great apes. Here we present the assembly and analysis of a northern white-cheeked gibbon (Nomascus leucogenys) genome. We describe the propensity for a gibbon-specific retrotransposon (LAVA) to insert into chromosome segregation genes and alter transcription by providing a premature termination site, suggesting a possible molecular mechanism for the genome plasticity of the gibbon lineage. We further show that the gibbon genera (Nomascus, Hylobates, Hoolock and Symphalangus) experienced a near-instantaneous radiation ∼5 million years ago, coincident with major geographical changes in southeast Asia that caused cycles of habitat compression and expansion. Finally, we identify signatures of positive selection in genes important for forelimb development (TBX5) and connective tissues (COL1A1) that may have been involved in the adaptation of gibbons to their arboreal habitat.
UR - http://www.scopus.com/inward/record.url?scp=84907284157&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=84907284157&partnerID=8YFLogxK
U2 - 10.1038/nature13679
DO - 10.1038/nature13679
M3 - Article
C2 - 25209798
AN - SCOPUS:84907284157
VL - 513
SP - 195
EP - 201
JO - Nature
JF - Nature
SN - 0028-0836
IS - 7517
ER -