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    Phylogenetic utility of nuclear introns in interfamilial relationships of Caniformia (Order Carnivora)

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    Issue Date
    2011
    Author
    Yu, L.
    Luan, P.-T.
    Jin, W.
    Ryder, Oliver A.
    Chemnick, Leona G.
    Davis, Heidi A.
    Zhang, Y.-P.
    Subject
    CANIDS
    CARNIVORES
    RESEARCH
    TAXONOMIES
    URSIDAE
    PINNIPEDS
    GENOMICS
    HYBRIDIZATION
    EARED SEALS
    Journal title
    Systematic Biology
    Volume
    60
    Issue
    2
    Begin page
    175
    End page
    187
    
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    DOI
    10.1093/sysbio/syq090
    Alternative link
    https://academic.oup.com/sysbio/article/60/2/175/2461978
    Abstract
    The monophyletic group Caniformia (dog-like carnivores) in the order Carnivora comprises 9 families. Except for the general consensus for the earliest divergence of Canidae and the grouping of Procyonidae and Mustelidae, conflicting phylogenetic hypotheses exist for the other caniformian families. In the present study, a data set comprising > 22 kb of 22 nuclear intron loci from 16 caniformian species is used to investigate the phylogenetic utility of nuclear introns in resolving the interfamilial relationships of Caniformia. Our phylogenetic analyses support Ailuridae as the sister taxon to a clade containing Procyonidae and Mustelidae, with Mephitinae being the sister taxon to all of them. The unresolved placements of Ursidae and Pinnipeds here emphasize a need to add more data and include more taxa to resolve this problem. The present study not only resolves some of the ambiguous relationships in Caniformia phylogeny but also shows that the noncoding nuclear markers can offer powerful complementary data for estimating the species tree. None of the newly developed introns here have previously been used for phylogeny reconstruction, thus increasing the spectrum of molecular markers available to mammalian systematics. Interestingly, all the newly developed intron data partitions exhibit intraindividual allele heterozygotes (IIAHs). There are 115 cases of IIAHs in total. The incorporation of IIAHs into phylogenetic analysis not only provides insights into the interfamilial relationships of Caniformia but also identifies two potential hybridization events occurred within Ursidae and Otariidae, respectively. Finally, the powers and pitfalls of phylogenetics using nuclear introns as markers are discussed in the context of Caniformia phylogeny.
    URI
    http://hdl.handle.net/20.500.12634/895
    Type
    Article
    Rights
    The Author(s) 2011. Published by Oxford University Press, on behalf of the Society of Systematic Biologists. All rights reserved.
    ae974a485f413a2113503eed53cd6c53
    10.1093/sysbio/syq090
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