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Citation for Study 14354

Citation title: "Coalescent Species Delimitation in Milksnakes (genus Lampropeltis) and Impacts on Phylogenetic Comparative Analyses".

Study name: "Coalescent Species Delimitation in Milksnakes (genus Lampropeltis) and Impacts on Phylogenetic Comparative Analyses".

This study is part of submission 14354 (Status: Published).

Citation

Ruane S., Bryson R., Pyron R.A., & Burbrink F. 2013. Coalescent Species Delimitation in Milksnakes (genus Lampropeltis) and Impacts on Phylogenetic Comparative Analyses. Systematic Biology, .

Authors

• Ruane S. (submitter)
• Bryson R.
• Pyron R.A. 706-489-9727
• Burbrink F.

Abstract

Both gene-tree discordance and unrecognized diversity are sources of error for accurate estimation of species trees, and can affect downstream diversification analyses by obscuring the correct number of nodes, their density, and the lengths of the branches subtending them. While the theoretical impact of gene-tree discordance on evolutionary analyses has been previously examined, the effect of unsampled or cryptic diversity has not. Here, we examine how delimitation of previously unrecognized diversity in the milksnake (Lampropeltis triangulum) and use of a species-tree approach affects both estimation of the Lampropeltis phylogeny and comparative analyses with respect to the timing of diversification. Coalescent species delimitation indicates that L. triangulum is not monophyletic and that there are multiple species of milksnake, which increases the known species diversity in the genus Lampropeltis by 40%. Both genealogical and temporal discordance occurs between gene trees and the species tree, with evidence that mtDNA introgression is a main factor. This discordance is further manifested in the preferred models of diversification, where the concatenated gene tree strongly supports an early burst in speciation during the Miocene, in contrast to species-tree estimates where diversification follows a birth-death model and speciation occurs mostly in the Pliocene and Pleistocene. This study highlights the crucial interaction among coalescent-based phylogeography and species delimitation, systematics, and species diversification analyses.

Keywords

Divergence-time estimation, mtDNA introgression, Lampropeltini, diversification rates, Pleistocene diversification

External links

About this resource

• Canonical resource URI: http://purl.org/phylo/treebase/phylows/study/TB2:S14354
• Other versions: Nexus NeXML
• Show BibTeX reference

  		@ARTICLE{TreeBASE2Ref22109,
  	 author = {Sara  Ruane and R. W.  Bryson and Robert Alexander Pyron and Frank T.  Burbrink},
  	 title = {Coalescent Species Delimitation in Milksnakes (genus Lampropeltis) and Impacts on Phylogenetic Comparative Analyses},
  	 year = {2013},
  	 keywords = {Divergence-time estimation, mtDNA introgression, Lampropeltini, diversification rates, Pleistocene diversification},
  	 doi = {},
  	 url = {http://},
  	 pmid = {},
  	 journal = {Systematic Biology},
  	 volume = {},
  	 number = {},
  	 pages = {},
  	 abstract = {Both gene-tree discordance and unrecognized diversity are sources of error for accurate estimation of species trees, and can affect downstream diversification analyses by obscuring the correct number of nodes, their density, and the lengths of the branches subtending them. While the theoretical impact of gene-tree discordance on evolutionary analyses has been previously examined, the effect of unsampled or cryptic diversity has not. Here, we examine how delimitation of previously unrecognized diversity in the milksnake (Lampropeltis triangulum) and use of a species-tree approach affects both estimation of the Lampropeltis phylogeny and comparative analyses with respect to the timing of diversification. Coalescent species delimitation indicates that L. triangulum is not monophyletic and that there are multiple species of milksnake, which increases the known species diversity in the genus Lampropeltis by 40%. Both genealogical and temporal discordance occurs between gene trees and the species tree, with evidence that mtDNA introgression is a main factor. This discordance is further manifested in the preferred models of diversification, where the concatenated gene tree strongly supports an early burst in speciation during the Miocene, in contrast to species-tree estimates where diversification follows a birth-death model and speciation occurs mostly in the Pliocene and Pleistocene. This study highlights the crucial interaction among coalescent-based phylogeography and species delimitation, systematics, and species diversification analyses.  }
  }
  		

• Show RIS reference

  		TY  - JOUR
  ID  - 22109
  AU  - Ruane,Sara 
  AU  - Bryson,R. W. 
  AU  - Pyron,Robert Alexander
  AU  - Burbrink,Frank T. 
  T1  - Coalescent Species Delimitation in Milksnakes (genus Lampropeltis) and Impacts on Phylogenetic Comparative Analyses
  PY  - 2013
  KW  - Divergence-time estimation
  KW  - mtDNA introgression
  KW  - Lampropeltini
  KW  - diversification rates
  KW  - Pleistocene diversification
  UR  - http://dx.doi.org/
  N2  - Both gene-tree discordance and unrecognized diversity are sources of error for accurate estimation of species trees, and can affect downstream diversification analyses by obscuring the correct number of nodes, their density, and the lengths of the branches subtending them. While the theoretical impact of gene-tree discordance on evolutionary analyses has been previously examined, the effect of unsampled or cryptic diversity has not. Here, we examine how delimitation of previously unrecognized diversity in the milksnake (Lampropeltis triangulum) and use of a species-tree approach affects both estimation of the Lampropeltis phylogeny and comparative analyses with respect to the timing of diversification. Coalescent species delimitation indicates that L. triangulum is not monophyletic and that there are multiple species of milksnake, which increases the known species diversity in the genus Lampropeltis by 40%. Both genealogical and temporal discordance occurs between gene trees and the species tree, with evidence that mtDNA introgression is a main factor. This discordance is further manifested in the preferred models of diversification, where the concatenated gene tree strongly supports an early burst in speciation during the Miocene, in contrast to species-tree estimates where diversification follows a birth-death model and speciation occurs mostly in the Pliocene and Pleistocene. This study highlights the crucial interaction among coalescent-based phylogeography and species delimitation, systematics, and species diversification analyses.  
  L3  - 
  JF  - Systematic Biology
  VL  - 
  IS  - 
  ER  -