Origins of shared genetic variation in African cichlids
| Autor: | Reade B. Roberts, Jody Hey, Ross Swofford, Frederica Di Palma, Walter Salzburger, Thomas D. Kocher, Ole Seehausen, J. Todd Streelman, Aimee E. Howe, Marta Barluenga, Frauke M. Muenzel, Celeste E. Kidd, Kerstin Lindblad-Toh, Etienne Bezault, Yong-Hwee E. Loh |
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| Rok vydání: | 2013 |
| Předmět: |
0106 biological sciences
ancestral polymorphism Genotype Genetic Speciation Lineage (evolution) Adaptation Biological 010603 evolutionary biology 01 natural sciences Polymorphism Single Nucleotide Coalescent theory 03 medical and health sciences Monophyly Rivers Cichlid single nucleotide polymorphism Genetic variation parasitic diseases evolution Genetics Animals cichlid 14. Life underwater Selection Genetic Molecular Biology hybridization Ecology Evolution Behavior and Systematics Phylogeny Discoveries 030304 developmental biology 0303 health sciences Principal Component Analysis biology Models Genetic Bayes Theorem Cichlids Sequence Analysis DNA Evolution Hybridization Ancestral polymorphism Single nucleotide polymorphism Genetic differentiation biology.organism_classification Phylogeography Lakes Evolutionary biology Genetic Loci Genetic structure Africa 570 Life sciences genetic differentiation human activities |
| Zdroj: | Molecular Biology and Evolution Molecular Biology and Evolution, 30 (4) Loh, Yong-Hwee E.; Bezault, Etienne; Muenzel, Frauke M.; Roberts, Reade B.; Swofford, Ross; Barluenga, Marta; Kidd, Celeste E.; Howe, Aimee E.; Di Palma, Frederica; Lindblad-Toh, Kerstin; Hey, Jody; Seehausen, Ole; Salzburger, Walter; Kocher, Thomas D.; Streelman, J. Todd (2013). Origins of Shared Genetic Variation in African Cichlids. Molecular Biology and Evolution, 30(4), pp. 906-917. Oxford University Press 10.1093/molbev/mss326 Molecular biology and evolution |
| ISSN: | 1537-1719 0737-4038 |
| DOI: | 10.1093/molbev/mss326 |
| Popis: | Cichlid fishes have evolved tremendous morphological and behavioral diversity in the waters of East Africa. Within each of the Great Lakes Tanganyika, Malawi, and Victoria, the phenomena of hybridization and retention of ancestral polymorphism explain allele sharing across species. Here, we explore the sharing of single nucleotide polymorphisms (SNPs) between the major East African cichlid assemblages. A set of approximately 200 genic and nongenic SNPs was ascertained in five Lake Malawi species and genotyped in a diverse collection of ∼160 species from across Africa. We observed segregating polymorphism outside of the Malawi lineage for more than 50% of these loci; this holds similarly for genic versus nongenic SNPs, as well as for SNPs at putative CpG versus non-CpG sites. Bayesian and principal component analyses of genetic structure in the data demonstrate that the Lake Malawi endemic flock is not monophyletic and that river species have likely contributed significantly to Malawi genomes. Coalescent simulations support the hypothesis that river cichlids have transported polymorphism between lake assemblages. We observed strong genetic differentiation between Malawi lineages for approximately 8% of loci, with contributions from both genic and nongenic SNPs. Notably, more than half of these outlier loci between Malawi groups are polymorphic outside of the lake. Cichlid fishes have evolved diversity in Lake Malawi as new mutations combined with standing genetic variation shared across East Africa. ISSN:0737-4038 ISSN:1537-1719 |
| Databáze: | OpenAIRE |
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