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      Lepocreadiidae Odhner, 1905 and Aephnidiogenidae Yamaguti, 1934 (Digenea: Lepocreadioidea) of fishes from Moreton Bay, Queensland, Australia, with the erection of a new family and genus

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      Systematic Parasitology
      Springer Netherlands

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          Abstract

          Digeneans of the lepocreadioid families Lepocreadiidae Odhner, 1905 and Aephnidiogenidae Yamaguti, 1934 from Moreton Bay, off southern Queensland, Australia, are recorded, along with the erection of a new family, Gibsonivermidae. Molecular data were generated for all representatives of these families collected during this study and a phylogram for members of the superfamily was generated based on the partial 28S rDNA dataset, placing these species in context with those previously sequenced. This phylogenetic analysis demonstrates that the monotypic Gibsonivermis Bray, Cribb & Barker, 1997 is isolated from all other lepocreadioids and supports the erection of Gibsonivermidae n. fam., which is defined morphologically, based particularly on the uniquely elongated male terminal genitalia, the distribution of the uterus in the forebody and the presence of a uroproct. Mobahincia teirae n. g., n. sp. is reported from Platax teira (Forsskål) in Moreton Bay and off Heron Island and New Caledonia. Recognition of this new genus is based on molecular results and the combination of caeca abutting the posterior body wall and the lack of an anterior body scoop or flanges. The following lepocreadioid species are reported from Moreton Bay for the first time: Bianium arabicum Sey, 1996 in Lagocephalus lunaris (Bloch & Schneider), Diploproctodaeum cf. monstrosum Bray, Cribb & Justine, 2010 in Arothron hispidus (Linnaeus), Multitestis magnacetabulum Mamaev, 1970 and Neomultitestis aspidogastriformis Bray & Cribb, 2003 in Platax teira and Opechona austrobacillaris Bray & Cribb, 1998 in Pomatomus saltatrix (Linnaeus). Bianium plicitum (Linton, 1928) is reported from Torquigener squamicauda (Ogilby) for the first time. Sequences of newly collected specimens of Austroholorchis sprenti (Gibson, 1987) indicate that the species forms a clade with other members of the Aephnidiogenidae, agreeing with its morphology. The phylogenetic status of all newly sequenced species is discussed.

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          Most cited references48

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          5.8S-28S rRNA interaction and HMM-based ITS2 annotation.

          The internal transcribed spacer 2 (ITS2) of the nuclear ribosomal repeat unit is one of the most commonly applied phylogenetic markers. It is a fast evolving locus, which makes it appropriate for studies at low taxonomic levels, whereas its secondary structure is well conserved, and tree reconstructions are possible at higher taxonomic levels. However, annotation of start and end positions of the ITS2 differs markedly between studies. This is a severe shortcoming, as prediction of a correct secondary structure by standard ab initio folding programs requires accurate identification of the marker in question. Furthermore, the correct structure is essential for multiple sequence alignments based on individual structural features. The present study describes a new tool for the delimitation and identification of the ITS2. It is based on hidden Markov models (HMMs) and verifies annotations by comparison to a conserved structural motif in the 5.8S/28S rRNA regions. Our method was able to identify and delimit the ITS2 in more than 30000 entries lacking start and end annotations in GenBank. Furthermore, 45000 ITS2 sequences with a questionable annotation were re-annotated. Approximately 30000 entries from the ITS2-DB, that uses a homology-based method for structure prediction, were re-annotated. We show that the method is able to correctly annotate an ITS2 as small as 58 nt from Giardia lamblia and an ITS2 as large as 1160 nt from humans. Thus, our method should be a valuable guide during the first and crucial step in any ITS2-based phylogenetic analysis: the delineation of the correct sequence. Sequences can be submitted to the following website for HMM-based ITS2 delineation: http://its2.bioapps.biozentrum.uni-wuerzburg.de.
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            Phylogeny and classification of the Digenea (Platyhelminthes: Trematoda).

            Complete small subunit ribosomal RNA gene (ssrDNA) and partial (D1-D3) large subunit ribosomal RNA gene (lsrDNA) sequences were used to estimate the phylogeny of the Digenea via maximum parsimony and Bayesian inference. Here we contribute 80 new ssrDNA and 124 new lsrDNA sequences. Fully complementary data sets of the two genes were assembled from newly generated and previously published sequences and comprised 163 digenean taxa representing 77 nominal families and seven aspidogastrean outgroup taxa representing three families. Analyses were conducted on the genes independently as well as combined and separate analyses including only the higher plagiorchiidan taxa were performed using a reduced-taxon alignment including additional characters that could not be otherwise unambiguously aligned. The combined data analyses yielded the most strongly supported results and differences between the two methods of analysis were primarily in their degree of resolution. The Bayesian analysis including all taxa and characters, and incorporating a model of nucleotide substitution (general-time-reversible with among-site rate heterogeneity), was considered the best estimate of the phylogeny and was used to evaluate their classification and evolution. In broad terms, the Digenea forms a dichotomy that is split between a lineage leading to the Brachylaimoidea, Diplostomoidea and Schistosomatoidea (collectively the Diplostomida nomen novum (nom. nov.)) and the remainder of the Digenea (the Plagiorchiida), in which the Bivesiculata nom. nov. and Transversotremata nom. nov. form the two most basal lineages, followed by the Hemiurata. The remainder of the Plagiorchiida forms a large number of independent lineages leading to the crown clade Xiphidiata nom. nov. that comprises the Allocreadioidea, Gorgoderoidea, Microphalloidea and Plagiorchioidea, which are united by the presence of a penetrating stylet in their cercariae. Although a majority of families and to a lesser degree, superfamilies are supported as currently defined, the traditional divisions of the Echinostomida, Plagiorchiida and Strigeida were found to comprise non-natural assemblages. Therefore, the membership of established higher taxa are emended, new taxa erected and a revised, phylogenetically based classification proposed and discussed in light of ontogeny, morphology and taxonomic history.
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              ITS2 Database V: Twice as Much.

              The internal transcribed spacer 2 (ITS2) is a well-established marker for phylogenetic analyses in eukaryotes. A reliable resource for reference sequences and their secondary structures is the ITS2 database (http://its2.bioapps.biozentrum.uni-wuerzburg.de/). However, the database was last updated in 2011. Here, we present a major update of the underlying data almost doubling the number of entities. This increases the number of taxa represented within all major eukaryotic clades. Moreover, additional data has been added to underrepresented groups and some new groups have been added. The broader coverage across the tree of life improves phylogenetic analyses and the capability of ITS2 as a DNA barcode.
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                Author and article information

                Contributors
                rab@nhm.ac.uk
                Journal
                Syst Parasitol
                Syst. Parasitol
                Systematic Parasitology
                Springer Netherlands (Dordrecht )
                0165-5752
                1573-5192
                31 May 2018
                31 May 2018
                2018
                : 95
                : 6
                : 479-498
                Affiliations
                [1 ]ISNI 0000 0001 2172 097X, GRID grid.35937.3b, Department of Life Sciences, , Natural History Museum, ; Cromwell Road, London, SW7 5BD UK
                [2 ]ISNI 0000 0000 9320 7537, GRID grid.1003.2, School of Biological Sciences, , The University of Queensland, ; St Lucia, QLD 4072 Australia
                Article
                9803
                10.1007/s11230-018-9803-3
                5993846
                29855981
                0ef343b6-ae24-4595-8173-a213714b59bd
                © The Author(s) 2018

                Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License ( http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made.

                History
                : 13 March 2018
                : 19 May 2018
                Funding
                Funded by: FundRef http://dx.doi.org/10.13039/501100001138, Australian Biological Resources Study;
                Award ID: RF215-40.
                Award Recipient :
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                © Springer Nature B.V. 2018

                Parasitology
                Parasitology

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