Evidence map›Paper›PMID 23598338›Full record

ArticleNature2013

The African coelacanth genome provides insights into tetrapod evolution.

Chris T Amemiya, Jessica Alföldi, Alison P Lee, Shaohua Fan, Hervé Philippe, Iain Maccallum, Ingo Braasch, Tereza Manousaki, Igor Schneider, Nicolas Rohner and 81 more

Open access · hybridAbstract read
In one paragraph

Article in Nature, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 317 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
317citing papers in PubMed, 1 pooled it
163.2field-weighted citation impact, top 1% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

317 citing papers in PubMed, 1 synthesis or guideline pooled it, 688 citations in OpenAlex.

  1. Pooled it
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  8. Genomic Distortion of Jawed Vertebrate Phylogeny.bioRxiv : the preprint server for biology · 2026
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257 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

91 authors at 20 institutions in 14 countries.

Chris T AmemiyaMolecular Genetics Program, Benaroya Research Institute, Seattle, Washington 98101, USA. camemiya@benaroyaresearch.org
Jessica Alföldi
Alison P Lee
Shaohua Fan
Hervé Philippe
Iain Maccallum
Ingo Braasch
Tereza Manousaki
Igor Schneider
Nicolas Rohner
Chris Organ
Domitille Chalopin
Jeramiah J Smith
Mark Robinson
Rosemary A Dorrington
Marco Gerdol
Bronwen Aken
Maria Assunta Biscotti
Marco Barucca
Denis Baurain
Aaron M Berlin
Gregory L Blatch
Francesco Buonocore
Thorsten Burmester
Michael S Campbell
Adriana Canapa
John P Cannon
Alan Christoffels
Gianluca De Moro
Adrienne L Edkins
Lin Fan
Anna Maria Fausto
Nathalie Feiner
Mariko Forconi
Junaid Gamieldien
Sante Gnerre
Andreas Gnirke
Jared V Goldstone
Wilfried Haerty
Mark E Hahn
Uljana Hesse
Steve Hoffmann
Jeremy Johnson
Sibel I Karchner
Shigehiro Kuraku
Marcia Lara
Joshua Z Levin
Gary W Litman
Evan Mauceli
Tsutomu Miyake
M Gail Mueller
David R Nelson
Anne Nitsche
Ettore Olmo
Tatsuya Ota
Alberto Pallavicini
Sumir Panji
Barbara Picone
Chris P Ponting
Sonja J Prohaska
Dariusz Przybylski
Nil Ratan Saha
Vydianathan Ravi
Filipe J Ribeiro
Tatjana Sauka-Spengler
Giuseppe Scapigliati
Stephen M J Searle
Ted Sharpe
Oleg Simakov
Peter F Stadler
John J Stegeman
Kenta Sumiyama
Diana Tabbaa
Hakim Tafer
Jason Turner-Maier
Peter van Heusden
Simon White
Louise Williams
Mark Yandell
Henner Brinkmann
Jean-Nicolas Volff
Clifford J Tabin
Neil Shubin
Manfred Schartl
David B Jaffe
John H Postlethwait
Byrappa Venkatesh
Federica Di Palma
Eric S Lander
Axel Meyer
Kerstin Lindblad-Toh
Broad Institute · USUniversity of the Western Cape · ZALeipzig University · DEMarche Polytechnic University · ITUniversity of Konstanz · DEWoods Hole Oceanographic Institution · USRhodes University · ZAUniversità degli Studi della Tuscia · ITUniversity of Trieste · ITUniversity of Utah · USWellcome Sanger Institute · GBAgency for Science, Technology and Research · SGBenaroya Research InstituteHarvard University · USUniversité de Montréal · CAUniversity of Oregon · USUniversity of Oxford · GBUniversity of South Florida St. Petersburg · USÉcole Normale Supérieure de Lyon · FREuropean Molecular Biology Laboratory · DE

Funding

Large Scale Sequencing and Analysis of GenomesU54HG003067 · NHGRI · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI GABRIEL, STACEY, LANDER, ERIC S · 2004 to 2015
$568.6M
Training CoreP42ES007381 · NIEHS · BOSTON UNIVERSITY MEDICAL CAMPUS · PI HAHN, MARK E · 1995 to 2019
$46.1M
Whole-genome shotgun sequencing strategy and assemblyR01HG003474 · NHGRI · MASSACHUSETTS INSTITUTE OF TECHNOLOGY · PI JAFFE, DAVID B · 2005 to 2013
$6.1M
Resources for Teleost Gene Duplicates and Human DiseaseR01OD011116 · OD · UNIVERSITY OF OREGON · PI POSTLETHWAIT, JOHN H. · 2012 to 2020
$5.4M
Hedgehog Signaling and Organogenesis of the LimbR37HD032443 · NICHD · HARVARD UNIVERSITY (MEDICAL SCHOOL) · PI TABIN, CLIFFORD J. · 2005 to 2014
$5.3M
AHR Signaling in Mammalian and Non-Mammalian ModelsR01ES006272 · NIEHS · WOODS HOLE OCEANOGRAPHIC INSTITUTION · PI HAHN, MARK E · 1999 to 2014
$4.1M
Advancing the Scientific Potential of Transcriptomics in Aquatic ModelsR24OD011199 · OD · UNIVERSITY OF OREGON · PI CRESKO, WILLIAM A, POSTLETHWAIT, JOHN H. · 2012 to 2014
$1.8M
Advancing the Scientific Potential of Transcriptomics in Aquatic ModelsR24RR032670 · NCRR · UNIVERSITY OF OREGON · PI CRESKO, WILLIAM A, POSTLETHWAIT, JOHN H. · 2011 to 2011
$553k
Medical Research Council MC_U137761446NCRR NIH HHS R24 RR032670NHGRI NIH HHS R01 HG003474NHGRI NIH HHS U54 HG003067NICHD NIH HHS R37 HD032443NIEHS NIH HHS P42 ES007381NIEHS NIH HHS R01 ES006272NIH HHS R01 OD011116NIH HHS R24 OD011199Wellcome Trust 095908
6 · The paper itself

Abstract

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.

Indexed as

Biological EvolutionAnimalsAnimals, Genetically ModifiedChick EmbryoConserved SequenceEnhancer Elements, GeneticEvolution, MolecularExtremitiesFishesGenes, HomeoboxGenomeGenomicsImmunoglobulin MMiceMolecular Sequence AnnotationMolecular Sequence DataImmunoglobulin M

Identifiers

PMID23598338
PMCPMC3633110
OpenAlexW1963630241

What OpenQuestion holds

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Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.