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Molecular phylogenetics and evolution v.118, 2018년, pp.232 - 243   SCI SCIE
본 등재정보는 저널의 등재정보를 참고하여 보여주는 베타서비스로 정확한 논문의 등재여부는 등재기관에 확인하시기 바랍니다.

Exon-based phylogenomics strengthens the phylogeny of Neotropical cichlids and identifies remaining conflicting clades (Cichliformes: Cichlidae: Cichlinae)

Ilves, Katriina L.    (Department of Natural History, Royal Ontario Museum, 100 Queen's Park, Toronto, ON M5S 2C6, Canada   ); Torti, Dax    (Donnelly Sequencing Center, University of Toronto, 160 College Street, Toronto, ON M5S 3E1, Canada   ); López-Fernández, Hernán    (Department of Natural History, Royal Ontario Museum, 100 Queen's Park, Toronto, ON M5S 2C6, Canada  );
  • 초록  

    Abstract The phenotypic, geographic, and species diversity of cichlid fishes have made them a group of great interest for studying evolutionary processes. Here we present a targeted-exon next-generation sequencing approach for investigating the evolutionary relationships of cichlid fishes (Cichlidae), with focus on the Neotropical subfamily Cichlinae using a set of 923 primarily single-copy exons designed through mining of the Nile tilapia ( Oreochromis niloticus ) genome. Sequence capture and assembly were robust, leading to a complete dataset of 415 exons for 139 species (147 terminals) that consisted of 128 Neotropical species, six African taxa, and five Indo-Malagasy cichlids. Gene and species trees were calculated using alternative partitioning schemes and reconstruction methods. In general, all methods yielded similar topologies to previously hypothesized relationships within the Cichlinae and clarified several relationships that were previously poorly supported or in conflict. Additional work will be needed to fully resolve all aspects of Cichlinae phylogeny. Overall, this approach yielded a well-resolved phylogeny of Neotropical cichlids that will be of utility for future assessments of the evolutionary and ecological processes within this diverse group of fishes. Furthermore, the general methodology employed here of exon targeting and capture should be applicable to any group of organisms with the availability of a reference genome. Highlights 415 exons captured for 139 species of predominantly Neotropical cichlids. Long-established interrelationships of major lineages supported. Relationships among Geophagini clades clarified by species tree analyses. Conflicting relationships among caquetaines, amphilophines, and herichthyines. Graphical abstract [DISPLAY OMISSION]


  • 주제어

    Cichlidae .   Cichlinae .   Phylogenomics .   Exon capture .   Neotropics.  

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