Title: | Dense sampling of bird diversity increases power of comparative genomics |
Author: | Feng, Shaohong Stiller, Josefin Deng, Yuan Armstrong, Joel Fang, Qi Reeve, Andrew Hart Xie, Duo Chen, Guangji Guo, Chunxue Faircloth, Brant C. Petersen, Bent Gemmell, Neil J. Dussex, Nicolas Mouritsen, Henrik Thiele, Nadine Delmore, Kira Liedvogel, Miriam Franke, Andre Hoeppner, Marc P. Fidler, Ellen Krone, Oliver Milá, Borja Fudickar, Adam M. Wang, Zongji Zhou, Qi Diekhans, Mark Chen, Wanjun Andreu Sanchez, Sergio Margaryan, Ashot Howard, Jason Travis Parent, Carole Pacheco, George Sinding, Mikkel-Holger S. Puetz, Lara Cavill, Emily Ribeiro, Angela M. Eckhart, Leopold Fjeldsa, Jon Hosner, Peter A. Brumfield, Robb T. Christidis, Les Bertelsen, Mads F. Sicheritz Ponten, Thomas Tietze, Dieter Thomas Robertson, Bruce C. Song, Gang Borgia, Gerald Claramunt, Santiago Lovette, Irby J. Cowen, Saul J. Njoroge, Peter Dumbacher, John Philip Ryder, Oliver A. Fuchs, Jérôme Bunce, Michael Burt, David W. Cracraft, Joel Meng, Guanliang Hackett, Shannon J. Ryan, Peter G. Jønsson, Knud Andreas Jamieson, Ian G. da Fonseca, Rute R. Braun, Edward L. Houde, Peter Mirarab, Siavash Suh, Alexander Hansson, Bengt Ponnikas, Suvi Sigeman, Hanna Stervander, Martin Frandsen, Paul B. van der Zwan, Henriette van der Sluis, Rencia Visser, Carina Balakrishnan, Christopher N. Clark, Andrew G. Fitzpatrick, John W. Bowman, Reed Chen, Nancy Cloutier, Alison Sackton, Timothy B. Edwards, Scott V. Foote, Dustin J. Shakya, Subir B. Sheldon, Frederick H. Vignal, Alain Soares, André E. R. Shaphiro, Beth González-Solís, Jacob Ferrer-Obiol, Joan Rozas Liras, Julio A. Riutort León, Marta Tigano, Anna Friesen, Vicki Dalén, Love Urrutia, Araxi O. Székely, Tamás Liu, Yang Campana, Michael G. Corvelo, André Fleischer, Robert C. Rutherford, Kim M. |
Keywords: | Genomes Biodiversitat Cladística Genomes Biodiversity Cladistic analysis |
Issue Date: | 11-Nov-2020 |
Publisher: | Nature Publishing Group |
Abstract: | Whole-genome sequencing projects are increasingly populating the tree of life and characterizing biodiversity1-4. Sparse taxon sampling has previously been proposed to confound phylogenetic inference5, and captures only a fraction of the genomic diversity. Here we report a substantial step towards the dense representation of avian phylogenetic and molecular diversity, by analysing 363 genomes from 92.4% of bird families-including 267 newly sequenced genomes produced for phase II of the Bird 10,000 Genomes (B10K) Project. We use this comparative genome dataset in combination with a pipeline that leverages a reference-free whole-genome alignment to identify orthologous regions in greater numbers than has previously been possible and to recognize genomic novelties in particular bird lineages. The densely sampled alignment provides a single-base-pair map of selection, has more than doubled the fraction of bases that are confidently predicted to be under conservation and reveals extensive patterns of weak selection in predominantly non-coding DNA. Our results demonstrate that increasing the diversity of genomes used in comparative studies can reveal more shared and lineage-specific variation, and improve the investigation of genomic characteristics. We anticipate that this genomic resource will offer new perspectives on evolutionary processes in cross-species comparative analyses and assist in efforts to conserve species. |
Note: | Reproducció del document publicat a: https://doi.org/10.1038/s41586-020-2873-9 |
It is part of: | Nature, 2020, vol. 587, num. 7833, p. 252-257 |
URI: | http://hdl.handle.net/2445/174496 |
Related resource: | https://doi.org/10.1038/s41586-020-2873-9 |
ISSN: | 0028-0836 |
Appears in Collections: | Articles publicats en revistes (Biologia Evolutiva, Ecologia i Ciències Ambientals) Articles publicats en revistes (Institut de Recerca de la Biodiversitat (IRBio)) Articles publicats en revistes (Genètica, Microbiologia i Estadística) Publicacions de projectes de recerca finançats per la UE
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