Literature DB >> 33457849

The mitochondrial genome of Phyllodiaptomus tunguidus Shen & Tai, 1964 (Copepoda, Calanoida) and its phylogeny.

Xiaoli Zhang1, Shaolin Xu1, Ping Liu1, Qi Huang1, Huiming Li1, Henri J Dumont1,2, Bo-Ping Han1.   

Abstract

The mitochondrial genome of Phyllodiaptomus diaptomus was sequenced and assembled via Next-Generation Sequencing (NGS) and iterative assembly with a reference seed. The genome is 16446 bp long, A + T biased (69.4%), with 13 protein-coding genes, 22 tRNAs, and 2 rRNA. All protein-coding genes are initiated by a typical "ATN" codon. ND1, ND2, ATP6 genes are terminated with "TAG", the other 10 genes are terminated with "TAA". This is the first complete mitogenome published in the Diaptomidae. It provides molecular information useful to a better understanding of the phylogeny of calanoids.
© 2020 The Author(s). Published by Informa UK Limited, trading as Taylor & Francis Group.

Entities:  

Keywords:  Freshwater copepod; Phyllodiaptomus tunguidus; mitogenome; phylogenetic analysis

Year:  2020        PMID： 33457849      PMCID： PMC7782680          DOI： 10.1080/23802359.2020.1763863

Source DB:  PubMed          Journal:  Mitochondrial DNA B Resour        ISSN： 2380-2359            Impact factor:   0.658


  9 in total

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Authors:  S F Altschul; W Gish; W Miller; E W Myers; D J Lipman
Journal:  J Mol Biol       Date:  1990-10-05       Impact factor: 5.469

2.  ARWEN: a program to detect tRNA genes in metazoan mitochondrial nucleotide sequences.

Authors:  Dean Laslett; Björn Canbäck
Journal:  Bioinformatics       Date:  2007-11-22       Impact factor: 6.937

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

Authors:  T M Lowe; S R Eddy
Journal:  Nucleic Acids Res       Date:  1997-03-01       Impact factor: 16.971

4.  MITOS: improved de novo metazoan mitochondrial genome annotation.

Authors:  Matthias Bernt; Alexander Donath; Frank Jühling; Fabian Externbrink; Catherine Florentz; Guido Fritzsch; Joern Pütz; Martin Middendorf; Peter F Stadler
Journal:  Mol Phylogenet Evol       Date:  2012-09-07       Impact factor: 4.286

5.  SimpleSynteny: a web-based tool for visualization of microsynteny across multiple species.

Authors:  Daniel Veltri; Martha Malapi Wight; Jo Anne Crouch
Journal:  Nucleic Acids Res       Date:  2016-05-03       Impact factor: 16.971

6.  Distinctive mitochondrial genome of Calanoid copepod Calanus sinicus with multiple large non-coding regions and reshuffled gene order: useful molecular markers for phylogenetic and population studies.

Authors:  Wang Minxiao; Sun Song; Li Chaolun; Shen Xin
Journal:  BMC Genomics       Date:  2011-01-27       Impact factor: 3.969

7.  AliView: a fast and lightweight alignment viewer and editor for large datasets.

Authors:  Anders Larsson
Journal:  Bioinformatics       Date:  2014-08-05       Impact factor: 6.937

8.  The mitochondrial genome of Atrocalopteryx melli Ris, 1912 (Zygoptera: Calopterygidae) via Ion Torrent PGM NGS sequencing.

Authors:  Shaolin Xu; Zhaoying Guan; Qi Huang; Lei Xu; Andy Vierstraete; Henri J Dumont; Qiuqi Lin
Journal:  Mitochondrial DNA B Resour       Date:  2018-01-11       Impact factor: 0.658

9.  BEAST 2: a software platform for Bayesian evolutionary analysis.

Authors:  Remco Bouckaert; Joseph Heled; Denise Kühnert; Tim Vaughan; Chieh-Hsi Wu; Dong Xie; Marc A Suchard; Andrew Rambaut; Alexei J Drummond
Journal:  PLoS Comput Biol       Date:  2014-04-10       Impact factor: 4.475
  9 in total
  1 in total

1.  The complete mitochondrial genome of Labidocera rotunda Mori, 1929 (Copepoda: Calanoida) from Jeju Island, Korea.

Authors:  Jimoon Jun; Hyeon Gyeong Jeong; Hyeongwoo Choi; Hyunmin Woo; Donggu Jeon; Young-Jin Seo; Seong-Il Eyun
Journal:  Mitochondrial DNA B Resour       Date:  2022-09-23       Impact factor: 0.610
  1 in total

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