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      Nearly complete mitochondrial genome of Trichiosoma vitellina Linné, 1760 (Hymenoptera: Tenthredinidae): sequencing and phylogenetic analysis

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      Publication date (Electronic, pub):
      Publication date (Electronic, collection):
      Journal: Mitochondrial DNA. Part B, Resources
      Publisher: Taylor & Francis
      Keywords: Mitogenome, next-generation sequencing, phylogeny, Tenthredinidae, Trichiosoma

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          Abstract

          The nearly complete mitochondrial genome of Trichiosoma vitellina is 15,245 bp long. It has the A + T content of 81.6% and contains 13 protein-coding genes (PCGs), 22 tRNA genes, and 2 rRNA genes. Gene rearrangement is present in the mitogenome of T. vitellina. All PCGs use standard ATN as start codons, and most PCGs have complete TAN as stop codons. Phylogenetic analysis demonstrates the position of T. vitellina in the Tenthredinoidea. This study provides essential data for the conservation genetics of T. vitellina and advances the understanding of the phylogeny of Cimbicidae.

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          MITOS: improved de novo metazoan mitochondrial genome annotation.

          Matthias Bernt, Alexander Donath, Frank Jühling … (2013)
          About 2000 completely sequenced mitochondrial genomes are available from the NCBI RefSeq data base together with manually curated annotations of their protein-coding genes, rRNAs, and tRNAs. This annotation information, which has accumulated over two decades, has been obtained with a diverse set of computational tools and annotation strategies. Despite all efforts of manual curation it is still plagued by misassignments of reading directions, erroneous gene names, and missing as well as false positive annotations in particular for the RNA genes. Taken together, this causes substantial problems for fully automatic pipelines that aim to use these data comprehensively for studies of animal phylogenetics and the molecular evolution of mitogenomes. The MITOS pipeline is designed to compute a consistent de novo annotation of the mitogenomic sequences. We show that the results of MITOS match RefSeq and MitoZoa in terms of annotation coverage and quality. At the same time we avoid biases, inconsistencies of nomenclature, and typos originating from manual curation strategies. The MITOS pipeline is accessible online at http://mitos.bioinf.uni-leipzig.de. Copyright © 2012 Elsevier Inc. All rights reserved.
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            MitoZ: a toolkit for animal mitochondrial genome assembly, annotation and visualization

            Guanliang Meng, Yiyuan Li, Chentao Yang … (2019)
            Abstract Mitochondrial genome (mitogenome) plays important roles in evolutionary and ecological studies. It becomes routine to utilize multiple genes on mitogenome or the entire mitogenomes to investigate phylogeny and biodiversity of focal groups with the onset of High Throughput Sequencing (HTS) technologies. We developed a mitogenome toolkit MitoZ, consisting of independent modules of de novo assembly, findMitoScaf (find Mitochondrial Scaffolds), annotation and visualization, that can generate mitogenome assembly together with annotation and visualization results from HTS raw reads. We evaluated its performance using a total of 50 samples of which mitogenomes are publicly available. The results showed that MitoZ can recover more full-length mitogenomes with higher accuracy compared to the other available mitogenome assemblers. Overall, MitoZ provides a one-click solution to construct the annotated mitogenome from HTS raw data and will facilitate large scale ecological and evolutionary studies. MitoZ is free open source software distributed under GPLv3 license and available at https://github.com/linzhi2013/MitoZ.
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              World Catalog of Symphyta (Hymenoptera)

              ANDREAS TAEGER, STEPHAN M. BLANK, ANDREW D. LISTON (2010)
              The first complete World Catalog of sawflies (Hymenoptera, suborder Symphyta) for over 100 years is presented. It contains references to the original descriptions and provides brief distributional data for 803 genera, 8353 species (123 with two or more subspecies) and 161 subspecies in addition to the nominal subspecies. 15245 proposed names are treated, including replacement names, infrasubspecific names and nomina nuda, of which only 22 could not be checked in the original publications. Current taxonomic placement of genera and species and occurrence in zoogeographic regions are indicated. The list of names contains 31245 name combinations, variant spellings and family-group names. The authors attempted to consult all publications with taxonomic content referring to Symphyta that have appeared up to 31.12.2009. The 2960 cited references include all those that are known to contain original descriptions of taxa. Short biographical data and portraits of 168 symphytologists as well as images of representatives of extant sawfly taxa are included.
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                Author and article information

                Journal
                Journal ID (nlm-ta): Mitochondrial DNA B Resour
                Journal ID (iso-abbrev): Mitochondrial DNA B Resour
                Title: Mitochondrial DNA. Part B, Resources
                Publisher: Taylor & Francis
                ISSN (Electronic): 2380-2359
                Publication date (Electronic, pub): 24 January 2020
                Publication date (Electronic, collection): 2020
                Volume: 5
                Issue: 1
                Pages: 802-803
                Affiliations
                College of Life Sciences, Jiangxi Normal University , Nanchang, China
                Author notes
                CONTACT Gengyun Niu gyniu@ 123456126.com College of Life Sciences, Jiangxi Normal University , No. 99 Ziyang Road, Nanchang, 330022, China
                Author information
                https://orcid.org/0000-0002-6574-2000
                https://orcid.org/0000-0003-0505-7180
                Article
                Publisher ID: 1715860
                DOI: 10.1080/23802359.2020.1715860
                PMC ID: 7748557
                SO-VID: dbf02ebc-2154-48a3-a8bc-18d3ba25f1bd
                Copyright © © 2020 The Author(s). Published by Informa UK Limited, trading as Taylor & Francis Group.
                License:

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

                History
                Page count
                Figures: 1, Tables: 0, Pages: 2, Words: 959
                Categories
                Subject: Research Article
                Subject: Mitogenome Announcement

                Keywords: mitogenome,next-generation sequencing,phylogeny,tenthredinidae,trichiosoma
                Data availability:
                Keywords: mitogenome, next-generation sequencing, phylogeny, tenthredinidae, trichiosoma

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