The complete mitochondrial genome of click beetle  Chiagosnius vittiger  (Coleoptera: Elateridae) and phylogenetic analysis

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Abstract

In this study, we determined the complete mitochondrial genome sequence of click beetle Chiagosnius vittiger (Heyden, 1887) (GenBank accession no. MN306531) using next-generation sequencing (NGS) method. The mitogenome is 15,842 bp in length, consisting of 13 protein-coding genes (PCGs), two ribosomal RNA genes (rRNAs), 22 transfer RNA genes (tRNAs), and one non-coding control region. The overall nucleotide composition was 41.6% A, 31.1% T, 16.9% C, and 10.4% G, with 72.7% AT, respectively. The gene arrangement is consistent with the typical insect mitochondrial genome. Phylogenetic analysis revealed that C. vittiger clustered into a clade with Chiagosnius sulcicollis with high bootstrap support.

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Reconstructing mitochondrial genomes directly from genomic next-generation sequencing reads—a baiting and iterative mapping approach

Christoph Hahn, Lutz Bachmann, Bastien Chevreux (2013)

We present an in silico approach for the reconstruction of complete mitochondrial genomes of non-model organisms directly from next-generation sequencing (NGS) data—mitochondrial baiting and iterative mapping (MITObim). The method is straightforward even if only (i) distantly related mitochondrial genomes or (ii) mitochondrial barcode sequences are available as starting-reference sequences or seeds, respectively. We demonstrate the efficiency of the approach in case studies using real NGS data sets of the two monogenean ectoparasites species Gyrodactylus thymalli and Gyrodactylus derjavinoides including their respective teleost hosts European grayling (Thymallus thymallus) and Rainbow trout (Oncorhynchus mykiss). MITObim appeared superior to existing tools in terms of accuracy, runtime and memory requirements and fully automatically recovered mitochondrial genomes exceeding 99.5% accuracy from total genomic DNA derived NGS data sets in <24 h using a standard desktop computer. The approach overcomes the limitations of traditional strategies for obtaining mitochondrial genomes for species with little or no mitochondrial sequence information at hand and represents a fast and highly efficient in silico alternative to laborious conventional strategies relying on initial long-range PCR. We furthermore demonstrate the applicability of MITObim for metagenomic/pooled data sets using simulated data. MITObim is an easy to use tool even for biologists with modest bioinformatics experience. The software is made available as open source pipeline under the MIT license at https://github.com/chrishah/MITObim.

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raxmlGUI: a graphical front-end for RAxML

Daniele Silvestro, Ingo Michalak (2012)

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Animal mitochondrial DNA: structure and evolution.

D. R. Wolstenholme (1991)

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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): 4 October 2019

Publication date (Electronic, collection): 2019

Volume: 4

Issue: 2

Pages: 3340-3341

Affiliations

[a ]Key Laboratory of Resource Biology and Biotechnology in Western China (Ministry of Education), Shaanxi Key Laboratory for Animal Conservation, College of Life Science, Northwest University , Xi’an, PR China;

[b ]College of Biology Pharmacy and Food Engineering, Shangluo University , Shangluo, PR China;

[c ]Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences , Beijing, PR China;

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[*]

These authors contributed equally to this work.

CONTACT Yang Liu liuyangent@ 123456nwu.edu.cn Key Laboratory of Resource Biology and Biotechnology in Western China (Ministry of Education), Shaanxi Key Laboratory for Animal Conservation, College of Life Science, Northwest University , Xi’an, Shaanxi Province, PR China; Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences , Beijing, PR China

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Publisher ID: 1673239

DOI: 10.1080/23802359.2019.1673239

PMC ID: 7707251

SO-VID: 7f364967-02a9-4fa1-94ce-692d8292836e

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

The complete mitochondrial genome of click beetle Chiagosnius vittiger (Coleoptera: Elateridae) and phylogenetic analysis

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Most cited references 8

Reconstructing mitochondrial genomes directly from genomic next-generation sequencing reads—a baiting and iterative mapping approach

raxmlGUI: a graphical front-end for RAxML

Animal mitochondrial DNA: structure and evolution.

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