Back to Search Start Over

Genome evolution in the allotetraploid frog Xenopus laevis.

Authors :
Uno, Yoshinobu
Uno, Yoshinobu
Kwon, Taejoon
Chapman, Jarrod
Toyoda, Atsushi
Takahashi, Shuji
Fukui, Akimasa
Hikosaka, Akira
Suzuki, Atsushi
Kondo, Mariko
van Heeringen, Simon
Quigley, Ian
Ogino, Hajime
Ochi, Haruki
Hellsten, Uffe
Lyons, Jessica
Simakov, Oleg
Putnam, Nicholas
Stites, Jonathan
Kuroki, Yoko
Tanaka, Toshiaki
Michiue, Tatsuo
Watanabe, Minoru
Bogdanovic, Ozren
Lister, Ryan
Georgiou, Georgios
Paranjpe, Sarita
van Kruijsbergen, Ila
Shu, Shengquiang
Miller, Kelly
Haudenschild, Christian
Kitzman, Jacob
Nakayama, Takuya
Izutsu, Yumi
Robert, Jacques
Fortriede, Joshua
Burns, Kevin
Lotay, Vaneet
Karimi, Kamran
Yasuoka, Yuuri
Dichmann, Darwin
Flajnik, Martin
Houston, Douglas
Shendure, Jay
DuPasquier, Louis
Vize, Peter
Zorn, Aaron
Ito, Michihiko
Marcotte, Edward
Wallingford, John
Ito, Yuzuru
Asashima, Makoto
Ueno, Naoto
Matsuda, Yoichi
Veenstra, Gert
Fujiyama, Asao
Kinoshita, Tsutomu
Ohta, Yuko
Mawaribuchi, Shuuji
Jenkins, Jerry
Grimwood, Jane
Schmutz, Jeremy
Mozaffari, Sahar
Suzuki, Yutaka
Haramoto, Yoshikazu
Yamamoto, Takamasa
Takagi, Chiyo
Taira, Masanori
Rokhsar, Daniel
Harland, Richard
Heald, Rebecca
Heinz, Sven
Session, Adam
Carlson, Joseph
Mitros, Therese
Uno, Yoshinobu
Uno, Yoshinobu
Kwon, Taejoon
Chapman, Jarrod
Toyoda, Atsushi
Takahashi, Shuji
Fukui, Akimasa
Hikosaka, Akira
Suzuki, Atsushi
Kondo, Mariko
van Heeringen, Simon
Quigley, Ian
Ogino, Hajime
Ochi, Haruki
Hellsten, Uffe
Lyons, Jessica
Simakov, Oleg
Putnam, Nicholas
Stites, Jonathan
Kuroki, Yoko
Tanaka, Toshiaki
Michiue, Tatsuo
Watanabe, Minoru
Bogdanovic, Ozren
Lister, Ryan
Georgiou, Georgios
Paranjpe, Sarita
van Kruijsbergen, Ila
Shu, Shengquiang
Miller, Kelly
Haudenschild, Christian
Kitzman, Jacob
Nakayama, Takuya
Izutsu, Yumi
Robert, Jacques
Fortriede, Joshua
Burns, Kevin
Lotay, Vaneet
Karimi, Kamran
Yasuoka, Yuuri
Dichmann, Darwin
Flajnik, Martin
Houston, Douglas
Shendure, Jay
DuPasquier, Louis
Vize, Peter
Zorn, Aaron
Ito, Michihiko
Marcotte, Edward
Wallingford, John
Ito, Yuzuru
Asashima, Makoto
Ueno, Naoto
Matsuda, Yoichi
Veenstra, Gert
Fujiyama, Asao
Kinoshita, Tsutomu
Ohta, Yuko
Mawaribuchi, Shuuji
Jenkins, Jerry
Grimwood, Jane
Schmutz, Jeremy
Mozaffari, Sahar
Suzuki, Yutaka
Haramoto, Yoshikazu
Yamamoto, Takamasa
Takagi, Chiyo
Taira, Masanori
Rokhsar, Daniel
Harland, Richard
Heald, Rebecca
Heinz, Sven
Session, Adam
Carlson, Joseph
Mitros, Therese
Source :
Nature; vol 538, iss 7625
Publication Year :
2016

Abstract

To explore the origins and consequences of tetraploidy in the African clawed frog, we sequenced the Xenopus laevis genome and compared it to the related diploid X. tropicalis genome. We characterize the allotetraploid origin of X. laevis by partitioning its genome into two homoeologous subgenomes, marked by distinct families of fossil transposable elements. On the basis of the activity of these elements and the age of hundreds of unitary pseudogenes, we estimate that the two diploid progenitor species diverged around 34 million years ago (Ma) and combined to form an allotetraploid around 17-18 Ma. More than 56% of all genes were retained in two homoeologous copies. Protein function, gene expression, and the amount of conserved flanking sequence all correlate with retention rates. The subgenomes have evolved asymmetrically, with one chromosome set more often preserving the ancestral state and the other experiencing more gene loss, deletion, rearrangement, and reduced gene expression.

Details

Database :
OAIster
Journal :
Nature; vol 538, iss 7625
Notes :
application/pdf, Nature vol 538, iss 7625
Publication Type :
Electronic Resource
Accession number :
edsoai.on1401034143
Document Type :
Electronic Resource