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      Geography shapes the phylogeny of frailejones (Espeletiinae Cuatrec., Asteraceae): a remarkable example of recent rapid radiation in sky islands

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          Abstract

          Background

          The páramo ecosystem, located above the timberline in the tropical Andes, has been the setting for some of the most dramatic plant radiations, and it is one of the world’s fastest evolving and most diverse high-altitude ecosystems. Today 144+ species of frailejones (subtribe Espeletiinae Cuatrec., Asteraceae) dominate the páramo. Frailejones have intrigued naturalists and botanists, not just for their appealing beauty and impressive morphological diversity, but also for their remarkable adaptations to the extremely harsh environmental conditions of the páramo. Previous attempts to reconstruct the evolutionary history of this group failed to resolve relationships among genera and species, and there is no agreement regarding the classification of the group. Thus, our goal was to reconstruct the phylogeny of the frailejones and to test the influence of the geography on it as a first step to understanding the patterns of radiation of these plants.

          Methods

          Field expeditions in 70 páramos of Colombia and Venezuela resulted in 555 collected samples from 110 species. Additional material was obtained from herbarium specimens. Sequence data included nrDNA (ITS and ETS) and cpDNA (rpl16), for an aligned total of 2,954 bp. Fragment analysis was performed with AFLP data using 28 primer combinations and yielding 1,665 fragments. Phylogenies based on sequence data were reconstructed under maximum parsimony, maximum likelihood and Bayesian inference. The AFLP dataset employed minimum evolution analyses. A Monte Carlo permutation test was used to infer the influence of the geography on the phylogeny.

          Results

          Phylogenies reconstructed suggest that most genera are paraphyletic, but the phylogenetic signal may be misled by hybridization and incomplete lineage sorting. A tree with all the available molecular data shows two large clades: one of primarily Venezuelan species that includes a few neighboring Colombian species; and a second clade of only Colombian species. Results from the Monte Carlo permutation test suggests a very strong influence of the geography on the phylogenetic relationships. Venezuelan páramos tend to hold taxa that are more distantly-related to each other than Colombian páramos, where taxa are more closely-related to each other.

          Conclusions

          Our data suggest the presence of two independent radiations: one in Venezuela and the other in Colombia. In addition, the current generic classification will need to be deeply revised. Analyses show a strong geographic structure in the phylogeny, with large clades grouped in hotspots of diversity at a regional scale, and in páramo localities at a local scale. Differences in the degrees of relatedness between sympatric species of Venezuelan and Colombian páramos may be explained because of the younger age of the latter páramos, and the lesser time for speciation of Espeletiinae in them.

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          AMPLIFICATION AND DIRECT SEQUENCING OF FUNGAL RIBOSOMAL RNA GENES FOR PHYLOGENETICS

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            AFLP: a new technique for DNA fingerprinting.

            A novel DNA fingerprinting technique called AFLP is described. The AFLP technique is based on the selective PCR amplification of restriction fragments from a total digest of genomic DNA. The technique involves three steps: (i) restriction of the DNA and ligation of oligonucleotide adapters, (ii) selective amplification of sets of restriction fragments, and (iii) gel analysis of the amplified fragments. PCR amplification of restriction fragments is achieved by using the adapter and restriction site sequence as target sites for primer annealing. The selective amplification is achieved by the use of primers that extend into the restriction fragments, amplifying only those fragments in which the primer extensions match the nucleotides flanking the restriction sites. Using this method, sets of restriction fragments may be visualized by PCR without knowledge of nucleotide sequence. The method allows the specific co-amplification of high numbers of restriction fragments. The number of fragments that can be analyzed simultaneously, however, is dependent on the resolution of the detection system. Typically 50-100 restriction fragments are amplified and detected on denaturing polyacrylamide gels. The AFLP technique provides a novel and very powerful DNA fingerprinting technique for DNAs of any origin or complexity.
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              Molecular Markers, Natural History and Evolution

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                Author and article information

                Contributors
                Journal
                PeerJ
                PeerJ
                peerj
                peerj
                PeerJ
                PeerJ Inc. (San Francisco, USA )
                2167-8359
                2 February 2017
                2017
                : 5
                : e2968
                Affiliations
                [1 ]Natural Capital and Plant Health Department, Wakehurst Place, Royal Botanic Gardens, Kew , Ardingly, West Sussex, United Kingdom
                [2 ]Department of Biology, Saint Louis University , Saint Louis, MO, United States
                [3 ]Missouri Botanical Garden , Saint Louis, MO, United States
                Article
                2968
                10.7717/peerj.2968
                5292030
                28168124
                9e6802b1-064d-4d5d-b9f7-54e0939db7f1
                ©2017 Diazgranados and Barber

                This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, reproduction and adaptation in any medium and for any purpose provided that it is properly attributed. For attribution, the original author(s), title, publication source (PeerJ) and either DOI or URL of the article must be cited.

                History
                : 29 November 2016
                : 9 January 2017
                Funding
                Funded by: Saint Louis University
                Funded by: National Science Foundation
                Award ID: DEB 1011624
                Funded by: Committee for Research and Exploration of the National Geographic Society
                Award ID: 8613-09
                Funded by: Missouri Botanical Garden
                Funded by: Smithsonian Institution (SI) graduate fellowship
                Funded by: SI Cuatrecasas Fellowship
                Funded by: SI Latino Initiative
                Funded by: Society for Systematic Biologists
                Funded by: American Society of Plant Taxonomist
                Funded by: Botanical Society of America
                Funded by: Idea-Wild Foundation
                Funded by: Neotropical Grassland Conservancy
                Funded by: the Fondo Colombia Biodiversa of the Fundación Alejandro Ángel Escobar
                Financial support provided by Saint Louis University, the National Science Foundation (as a Doctoral Dissertation Improvement Grant, DEB 1011624), the Committee for Research and Exploration of the National Geographic Society (Grant No. 8613-09), the Missouri Botanical Garden, Smithsonian Institution (SI) graduate fellowship, SI Cuatrecasas Fellowship, SI Latino Initiative, Society for Systematic Biologists, American Society of Plant Taxonomist, Botanical Society of America, Idea-Wild Foundation, the Neotropical Grassland Conservancy and the Fondo Colombia Biodiversa of the Fundación Alejandro Ángel Escobar. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
                Categories
                Biodiversity
                Biogeography
                Evolutionary Studies
                Plant Science
                Taxonomy

                carramboa,adaptive radiations,espeletiopsis,libanothamnus,ruilopezia,tamania,páramos,espeletia,coespeletia,paramiflos

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