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Article Dans Une Revue Nature Année : 2013

The African coelacanth genome provides insights into tetrapod evolution

Chris T. Amemiya (1, 2) , Jessica Alföldi (3) , Alison P. Lee (4) , Shaohua Fan (2) , Herve Philippe (5) , Iain Maccallum (3) , Ingo Braasch (6) , Tereza Manousaki (2, 7) , Igor Schneider (8) , Nicolas Rohner (9) , Chris Organ (10) , Domitille Chalopin (11) , Jeramiah J. Smith (2) , Mark Robinson (1) , Rosemary A. Dorrington (12) , Marco Gerdol (13) , Bronwen Aken (14) , Maria Assunta Biscotti (15) , Marco Barucca (15) , Denis Baurain (16) , Aaron M. Berlin (3) , Gregory L. Blatch (12, 17) , Francesco Buonocore (18) , Thorsten Burmester (19) , Michael S. Campbell (20) , Adriana Canapa (15) , John P. Cannon (21) , Alan Christoffels (22) , Gianluca de Moro (13) , Adrienne L. Edkins (12) , Lin Fan (3) , Anna Maria Fausto (18) , Nathalie Feiner (2, 23) , Mariko Forconi (15) , Junaid Gamieldien (22) , Sante Gnerre (3) , Andreas Gnirke (3) , Jared V. Goldstone (24) , Wilfried Haerty (25) , Mark E. Hahn (24) , Uljana Hesse (22) , Steve Hoffmann (26) , Jeremy Johnson (27) , Sibel I. Karchner (24) , Shigehiro Kuraku (2) , Marcia Lara (3) , Joshua Z. Levin (3) , Gary W. Litman (21) , Evan Mauceli (3) , Tsutomu Miyake (28) , M Gail Mueller (29) , David R. Nelson (30) , Anne Nitsche (31) , Ettore Olmo (15) , Tatsuya Ota (32) , Alberto Pallavicini (13) , Sumir Panji (22) , Barbara Picone (22) , Chris P. Ponting (25) , Sonja J. Prohaska (26) , Dariusz Przybylski (3) , Nil Ratan Saha (1) , Vydianathan Ravi (33) , Filipe J. Ribeiro (27) , Tatjana Sauka-Spengler (25) , Giuseppe Scapigliati (18) , Stephen M. J. Searle (14) , Ted Sharpe (3) , Oleg Simakov (2, 34) , Peter F. Stadler (31) , John J. Stegeman (24) , Kenta Sumiyama (35) , Diana Tabbaa (3) , Hakim Tafer (31) , Jason Turner-Maier (3) , Peter van Heusden (22) , Simon White (14) , Louise Williams (3) , Mark Yandell (20) , Henner Brinkmann (5) , Jean-Nicolas J.-N. Volff (11) , Clifford J. Tabin (9) , Neil Shubin (36) , Manfred Schartl (37) , David B. Jaffe (3) , John H. Postlethwait (6) , Byrappa Venkatesh (4) , Federica Di Palma (3) , Eric S. Lander (3) , Axel Meyer (2, 23) , Kerstin Lindblad-Toh (3)
1 Molecular Genetics Program
2 Department of Biology
3 BROAD INSTITUTE - Broad Institute of MIT and Harvard
4 Comparative Genomics Laboratory, Institute of Molecular and Cell Biology, A*STAR, Biopolis
5 UdeM - Université de Montréal
6 Institute of Neuroscience
7 University of Konstanz
8 Instituto de Ciências Biológicas
9 Department of Genetics [Boston]
10 USU - Utah State University
11 IGFL - Institut de Génomique Fonctionnelle de Lyon
12 Rhodes University, Grahamstown
13 Department of Life Sciences
14 Wellcome Trust Sanger Institute
15 UNIVPM - Polytechnic University of Marche [Ancona, Italy] / Università Politecnica delle Marche [Ancona, Italia]
16 Université de Liège
17 Victoria University [Melbourne]
18 Department for Innovation in Biological, Agro-Food and Forest Systems
19 University of Hamburg
20 Eccles Institute of Human Genetics
21 USF - University of South Florida [Tampa]
22 SANBI - South African National Bioinformatics Institute
23 IMPRS - International Max Planck Research School for Organismal Biology
24 WHOI - Biology Department
25 University of Oxford
26 Leipzig University / Universität Leipzig
27 Broad Institute of MIT and Harvard, Cambridge, Massachusetts 02142, USA
28 Keio University [Tokyo]
29 All Children’s Hospital
30 University of Tennessee
31 Bioinformatics Group, Department of Computer Science
32 Graduate University for Advanced Studies
33 Comparative Genomics Laboratory, Institute of Molecular and Cell Biology, A*STAR, Biopolis, Singapore 138673, Singapore
34 EMBL - European Molecular Biology Laboratory
35 NIG - National Institute of Genetics
36 University of Chicago
37 Department Physiological Chemistry, Biocenter
Jessica Alföldi
  • Fonction : Auteur correspondant
Herve Philippe
Ingo Braasch
  • Fonction : Auteur
  • PersonId : 970726
Denis Baurain
Mark E. Hahn
  • Fonction : Auteur
Tatsuya Ota
Alberto Pallavicini

Résumé

The discovery of a living coelacanth specimen in 1938 was remarkable, as this lineage of lobe-finned fish was thought to have become extinct 70 million years ago. The modern coelacanth looks remarkably similar to many of its ancient relatives, and its evolutionary proximity to our own fish ancestors provides a glimpse of the fish that first walked on land. Here we report the genome sequence of the African coelacanth, Latimeria chalumnae. Through a phylogenomic analysis, we conclude that the lungfish, and not the coelacanth, is the closest living relative of tetrapods. Coelacanth protein-coding genes are significantly more slowly evolving than those of tetrapods, unlike other genomic features. Analyses of changes in genes and regulatory elements during the vertebrate adaptation to land highlight genes involved in immunity, nitrogen excretion and the development of fins, tail, ear, eye, brain and olfaction. Functional assays of enhancers involved in the fin-to-limb transition and in the emergence of extra-embryonic tissues show the importance of the coelacanth genome as a blueprint for understanding tetrapod evolution.
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hal-02651810 , version 1 (29-05-2020)

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Chris T. Amemiya, Jessica Alföldi, Alison P. Lee, Shaohua Fan, Herve Philippe, et al.. The African coelacanth genome provides insights into tetrapod evolution. Nature, 2013, 496 (7445), pp.311-316. ⟨10.1038/nature12027⟩. ⟨hal-02651810⟩
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