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      Three new species of Creptotrema (Trematoda, Allocreadiidae) with an amended diagnosis of the genus and reassignment of Auriculostoma (Allocreadiidae), based on morphological and molecular evidence Translated title: Trois nouvelles espèces de Creptotrema (Trematoda, Allocreadiidae) avec diagnostic modifié du genre et une réattribution d’ Auriculostoma (Allocreadiidae) sur la base de preuves morphologiques et moléculaires

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          Abstract

          Diversity of Creptotrema was investigated using morphological and molecular tools, including data for Creptotrema creptotrema (type-species). Three new species, parasites of Brazilian fishes, are described: Creptotrema conconae n. sp. (type-host, Imparfinis mirini Haseman), Creptotrema schubarti n. sp. (type-host, Characidium schubarti Travassos) and Creptotrema megacetabularis n. sp. (type-host, Auchenipterus osteomystax (Miranda Ribeiro)). The diagnosis of the genus was amended to include new features. The new species differ from each other mainly in terms of body shape, relative sucker size, and testes position. DNA sequences were obtained from Creptotrema spp. from Brazil, including 28S, ITS and COI. Genetic divergences among the new species and C. creptotrema varied from 2.1 to 5.2% (21–49 bp) for 28S, and 6.6 to 16.4% (21–45 bp) for COI. Phylogenetic analysis (28S) placed the newly generated DNA sequences of Creptotrema in a clade ( Creptotrema clade sensu stricto) composed of C. creptotrema, the new species described herein, and all species previously described as Auriculostoma, revealing that Auriculostoma is best interpreted as a synonym of Creptotrema based on the principle of priority of zoological nomenclature. Creptotrema funduli, the single sequence of the genus previously available, was not grouped within the Creptotrema clade sensu stricto, suggesting the need for reevaluation of the taxonomic status of this species. Our results showed that Creptotrema represents a monophyletic genus of trematodes widely distributed across the Americas, which currently comprises 19 valid species of parasites of teleosts and anurans.

          Translated abstract

          La diversité de Creptotrema a été étudiée à l’aide d’outils morphologiques et moléculaires, incluant des données pour Creptotrema creptotrema (espèce-type). Trois nouvelles espèces, parasites de poissons brésiliens, sont décrites : Creptotrema conconae n. sp. (hôte-type, Imparfinis mirini Haseman), Creptotrema schubarti n. sp. (hôte-type, Characidium schubarti Travassos) et Creptotrema megacetabularis n. sp. (hôte-type, Auchenipterus osteomystax (Miranda Ribeiro)). Le diagnostic du genre a été modifié pour inclure de nouvelles caractéristiques. Les nouvelles espèces diffèrent les unes des autres principalement en termes de forme du corps, de taille relative des ventouses et de position des testicules. Des séquences d’ADN ont été obtenues de Creptotrema spp. du Brésil, y compris 28S, ITS et COI. Les divergences génétiques entre les nouvelles espèces et C. creptotrema variaient de 2,1 à 5,2 % (21 à 49 pb) pour les séquences 28S, et de 6,6 à 16,4 % (21 à 45 pb) pour le COI. L’analyse phylogénétique (28S) a placé les séquences d’ADN nouvellement générées de Creptotrema dans un clade ( Creptotrema clade sensu stricto) composé de C. creptotrema, les nouvelles espèces décrites ici et toutes les espèces précédemment décrites comme Auriculostoma, révélant qu’ Auriculostoma est mieux interprété comme un synonyme de Creptotrema sur la base du principe de priorité de la nomenclature zoologique. Creptotrema funduli, la seule séquence du genre précédemment disponible, n’a pas été regroupée au sein du clade Creptotrema sensu stricto, ce qui suggère la nécessité d’une réévaluation du statut taxonomique de cette espèce. Nos résultats montrent que Creptotrema est un genre monophylétique de trématodes largement distribué à travers les Amériques, qui comprend actuellement 19 espèces valides, parasites de téléostéens et d’anoures.

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          MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets.

          We present the latest version of the Molecular Evolutionary Genetics Analysis (Mega) software, which contains many sophisticated methods and tools for phylogenomics and phylomedicine. In this major upgrade, Mega has been optimized for use on 64-bit computing systems for analyzing larger datasets. Researchers can now explore and analyze tens of thousands of sequences in Mega The new version also provides an advanced wizard for building timetrees and includes a new functionality to automatically predict gene duplication events in gene family trees. The 64-bit Mega is made available in two interfaces: graphical and command line. The graphical user interface (GUI) is a native Microsoft Windows application that can also be used on Mac OS X. The command line Mega is available as native applications for Windows, Linux, and Mac OS X. They are intended for use in high-throughput and scripted analysis. Both versions are available from www.megasoftware.net free of charge.
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            RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

            Motivation: Phylogenies are increasingly used in all fields of medical and biological research. Moreover, because of the next-generation sequencing revolution, datasets used for conducting phylogenetic analyses grow at an unprecedented pace. RAxML (Randomized Axelerated Maximum Likelihood) is a popular program for phylogenetic analyses of large datasets under maximum likelihood. Since the last RAxML paper in 2006, it has been continuously maintained and extended to accommodate the increasingly growing input datasets and to serve the needs of the user community. Results: I present some of the most notable new features and extensions of RAxML, such as a substantial extension of substitution models and supported data types, the introduction of SSE3, AVX and AVX2 vector intrinsics, techniques for reducing the memory requirements of the code and a plethora of operations for conducting post-analyses on sets of trees. In addition, an up-to-date 50-page user manual covering all new RAxML options is available. Availability and implementation: The code is available under GNU GPL at https://github.com/stamatak/standard-RAxML. Contact: alexandros.stamatakis@h-its.org Supplementary information: Supplementary data are available at Bioinformatics online.
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              Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data

              Summary: The two main functions of bioinformatics are the organization and analysis of biological data using computational resources. Geneious Basic has been designed to be an easy-to-use and flexible desktop software application framework for the organization and analysis of biological data, with a focus on molecular sequences and related data types. It integrates numerous industry-standard discovery analysis tools, with interactive visualizations to generate publication-ready images. One key contribution to researchers in the life sciences is the Geneious public application programming interface (API) that affords the ability to leverage the existing framework of the Geneious Basic software platform for virtually unlimited extension and customization. The result is an increase in the speed and quality of development of computation tools for the life sciences, due to the functionality and graphical user interface available to the developer through the public API. Geneious Basic represents an ideal platform for the bioinformatics community to leverage existing components and to integrate their own specific requirements for the discovery, analysis and visualization of biological data. Availability and implementation: Binaries and public API freely available for download at http://www.geneious.com/basic, implemented in Java and supported on Linux, Apple OSX and MS Windows. The software is also available from the Bio-Linux package repository at http://nebc.nerc.ac.uk/news/geneiousonbl. Contact: peter@biomatters.com
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                Author and article information

                Journal
                Parasite
                Parasite
                parasite
                Parasite
                EDP Sciences
                1252-607X
                1776-1042
                2021
                13 October 2021
                : 28
                : ( publisher-idID: parasite/2021/01 )
                : 69
                Affiliations
                [1 ] São Paulo State University (Unesp), Institute of Biosciences, Section of Parasitology Rua Professor Doutor Antônio Celso Wagner Zanin, n° 250 Botucatu São Paulo CEP 18618-689 Brazil
                [2 ] São Paulo State University (Unesp), Institute of Biosciences, Department of Biodiversity Avenida 24A, 1515, Bela Vista Rio Claro São Paulo CEP 13506-900 Brazil
                Author notes
                Author information
                http://orcid.org/0000-0002-4733-4820
                http://orcid.org/0000-0003-2727-1348
                http://orcid.org/0000-0001-6208-0286
                http://orcid.org/0000-0003-0072-3922
                http://orcid.org/0000-0001-8200-6411
                http://orcid.org/0000-0002-3426-6873
                Article
                parasite210036 10.1051/parasite/2021065
                10.1051/parasite/2021065
                8513519
                34643505
                ea46fad5-8cd1-44bd-9bf3-b7d54139a558
                © L. Franceschini et al., published by EDP Sciences, 2021

                This is an Open Access article distributed under the terms of the Creative Commons Attribution License ( https://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

                History
                : 23 March 2021
                : 19 September 2021
                Page count
                Figures: 8, Tables: 5, Equations: 0, References: 73, Pages: 28
                Funding
                Funded by: Fundação de Amparo à Pesquisa do Estado de São Paulo, doi 10.13039/501100001807;
                Award ID: 2018/25554-2
                Funded by: Fundação de Amparo à Pesquisa do Estado de São Paulo, doi 10.13039/501100001807;
                Award ID: 2016/07829-9
                Funded by: Fundação de Amparo à Pesquisa do Estado de São Paulo, doi 10.13039/501100001807;
                Award ID: 2013/25786-7
                Funded by: Fundação de Amparo à Pesquisa do Estado de São Paulo, doi 10.13039/501100001807;
                Award ID: 2016/50377-1
                Funded by: CAPES (Coordination for the Improvement of Higher Education Personnel)
                Award ID: PNPD 17/2016
                Funded by: Conselho Nacional de Desenvolvimento Científico e Tecnológico, doi 10.13039/501100003593;
                Award ID: 309125/2017-0
                Funded by: Conselho Nacional de Desenvolvimento Científico e Tecnológico, doi 10.13039/501100003593;
                Award ID: 440496/2015-2
                Funded by: Conselho Nacional de Desenvolvimento Científico e Tecnológico, doi 10.13039/501100003593;
                Award ID: 140873/2017-1
                Categories
                Research Article

                digeneans,teleosts,phylogeny,host-parasite relationships,neotropical region

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