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      Correction: Ultraconserved elements (UCEs) resolve the phylogeny of Australasian smurf-weevils

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          Abstract

          The figure captions for Figs 7, 9 and 10 are incorrect. The figures appear in the correct order. Please view the corrected figure captions for Figs 7, 9 and 10 here. 10.1371/journal.pone.0205049.g001 Fig 7 ASTRAL species tree derived from RAxML trees. Node values indicate bootstrap support values. LEFT: ASTRAL species tree, input trees derived from single-partitioned RAxML analyses of individual gene trees. RIGHT: ASTRAL species tree, input trees derived from multi-partitioned RAxML analyses of individual gene trees. 10.1371/journal.pone.0205049.g002 Fig 9 ASTRAL species tree derived from RAxML single-partition versus MrBayes multi-partition. LEFT: ASTRAL species tree, input trees derived from single-partitioned RAxML analyses (each gene tree reconstructed using a single partition), of individual gene trees. RIGHT: ASTRAL species tree, input trees derived from multi-partitioned MrBayes analyses of individual gene trees. Node values indicate support values of MrBayes posterior (minus burn-in) used as ASTRAL bootstrap replicates. 10.1371/journal.pone.0205049.g003 Fig 10 Phylogenetic tree results of the Eupholini weevils, branch colors correspond to species clades. LEFT: SVDQuartets species tree. Dashed lines denote nodes that differ between trees. Node values indicate bootstrap support values. RIGHT: ASTRAL species tree, input trees derived from multi-partitioned MrBayes analyses of individual gene trees. Node values indicate support values of MrBayes posterior (minus burn-in) used as ASTRAL bootstrap replicates.

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          Ultraconserved elements (UCEs) resolve the phylogeny of Australasian smurf-weevils

          Weevils (Curculionoidea) comprise one of the most diverse groups of organisms on earth. There is hardly a vascular plant or plant part without its own species of weevil feeding on it and weevil species diversity is greater than the number of fishes, birds, reptiles, amphibians and mammals combined. Here, we employ ultraconserved elements (UCEs) designed for beetles and a novel partitioning strategy of loci to help resolve phylogenetic relationships within the radiation of Australasian smurf-weevils (Eupholini). Despite being emblematic of the New Guinea fauna, no previous phylogenetic studies have been conducted on the Eupholini. In addition to a comprehensive collection of fresh specimens, we supplement our taxon sampling with museum specimens, and this study is the first target enrichment phylogenomic dataset incorporating beetle specimens from museum collections. We use both concatenated and species tree analyses to examine the relationships and taxonomy of this group. For species tree analyses we present a novel partitioning strategy to better model the molecular evolutionary process in UCEs. We found that the current taxonomy is problematic, largely grouping species on the basis of similar color patterns. Finally, our results show that most loci required multiple partitions for nucleotide rate substitution, suggesting that single partitions may not be the optimal partitioning strategy to accommodate rate heterogeneity for UCE loci.
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            Author and article information

            Journal
            PLoS One
            PLoS ONE
            plos
            plosone
            PLoS ONE
            Public Library of Science (San Francisco, CA USA )
            1932-6203
            27 September 2018
            2018
            27 September 2018
            : 13
            : 9
            : e0205049
            Article
            PONE-D-18-27409
            10.1371/journal.pone.0205049
            6160192
            30261064
            2bfdad5c-8c0b-4700-b0e0-8a95c824bb51
            © 2018 Van Dam et al

            This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

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