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      The complete mitochondrial genome of striped large-eye bream, Gnathodentex aureolineatus (Teleostei, Lethrinidae)

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      a , b , c , d , a , e , a , b , c , d
      Mitochondrial DNA. Part B, Resources
      Taylor & Francis
      Striped large-eye bream, mitogenome, phylogenetics

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          Abstract

          Striped large-eye bream, Gnathodentex aureolineatus (Lacepède, 1802), is of high economic value and has important ecological functions in coral reefs. However, the genetic information of this species is quite limited, and there is taxonomical difficulty in the family Lethrinidae. Here, we present the complete mitochondrial genome of G. aureolineatus obtained with a long PCR approach and Sanger sequencing. The mitogenome was 16,940 bp in length, consisting of 37 genes (13 protein-coding genes, two ribosomal RNA genes, and 22 transfer RNA genes) and two non-coding regions. Both maximum-likelihood and Bayesian inference phylogenetic trees placed the genus Gnathodentex sister to Monotaxis within Lethrinidae. These results contribute toward the taxonomy, conservation, and phylogeny of Lethrinidae.

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          Most cited references21

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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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            MITOS: improved de novo metazoan mitochondrial genome annotation.

            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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              MRBAYES: Bayesian inference of phylogenetic trees

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                Author and article information

                Journal
                Mitochondrial DNA B Resour
                Mitochondrial DNA B Resour
                Mitochondrial DNA. Part B, Resources
                Taylor & Francis
                2380-2359
                8 January 2023
                2023
                8 January 2023
                : 8
                : 1
                : 76-80
                Affiliations
                [a ]CAS Key Laboratory of Tropical Marine Bio-resources and Ecology; Guangdong Provincial Key Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology, Chinese Academy of Sciences , Guangzhou, China
                [b ]Sanya Institute of Ocean Eco-Environmental Engineering, CAS-HKUST Sanya Joint Laboratory of Marine Science Research, Key Laboratory of Tropical Marine Biotechnology of Hainan Province, SCSIO , Sanya, PR China
                [c ]Sanya National Marine Ecosystem Research Station; Tropical Marine Biological Research Station in Hainan, Chinese Academy of Sciences , Sanya, China
                [d ]Innovation Academy of South China Sea Ecology and Environmental Engineering, Chinese Academy of Sciences , Guangzhou, China
                [e ]The center of instruments and determination, South China Sea Institute of Oceanology, Chinese Academy of Sciences , Guangzhou, China
                Author notes
                CONTACT Hui Huang huanghui@ 123456scsio.ac.cn CAS Key Laboratory of Tropical Marine Bio-resources and Ecology; Guangdong Provincial Key Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology, Chinese Academy of Sciences , Guangzhou, China
                Article
                2159557
                10.1080/23802359.2022.2159557
                9833405
                2a9c12ff-f111-4353-aee6-656520c70cc0
                © 2023 The Author(s). Published by Informa UK Limited, trading as Taylor & Francis Group.

                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: 3, Tables: 2, Pages: 5, Words: 2464
                Categories
                Research Article
                Mitogenome Announcement

                striped large-eye bream,mitogenome,phylogenetics
                striped large-eye bream, mitogenome, phylogenetics

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