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Citation for Study 11112

About Citation title: "A 10-gene phylogeny of Solanum section Herpystichum (Solanaceae) and a comparison of phylogenetic methods".
About Study name: "A 10-gene phylogeny of Solanum section Herpystichum (Solanaceae) and a comparison of phylogenetic methods".
About This study is part of submission 11102 (Status: Published).

Citation

Tepe E.J., Farruggia F.T., & Bohs L. 2011. A 10-gene phylogeny of Solanum section Herpystichum (Solanaceae) and a comparison of phylogenetic methods. American Journal of Botany, .

Authors

  • Tepe E.J. (submitter) Phone 513-376-5539
  • Farruggia F.T.
  • Bohs L.

Abstract

• Premise of the study: Solanum section Herpystichum is a lineage that comprises both widespread and very narrowly distributed species. This study investigates the phylogenetic relationships of sect. Herpystichum and evaluates several phylogenetic methods for analysis of multiple sequences. • Methods: Sequence data from seven nuclear (ITS, GBSSI, and five COSII) and three plastid (psbA–trnH, trnT–trnF, and trnS–trnG) regions were concatenated and analyzed under maximum parsimony and Bayesian criteria. In addition, we used two analysis methods that take into account differences in topologies resulting from the analyses of the individual markers: Bayesian Estimation of Species Trees (BEST) and supertree analysis. • Key Results: The monophyletic Solanum sect. Herpystichum was resolved with moderate support in the concatenated maximum parsimony and Bayesian analyses and the supertree analysis, and relationships within the section were well-resolved and strongly supported. The BEST topology, however, was poorly resolved. Also, because of how BEST deals with missing sequences, > 25% of our accessions, including two species, had to be excluded from the analyses. Our results indicate a progenitor-descendent relationship with two species nested within the widespread S. evolvulifolium. • Conclusions: Analysis methods that consider individual topologies are important for studies based on multiple molecular markers. Based on the analyses in this study, BEST had the serious shortcoming that taxa with missing sequences must be removed from the analysis, or they may produce spurious topologies. Supertree analysis provided a good alternative for our data by allowing the inclusion of all 10 species of sect. Herpystichum.

Keywords

Bayesian Estimation of Species trees (BEST); concatenation; COSII markers; Herpystichum; Matrix Representation using Parsimony (MRP); Solanaceae; Solanum; species tree; Supertree

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About this resource

  • Canonical resource URI: http://purl.org/phylo/treebase/phylows/study/TB2:S11112
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