The genomic substrate for adaptive radiation in African cichlid fish

Streekman, J. Todd; Lindblad-Toh, Kerstin; Seehausen, Ole; Di Palma, Federica; Fan, Shaohua; Simakov, Oleg; Meyer, Axel

The genomic substrate for adaptive radiation in African cichlid fish

Dateien

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Datum

2014

Autor:innen

Streekman, J. Todd

Lindblad-Toh, Kerstin

Seehausen, Ole

Di Palma, Federica

Fan, Shaohua

Simakov, Oleg

Meyer, Axel

Open Access-Veröffentlichung

Open Access Green

Sammlungen

Biologie

Publikationstyp

Zeitschriftenartikel

Publikationsstatus

Published

Erschienen in

Nature. 2014, 513(7518), pp. 375-381. ISSN 0028-0836. eISSN 1476-4687. Available under: doi: 10.1038/nature13726

Zusammenfassung

Cichlid fishes are famous for large, diverse and replicated adaptive radiations in the Great Lakes of East Africa. To understand the molecular mechanisms underlying cichlid phenotypic diversity, we sequenced the genomes and transcriptomes of five lineages of African cichlids: the Nile tilapia (Oreochromis niloticus), an ancestral lineage with low diversity; and four members of the East African lineage: Neolamprologus brichardi/pulcher (older radiation, Lake Tanganyika), Metriaclima zebra (recent radiation, Lake Malawi), Pundamilia nyererei (very recent radiation, Lake Victoria), and Astatotilapia burtoni (riverine species around Lake Tanganyika). We found an excess of gene duplications in the East African lineage compared to tilapia and other teleosts, an abundance of non-coding element divergence, accelerated coding sequence evolution, expression divergence associated with transposable element insertions, and regulation by novel microRNAs. In addition, we analysed sequence data from sixty individuals representing six closely related species from Lake Victoria, and show genome-wide diversifying selection on coding and regulatory variants, some of which were recruited from ancient polymorphisms. We conclude that a number of molecular mechanisms shaped East African cichlid genomes, and that amassing of standing variation during periods of relaxed purifying selection may have been important in facilitating subsequent evolutionary diversification.

Fachgebiet (DDC)

570 Biowissenschaften, Biologie

Schlagwörter

Genome evolution, Evolution, Comparative genomics, Evolutionary biology

Zitieren

ISO 690

STREEKMAN, J. Todd, Kerstin LINDBLAD-TOH, Ole SEEHAUSEN, Federica DI PALMA, Shaohua FAN, Oleg SIMAKOV, Axel MEYER, 2014. The genomic substrate for adaptive radiation in African cichlid fish. In: Nature. 2014, 513(7518), pp. 375-381. ISSN 0028-0836. eISSN 1476-4687. Available under: doi: 10.1038/nature13726

BibTex

@article{Streekman2014genom-29323,
  year={2014},
  doi={10.1038/nature13726},
  title={The genomic substrate for adaptive radiation in African cichlid fish},
  number={7518},
  volume={513},
  issn={0028-0836},
  journal={Nature},
  pages={375--381},
  author={Streekman, J. Todd and Lindblad-Toh, Kerstin and Seehausen, Ole and Di Palma, Federica and Fan, Shaohua and Simakov, Oleg and Meyer, Axel}
}

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Universitätsbibliographie

Ja