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      The complete mitochondrial genome of Fruhstorferiola tonkinensis (Orthoptera: Catantopidae)

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      Author(s): ,
      Publication date (Electronic, pub):
      Publication date (Electronic, collection):
      Journal: Mitochondrial DNA. Part B, Resources
      Publisher: Taylor & Francis
      Keywords: Fruhstorferiola tonkinensis, mitochondrial genome, phylogeny

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          Abstract

          Fruhstorferiola tonkinensis belongs to the group of Catantopidae, which is the largest group in Acridoidae. The complete mitochondrial genome (mitogenome) of Fruhstorferiola tonkinensis is 15,637 bp in length, including 13 protein-coding genes (PCGs), 22 transfer RNA (tRNA) genes, 2 ribosomal RNA genes and 1 A + T-rich region. The gene order and arrangement are identical to other Acridoidae species. Most PCGs (except for the ATP6) start with the typical ATN codons, while most stop codons are TAA, TAG. The combined dataset of 13 PCGs and 2 rRNAs from 17 grasshoppers (including 15 Catantopidae species and 2 outgroups) is used to construct phylogenetic tree and analyse phylogenetic relationship of Catantopidae.

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          tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence.

          Todd Lowe, Sean R. Eddy (1997)
          We describe a program, tRNAscan-SE, which identifies 99-100% of transfer RNA genes in DNA sequence while giving less than one false positive per 15 gigabases. Two previously described tRNA detection programs are used as fast, first-pass prefilters to identify candidate tRNAs, which are then analyzed by a highly selective tRNA covariance model. This work represents a practical application of RNA covariance models, which are general, probabilistic secondary structure profiles based on stochastic context-free grammars. tRNAscan-SE searches at approximately 30 000 bp/s. Additional extensions to tRNAscan-SE detect unusual tRNA homologues such as selenocysteine tRNAs, tRNA-derived repetitive elements and tRNA pseudogenes.
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            Insect mitochondrial genomics: implications for evolution and phylogeny.

            Stephen Cameron (2014)
            The mitochondrial (mt) genome is, to date, the most extensively studied genomic system in insects, outnumbering nuclear genomes tenfold and representing all orders versus very few. Phylogenomic analysis methods have been tested extensively, identifying compositional bias and rate variation, both within and between lineages, as the principal issues confronting accurate analyses. Major studies at both inter- and intraordinal levels have contributed to our understanding of phylogenetic relationships within many groups. Genome rearrangements are an additional data type for defining relationships, with rearrangement synapomorphies identified across multiple orders and at many different taxonomic levels. Hymenoptera and Psocodea have greatly elevated rates of rearrangement offering both opportunities and pitfalls for identifying rearrangement synapomorphies in each group. Finally, insects are model systems for studying aberrant mt genomes, including truncated tRNAs and multichromosomal genomes. Greater integration of nuclear and mt genomic studies is necessary to further our understanding of insect genomic evolution.
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              Insect mitochondrial genomics 2: The complete mitochondrial genome sequence of a giant stonefly, Pteronarcys princeps, asymmetric directional mutation bias, and conserved plecopteran A+T-region elements.

              James Bruce Stewart, Andrew T. Beckenbach (2006)
              Mitochondrial (mt) genome sequences of insects are receiving renewed attention in molecular phylogentic studies, studies of mt-genome rearrangement, and other unusual molecular phenomena, such as translational frameshifting. At present, the basal neopteran lineages are poorly represented by mt-genome sequences. Complete mt-genome sequences are available in the databases for only the Orthoptera and Blatteria; 9 orders are unrepresented. Here, we present the complete mt-genome sequence of a giant stonefly, Pteronarcys princeps (Plecoptera; Pteronarcyidae). The 16,004 bp genome is typical in its genome content, gene organisation, and nucleotide composition. The genome shows evidence of strand-specific mutational biases, correlated with the time between the initiation of leading and the initiation of lagging strand replication. Comparisons with other insects reveal that this trend is seen in other insect groups, but is not universally consistent among sampled mt-genomes. The A+T region is compared with that of 2 stoneflies in the family Peltoperlidae. Conserved stem-loop structures and sequence blocks are noted between these distantly related families.
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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): 6 July 2016
                Publication date (Electronic, collection): 2016
                Volume: 1
                Issue: 1
                Pages: 434-435
                Affiliations
                College of Life Sciences, Shaanxi Normal University , Xi'an, China
                Author notes
                CONTACT Li-liang Lin ll_lin@ 123456163.com College of Life Sciences, Shaanxi Normal University , Xi’an710062, Shaanxi Province, China
                Article
                Publisher ID: 1180555
                DOI: 10.1080/23802359.2016.1180555
                PMC ID: 7800193
                SO-VID: 05260f02-ff94-474a-b1c7-0ae2da8c269d
                Copyright © © 2016 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, Pages: 2
                Categories
                Subject: Research Article
                Subject: Mitogenome Announcement

                Keywords: fruhstorferiola tonkinensis,mitochondrial genome,phylogeny
                Data availability:
                Keywords: fruhstorferiola tonkinensis, mitochondrial genome, phylogeny

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