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Nature DOI:10.1038/nature10944

The genomic basis of adaptive evolution in threespine sticklebacks.

Publication TypeJournal Article
Year of Publication2012
AuthorsJones, FC, Grabherr, MG, Chan, YFrank, Russell, P, Mauceli, E, Johnson, J, Swofford, R, Pirun, M, Zody, MC, White, S, Birney, E, Searle, S, Schmutz, J, Grimwood, J, Dickson, MC, Myers, RM, Miller, CT, Summers, BR, Knecht, AK, Brady, SD, Zhang, H, Pollen, AA, Howes, T, Amemiya, C, Baldwin, J, Bloom, T, Jaffe, DB, Nicol, R, Wilkinson, J, Lander, ES, di Palma, F, Lindblad-Toh, K, Kingsley, DM
Corporate AuthorsBroad Institute Genome Sequencing Platform & Whole Genome Assembly Team
Date Published2012 Apr 04
KeywordsAdaptation, Physiological, Alaska, Animals, Aquatic Organisms, Biological Evolution, Chromosome Inversion, Chromosomes, Conserved Sequence, Ecotype, Female, Fresh Water, Genetic Variation, Genome, Genomics, Molecular Sequence Data, Seawater, Sequence Analysis, DNA, Smegmamorpha

Marine stickleback fish have colonized and adapted to thousands of streams and lakes formed since the last ice age, providing an exceptional opportunity to characterize genomic mechanisms underlying repeated ecological adaptation in nature. Here we develop a high-quality reference genome assembly for threespine sticklebacks. By sequencing the genomes of twenty additional individuals from a global set of marine and freshwater populations, we identify a genome-wide set of loci that are consistently associated with marine-freshwater divergence. Our results indicate that reuse of globally shared standing genetic variation, including chromosomal inversions, has an important role in repeated evolution of distinct marine and freshwater sticklebacks, and in the maintenance of divergent ecotypes during early stages of reproductive isolation. Both coding and regulatory changes occur in the set of loci underlying marine-freshwater evolution, but regulatory changes appear to predominate in this well known example of repeated adaptive evolution in nature.


Alternate JournalNature
PubMed ID22481358
PubMed Central IDPMC3322419
Grant ListR01 HG003474 / HG / NHGRI NIH HHS / United States
P50 HG002568-09S1 / HG / NHGRI NIH HHS / United States
/ / Howard Hughes Medical Institute / United States
095908 / / Wellcome Trust / United Kingdom
P50 HG002568 / HG / NHGRI NIH HHS / United States
P50-HG002568 / HG / NHGRI NIH HHS / United States
P50 HG002568-09 / HG / NHGRI NIH HHS / United States