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      Extant diversity and estimated number of Gracillariidae (Lepidoptera) species yet to be discovered in the Neotropical region

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          Abstract

          ABSTRACT Gracillariidae (Lepidoptera) are commonly known by the leaf miner habit found in the larval stage of most species. By using worldwide, public databases on species diversity and DNA sequences available for extant gracillariid species, we determined changes in the rate of taxonomic species descriptions through time, mapped their spatial distributions, examined their phylogenetic diversification, and estimated the number of species yet to be described for the family in the Neotropics. We recovered 185 species, a number that is smaller than that found in any other biogeographic region. However, it was estimated that at least 3875 additional species remain to be described in the region. Phylogenetic diversification showed a pattern of expanding diversity. A few entomologists have been involved with gracillariid taxonomy in the Neotropics, having 39% of the species been described by a single taxonomist. In most of such cases, descriptions were based on the adults only. A few species have been described from biomes known to have some of the greatest diversity on earth, such as the Atlantic Forest. Thus, such a scenario results from low sampling and scarce taxonomic activity that has prevailed for this family of moths in the Neotropics. It may also be associated with their small body size and to the fact that gracillariids do not seem to be attracted to light traps as much as other moths, which make their collection and identification by non experts difficult. We also suggested scientific and political actions that could be adopted to overcome such an unfavorable scenario.

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          MEGA6: Molecular Evolutionary Genetics Analysis version 6.0.

          We announce the release of an advanced version of the Molecular Evolutionary Genetics Analysis (MEGA) software, which currently contains facilities for building sequence alignments, inferring phylogenetic histories, and conducting molecular evolutionary analysis. In version 6.0, MEGA now enables the inference of timetrees, as it implements the RelTime method for estimating divergence times for all branching points in a phylogeny. A new Timetree Wizard in MEGA6 facilitates this timetree inference by providing a graphical user interface (GUI) to specify the phylogeny and calibration constraints step-by-step. This version also contains enhanced algorithms to search for the optimal trees under evolutionary criteria and implements a more advanced memory management that can double the size of sequence data sets to which MEGA can be applied. Both GUI and command-line versions of MEGA6 can be downloaded from www.megasoftware.net free of charge.
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            BEAST 2: A Software Platform for Bayesian Evolutionary Analysis

            We present a new open source, extensible and flexible software platform for Bayesian evolutionary analysis called BEAST 2. This software platform is a re-design of the popular BEAST 1 platform to correct structural deficiencies that became evident as the BEAST 1 software evolved. Key among those deficiencies was the lack of post-deployment extensibility. BEAST 2 now has a fully developed package management system that allows third party developers to write additional functionality that can be directly installed to the BEAST 2 analysis platform via a package manager without requiring a new software release of the platform. This package architecture is showcased with a number of recently published new models encompassing birth-death-sampling tree priors, phylodynamics and model averaging for substitution models and site partitioning. A second major improvement is the ability to read/write the entire state of the MCMC chain to/from disk allowing it to be easily shared between multiple instances of the BEAST software. This facilitates checkpointing and better support for multi-processor and high-end computing extensions. Finally, the functionality in new packages can be easily added to the user interface (BEAUti 2) by a simple XML template-based mechanism because BEAST 2 has been re-designed to provide greater integration between the analysis engine and the user interface so that, for example BEAST and BEAUti use exactly the same XML file format.
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              The conditioned reconstructed process.

              We investigate a neutral model for speciation and extinction, the constant rate birth-death process. The process is conditioned to have n extant species today, we look at the tree distribution of the reconstructed trees--i.e. the trees without the extinct species. Whereas the tree shape distribution is well-known and actually the same as under the pure birth process, no analytic results for the speciation times were known. We provide the distribution for the speciation times and calculate the expectations analytically. This characterizes the reconstructed trees completely. We will show how the results can be used to date phylogenies.
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                Author and article information

                Contributors
                Role: ND
                Role: ND
                Role: ND
                Role: ND
                Role: ND
                Role: ND
                Journal
                rbent
                Revista Brasileira de Entomologia
                Rev. Bras. entomol.
                Sociedade Brasileira De Entomologia
                1806-9665
                December 2016
                : 60
                : 4
                : 275-283
                Affiliations
                [1 ] Universidade Federal do Paraná Brazil
                [2 ] Royal Belgian Institute of Natural Sciences Belgium
                [3 ] Universidade Federal do Paraná Brazil
                [4 ] Universidade Federal do Rio Grande do Sul Brazil
                [5 ] Universidad de Tarapacá Chile
                [6 ] Universidade Federal do Rio Grande do Sul Brazil
                Article
                S0085-56262016000400275
                10.1016/j.rbe.2016.06.002
                0de9d8f0-a155-4a4f-a676-857504a98e0a

                This work is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License.

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                Product

                SciELO Brazil

                Self URI (journal page): http://www.scielo.br/scielo.php?script=sci_serial&pid=0085-5626&lng=en
                Categories
                ENTOMOLOGY

                Entomology
                Leaf miner moths,Microlepidoptera,Species richness,Phylogenetic diversification
                Entomology
                Leaf miner moths, Microlepidoptera, Species richness, Phylogenetic diversification

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