Please use this identifier to cite or link to this item: http://hdl.handle.net/2445/175730
Title: Amphioxus functional genomics and the origins of vertebrate gene regulation
Author: Marlétaz, Ferdinand
Firbas, Panos N.
Maeso Martín, Ignacio
Tena, Juan J.
Bogdanovic, Ozren
Perry, Malcolm
Wyatt, Christopher D.R.
de la Calle-Mustienes, Elisa
Bertrand, Stephanie
Burguera, Demian
Acemel, Rafael D.
van Heeringen, Simon J.
Naranjo, Silvia
Herrera Úbeda, Carlos
Skvortsova, Ksenia
Jimenez-Gancedo, Sandra
Aldea, Daniel
Marquez, Yamile
Buono, Lorena
Kozmikova, Iryna
Permanyer, Jon
Louis, Alexandra
Albuixech Crespo, Beatriz
Le Petillon, Yann Lee
Leon, Anthony
Subirana, Lucie
Balwierz, Piotr J.
Duckett, Paul E.
Farahani, Ensieh
Aury, Jean-Marc
Mangenot, Sophie
Wincker, Patrick
Albalat Rodríguez, Ricard
Benito Gutiérrez, Èlia
Cañestro García, Cristian
Castro, Felipe
D'Aniello, Salvatore
Ferrier, David EK.
Huang, Shengfeng
Laudet, Vincent
Marais, Gabriel A. B.
Pontarotti, Pierre
Schubert, Michael
Seitz, Hervé
Somorjai, Ildiko
Takahash, Tokiharu
Mirabeau, Olivier
Xu, Anlong
Yu, Jr-Kai
Carninci, Piero
Martinez-Morales, Juan Ramon
Roest Crollius, Hugues
Kozmik, Zbynek
Weirauch, Matthew T.
Kozmik, Zbynek
Weirauch, Matthew T.
Garcia Fernández, Jordi
Lister, Ryan
Lenhard, Boris
Holland, Peter W. H.
Escriva, Hector
Gómez-Skarmeta, Jose Luis
Irimia, Manuel
Keywords: Vertebrats
Amfiox
Vertebrates
Branchiostoma lanceolatum
Issue Date: 21-Nov-2018
Publisher: Nature Publishing Group
Abstract: Vertebrates have greatly elaborated the basic chordate body plan and evolved highly distinctive genomes that have been sculpted by two whole-genome duplications. Here we sequence the genome of the Mediterranean amphioxus (Branchiostoma lanceolatum) and characterize DNA methylation, chromatin accessibility, histone modifications and transcriptomes across multiple developmental stages and adult tissues to investigate the evolution of the regulation of the chordate genome. Comparisons with vertebrates identify an intermediate stage in the evolution of differentially methylated enhancers, and a high conservation of gene expression and its cis-regulatory logic between amphioxus and vertebrates that occurs maximally at an earlier mid-embryonic phylotypic period. We analyse regulatory evolution after whole-genome duplications, and find that-in vertebrates-over 80% of broadly expressed gene families with multiple paralogues derived from whole-genome duplications have members that restricted their ancestral expression, and underwent specialization rather than subfunctionalization. Counter-intuitively, paralogues that restricted their expression increased the complexity of their regulatory landscapes. These data pave the way for a better understanding of the regulatory principles that underlie key vertebrate innovations.
Note: Reproducció del document publicat a: https://doi.org/10.1038/s41586-018-0734-6
It is part of: Nature, 2018, vol. 564, p. 64-70
URI: http://hdl.handle.net/2445/175730
Related resource: https://doi.org/10.1038/s41586-018-0734-6
ISSN: 0028-0836
Appears in Collections:Articles publicats en revistes (Genètica, Microbiologia i Estadística)
Articles publicats en revistes (Institut de Recerca de la Biodiversitat (IRBio))
Publicacions de projectes de recerca finançats per la UE

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