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Citation for Study 10901

Citation title: "Phylogenetic Utility of Nuclear Introns in Interfamilial Relationships of Caniformia (Order Carnivora).".

Study name: "Phylogenetic Utility of Nuclear Introns in Interfamilial Relationships of Caniformia (Order Carnivora).".

This study is part of submission 10891 (Status: Published).

Citation

Yu L., Luan P., Jin W., Ryder O.A., Chemnick L., Davis H., & Zhang Y. 2010. Phylogenetic Utility of Nuclear Introns in Interfamilial Relationships of Caniformia (Order Carnivora). Systematic Biology, .

Authors

• Yu L.
• Luan P.
• Jin W.
• Ryder O.A.
• Chemnick L.
• Davis H.
• Zhang Y.

Abstract

The monophyletic group Caniformia (dog-like carnivores) in the order Carnivora comprises nine 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 > 22kb 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 non-coding 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 intra-individual 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.

Keywords

phylogeny; intron; Caniformia; intra-individual allele heterozygotes; transposable elements

External links

About this resource

• Canonical resource URI: http://purl.org/phylo/treebase/phylows/study/TB2:S10901
• Other versions: Nexus NeXML
• Show BibTeX reference

  		@ARTICLE{TreeBASE2Ref19263,
  	 author = {Li  Yu and Pengtao  Luan and Wei  Jin and Oliver A. Ryder and Leona G.  Chemnick and Heidi A.  Davis and Yaping  Zhang},
  	 title = {Phylogenetic Utility of Nuclear Introns in Interfamilial Relationships of Caniformia (Order Carnivora).},
  	 year = {2010},
  	 keywords = {phylogeny; intron; Caniformia; intra-individual allele heterozygotes; transposable elements},
  	 doi = {},
  	 url = {http://},
  	 pmid = {},
  	 journal = {Systematic Biology},
  	 volume = {},
  	 number = {},
  	 pages = {},
  	 abstract = {The monophyletic group Caniformia (dog-like carnivores) in the order Carnivora comprises nine 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 > 22kb 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 non-coding 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 intra-individual 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.}
  }
  		

• Show RIS reference

  		TY  - JOUR
  ID  - 19263
  AU  - Yu,Li 
  AU  - Luan,Pengtao 
  AU  - Jin,Wei 
  AU  - Ryder,Oliver A.
  AU  - Chemnick,Leona G. 
  AU  - Davis,Heidi A. 
  AU  - Zhang,Yaping 
  T1  - Phylogenetic Utility of Nuclear Introns in Interfamilial Relationships of Caniformia (Order Carnivora).
  PY  - 2010
  KW  - phylogeny; intron; Caniformia; intra-individual allele heterozygotes; transposable elements
  UR  - http://dx.doi.org/
  N2  - The monophyletic group Caniformia (dog-like carnivores) in the order Carnivora comprises nine 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 > 22kb 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 non-coding 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 intra-individual 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.
  L3  - 
  JF  - Systematic Biology
  VL  - 
  IS  - 
  ER  -