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Three crocodilian genomes reveal ancestral patterns of evolution among archosaurs.

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Date
2014-12-12
Authors
Green, Richard E
Braun, Edward L
Armstrong, Joel
Earl, Dent
Nguyen, Ngan
Hickey, Glenn
Vandewege, Michael W
St John, John A
Capella-Gutiérrez, Salvador
Castoe, Todd A
Kern, Colin
Fujita, Matthew K
Opazo, Juan C
Jurka, Jerzy
Kojima, Kenji K
Caballero, Juan
Hubley, Robert M
Smit, Arian F
Platt, Roy N
Lavoie, Christine A
Ramakodi, Meganathan P
Finger, John W
Suh, Alexander
Isberg, Sally R
Miles, Lee
Chong, Amanda Y
Jaratlerdsiri, Weerachai
Gongora, Jaime
Moran, Christopher
Iriarte, Andrés
McCormack, John
Burgess, Shane C
Edwards, Scott V
Lyons, Eric
Williams, Christina
Breen, Matthew
Howard, Jason T
Gresham, Cathy R
Peterson, Daniel G
Schmitz, Jürgen
Pollock, David D
Haussler, David
Triplett, Eric W
Zhang, Guojie
Irie, Naoki
Jarvis, Erich D
Brochu, Christopher A
Schmidt, Carl J
McCarthy, Fiona M
Faircloth, Brant C
Hoffmann, Federico G
Glenn, Travis C
Gabaldón, Toni
Paten, Benedict
Ray, David A
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Abstract
To provide context for the diversification of archosaurs--the group that includes crocodilians, dinosaurs, and birds--we generated draft genomes of three crocodilians: Alligator mississippiensis (the American alligator), Crocodylus porosus (the saltwater crocodile), and Gavialis gangeticus (the Indian gharial). We observed an exceptionally slow rate of genome evolution within crocodilians at all levels, including nucleotide substitutions, indels, transposable element content and movement, gene family evolution, and chromosomal synteny. When placed within the context of related taxa including birds and turtles, this suggests that the common ancestor of all of these taxa also exhibited slow genome evolution and that the comparatively rapid evolution is derived in birds. The data also provided the opportunity to analyze heterozygosity in crocodilians, which indicates a likely reduction in population size for all three taxa through the Pleistocene. Finally, these data combined with newly published bird genomes allowed us to reconstruct the partial genome of the common ancestor of archosaurs, thereby providing a tool to investigate the genetic starting material of crocodilians, birds, and dinosaurs.
Type
Journal article
Subject
Alligators and Crocodiles
Animals
Biological Evolution
Birds
Conserved Sequence
DNA Transposable Elements
Dinosaurs
Evolution, Molecular
Genetic Variation
Genome
Molecular Sequence Annotation
Molecular Sequence Data
Phylogeny
Reptiles
Sequence Alignment
Sequence Analysis, DNA
Transcriptome
Permalink
https://hdl.handle.net/10161/11153
Published Version (Please cite this version)
10.1126/science.1254449
Publication Info
Green, Richard E; Braun, Edward L; Armstrong, Joel; Earl, Dent; Nguyen, Ngan; Hickey, Glenn; ... Ray, David A (2014). Three crocodilian genomes reveal ancestral patterns of evolution among archosaurs. Science, 346(6215). pp. 1254449. 10.1126/science.1254449. Retrieved from https://hdl.handle.net/10161/11153.
This is constructed from limited available data and may be imprecise. To cite this article, please review & use the official citation provided by the journal.
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Scholars@Duke

Jarvis

Erich David Jarvis

Adjunct Professor in the Deptartment of Neurobiology
Dr. Jarvis' laboratory studies the neurobiology of vocal communication. Emphasis is placed on the molecular pathways involved in the perception and production of learned vocalizations. They use an integrative approach that combines behavioral, anatomical, electrophysiological and molecular biological techniques. The main animal model used is songbirds, one of the few vertebrate groups that evolved the ability to learn vocalizations. The generality of the discoveries is tested in other vocal lear
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