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      Revisiting species delimitation within the genus Oxystele using DNA barcoding approach

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          Abstract

          Abstract

          The genus Oxystele, a member of the highly diverse marine gastropod superfamily Trochoidea, is endemic to southern Africa. Members of the genus include some of the most abundant molluscs on southern African shores and are important components of littoral biodiversity in rocky intertidal habitats. Species delimitation within the genus is still controversial, especially regarding the complex O. impervia / O. variegata. Here, we assessed species boundaries within the genus using DNA barcoding and phylogenetic tree reconstruction. We analysed 56 specimens using the mitochondrial gene COI. Our analysis delimits five molecular operational taxonomic units (MOTUs), and distinguishes O. impervia from O. variegata. However, we reveal important discrepancies between MOTUs and morphology-based species identification and discuss alternative hypotheses that can account for this. Finally, we indicate the need for future study that includes additional genes, and the combination of both morphology and genetic techniques (e.g. AFLP or microsatellites) to get deeper insight into species delimitation within the genus.

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          Toward Defining the Course of Evolution: Minimum Change for a Specific Tree Topology

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            DNA barcoding and taxonomy in Diptera: a tale of high intraspecific variability and low identification success.

            DNA barcoding and DNA taxonomy have recently been proposed as solutions to the crisis of taxonomy and received significant attention from scientific journals, grant agencies, natural history museums, and mainstream media. Here, we test two key claims of molecular taxonomy using 1333 mitochondrial COI sequences for 449 species of Diptera. We investigate whether sequences can be used for species identification ("DNA barcoding") and find a relatively low success rate (< 70%) based on tree-based and newly proposed species identification criteria. Misidentifications are due to wide overlap between intra- and interspecific genetic variability, which causes 6.5% of all query sequences to have allospecific or a mixture of allo- and conspecific (3.6%) best-matching barcodes. Even when two COI sequences are identical, there is a 6% chance that they belong to different species. We also find that 21% of all species lack unique barcodes when consensus sequences of all conspecific sequences are used. Lastly, we test whether DNA sequences yield an unambiguous species-level taxonomy when sequence profiles are assembled based on pairwise distance thresholds. We find many sequence triplets for which two of the three pairwise distances remain below the threshold, whereas the third exceeds it; i.e., it is impossible to consistently delimit species based on pairwise distances. Furthermore, for species profiles based on a 3% threshold, only 47% of all profiles are consistent with currently accepted species limits, 20% contain more than one species, and 33% only some sequences from one species; i.e., adopting such a DNA taxonomy would require the redescription of a large proportion of the known species, thus worsening the taxonomic impediment. We conclude with an outlook on the prospects of obtaining complete barcode databases and the future use of DNA sequences in a modern integrative taxonomy.
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              Resolution of the early placental mammal radiation using Bayesian phylogenetics.

              Molecular phylogenetic studies have resolved placental mammals into four major groups, but have not established the full hierarchy of interordinal relationships, including the position of the root. The latter is critical for understanding the early biogeographic history of placentals. We investigated placental phylogeny using Bayesian and maximum-likelihood methods and a 16.4-kilobase molecular data set. Interordinal relationships are almost entirely resolved. The basal split is between Afrotheria and other placentals, at about 103 million years, and may be accounted for by the separation of South America and Africa in the Cretaceous. Crown-group Eutheria may have their most recent common ancestry in the Southern Hemisphere (Gondwana).
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                Author and article information

                Journal
                Zookeys
                Zookeys
                ZooKeys
                ZooKeys
                Pensoft Publishers
                1313-2989
                1313-2970
                2013
                30 December 2013
                : 365
                : 337-354
                Affiliations
                [1 ]Department of Zoology, African Centre for DNA Barcoding (ACDB), Kingsway Campus, University of Johannesburg, PO Box 524, Auckland Park 2006, South Africa
                [2 ]KwaZulu-Natal Museum, P. Bag 9070, Pietermaritzburg 3200, South Africa, and School of Life Sciences, University of KwaZulu-Natal, Pietermaritzburg, 3206 South Africa
                [3 ]Department of Botany and Plant Biotechnology, African Centre for DNA Barcoding (ACDB), Kingsway Campus, University of Johannesburg, PO Box 524, Auckland Park 2006, South Africa
                Author notes
                Corresponding author: Herman Van Der Bank ( hvdbank@ 123456uj.ac.za )

                Academic editor: K. Jordaens

                Article
                10.3897/zookeys.365.5356
                3890686
                94601a6c-9160-4062-9943-7d7a48b2300c
                Herman Van Der Bank, Dai Herbert, Richard Greenfield, Kowiyou Yessoufou

                This is an open access article distributed under the terms of the Creative Commons Attribution License (CC BY 4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

                History
                : 19 April 2013
                : 13 August 2013
                Categories
                Article

                Animal science & Zoology
                species delimitation,mollusca,gastropoda,trochidae,morphology
                Animal science & Zoology
                species delimitation, mollusca, gastropoda, trochidae, morphology

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