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      Molecular delimitation of clades within New World species of the "spiny solanums" ( Solanum subg. Leptostemonum)

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          Abstract

          Solanum subg. Leptostemonum contains approximately 350–450 species, including the cultivated eggplant, S. melongena. Most species placed in this subgenus form a monophyletic group, the Leptostemonum clade, characterized by the presence of stellate hairs and prickles, leading to the common name of "spiny solanums". Here we present a phylogenetic analysis that circumscribes the major clades within the spiny solanums and examines the relationships among them, with an emphasis on New World species. Of particular interest is the clarification of the clade limits and species composition of groups that have not been well‐sampled. We also increase sampling of taxa that have been previously analyzed in molecular studies, namely those in the Torva, Micracantha, and Erythrotrichum clades. These groups have convergent morphological characteristics that have challenged taxonomists, making classification difficult. Results from our study delimit 14 clades within the spiny solanums, including the newly designated Asterophorum, Gardneri, Sisymbriifolium, and Thomasiifolium clades. We also establish the placement of species not previously sampled, especially those endemic to Brazil. These results give an increased understanding of the evolution of the Leptostemonum clade by defining monophyletic groups within it and identify areas of the phylogenetic tree that remain unresolved and require further taxon sampling.

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          Most cited references44

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          AMPLIFICATION AND DIRECT SEQUENCING OF FUNGAL RIBOSOMAL RNA GENES FOR PHYLOGENETICS

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            CONFIDENCE LIMITS ON PHYLOGENIES: AN APPROACH USING THE BOOTSTRAP.

            The recently-developed statistical method known as the "bootstrap" can be used to place confidence intervals on phylogenies. It involves resampling points from one's own data, with replacement, to create a series of bootstrap samples of the same size as the original data. Each of these is analyzed, and the variation among the resulting estimates taken to indicate the size of the error involved in making estimates from the original data. In the case of phylogenies, it is argued that the proper method of resampling is to keep all of the original species while sampling characters with replacement, under the assumption that the characters have been independently drawn by the systematist and have evolved independently. Majority-rule consensus trees can be used to construct a phylogeny showing all of the inferred monophyletic groups that occurred in a majority of the bootstrap samples. If a group shows up 95% of the time or more, the evidence for it is taken to be statistically significant. Existing computer programs can be used to analyze different bootstrap samples by using weights on the characters, the weight of a character being how many times it was drawn in bootstrap sampling. When all characters are perfectly compatible, as envisioned by Hennig, bootstrap sampling becomes unnecessary; the bootstrap method would show significant evidence for a group if it is defined by three or more characters.
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              MRBAYES: Bayesian inference of phylogenetic trees

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                Author and article information

                Contributors
                sstern@coloradomesa.edu
                Journal
                Taxon
                Taxon
                10.1002/(ISSN)1996-8175
                TAX
                Taxon
                John Wiley and Sons Inc. (Hoboken )
                0040-0262
                1996-8175
                27 December 2018
                October 2011
                : 60
                : 5 ( doiID: 10.1002/tax.2011.60.issue-5 )
                : 1429-1441
                Affiliations
                [ 1 ] Department of Biology University of Utah 257 South 1400 East Salt Lake City, Utah 84112-0840 U.S.A.
                [ 2 ] Laboratório de Tecnologia Farmacêutica Universidade Federal da Paraíba Caixa Postal 5009 58051-970 João Pessoa, Paraíba Brasil
                [ 3 ] Department of Biology University of Utah 257 South 1400 East Salt Lake City, Utah 84112-0840 U.S.A.
                Article
                TAX605018
                10.1002/tax.605018
                7169808
                32327851
                7ad7521d-4e14-4b82-9be7-5766ab17d0f6
                © 2011 International Association for Plant Taxonomy (IAPT) all rights reserved

                This article is being made freely available through PubMed Central as part of the COVID-19 public health emergency response. It can be used for unrestricted research re-use and analysis in any form or by any means with acknowledgement of the original source, for the duration of the public health emergency.

                History
                Page count
                Figures: 0, Tables: 0, References: 44, Pages: 13, Words: 1362
                Categories
                Systematics and Phylogenys
                Systematics and Phylogenys
                Custom metadata
                2.0
                October 2011
                Converter:WILEY_ML3GV2_TO_JATSPMC version:5.8.0 mode:remove_FC converted:15.04.2020

                granule-bound starch synthase (gbssi),its,leptostemonum,solanaceae,solanum,trnt-f,waxy

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