The complete mitochondrial genome sequence and phylogenetic position of Sinocyclocheilus wumengshanensis (Cypriniformes: Cyprinidae)

被引：5
作者：
Chen, Hongyu [1 ]
Li, Chunqing [1 ]
Chen, Shanyuan [1 ]
Xiao, Heng [1 ,2 ]
机构：
[1] Yunnan Univ, Sch Life Sci, Kunming 650091, Yunnan, Peoples R China
[2] Yunnan Univ, Key Lab Anim Genet Divers & Evolut High Educ Yunn, Kunming, Yunnan, Peoples R China
来源：
MITOCHONDRIAL DNA PART B-RESOURCES | 2017年 / 2卷 / 02期
基金：
中国国家自然科学基金;
关键词：
Sinocyclocheilus wumengshanensis; mitogenome sequence; next-generation sequencing;
D O I：
10.1080/23802359.2017.1407701
中图分类号：
Q3 [遗传学];
学科分类号：
071007 ; 090102 ;
摘要：
The complete mitochondrial genome (mitogenome) sequence of Sinocyclocheilus wumengshanensis from Yunnan Province in China was analysed using next-generation sequencing. The complete mitogenome was 16,585 bp in length and consisted of 13 protein-coding genes, two ribosomal RNA (rRNA) genes, 22 transfer RNA (tRNA) genes, and one D-loop region. Nucleotide composition of the whole mitogenome was 30.5% A, 25.2% T, 27.0% C, and 17.2% G. The gene arrangement and nucleotide composition of the mitogenome of S. wumengshanensis were similar to those of other Sinocyclocheilus species. Phylogenetic analyses using mitogenomes of 12 species showed that 10 Sinocyclocheilus species clustered as one monophyletic clade with strong supports and S. wumengshanensis was closely related to S. grahami.
引用
收藏
页码：821 / 822
页数：2
相关论文
共 9 条
[1]   SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing [J].
Bankevich, Anton ;
Nurk, Sergey ;
Antipov, Dmitry ;
Gurevich, Alexey A. ;
Dvorkin, Mikhail ;
Kulikov, Alexander S. ;
Lesin, Valery M. ;
Nikolenko, Sergey I. ;
Son Pham ;
Prjibelski, Andrey D. ;
Pyshkin, Alexey V. ;
Sirotkin, Alexander V. ;
Vyahhi, Nikolay ;
Tesler, Glenn ;
Alekseyev, Max A. ;
Pevzner, Pavel A. .
JOURNAL OF COMPUTATIONAL BIOLOGY, 2012, 19 (05) :455-477
[2]   De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis [J].
Haas, Brian J. ;
Papanicolaou, Alexie ;
Yassour, Moran ;
Grabherr, Manfred ;
Blood, Philip D. ;
Bowden, Joshua ;
Couger, Matthew Brian ;
Eccles, David ;
Li, Bo ;
Lieber, Matthias ;
MacManes, Matthew D. ;
Ott, Michael ;
Orvis, Joshua ;
Pochet, Nathalie ;
Strozzi, Francesco ;
Weeks, Nathan ;
Westerman, Rick ;
William, Thomas ;
Dewey, Colin N. ;
Henschel, Robert ;
Leduc, Richard D. ;
Friedman, Nir ;
Regev, Aviv .
NATURE PROTOCOLS, 2013, 8 (08) :1494-1512
[3]   The complete mitochondrial genome sequence of Sinocyclocheilus jii (Cypriniformes: Cyprinidae) and phylogenetic implications [J].
Li, Chunqing ;
Xiang, Xiaohan ;
Ning, Tiao ;
Chen, Shanyuan ;
Xiao, Heng .
MITOCHONDRIAL DNA PART B-RESOURCES, 2017, 2 (02) :638-639
[4]  
Li Wei-xian, 2003, Jishou Daxue Xuebao (Ziran Kexue Ban), V24, P63
[5]   tRNAscan-SE: A program for improved detection of transfer RNA genes in genomic sequence [J].
Lowe, TM ;
Eddy, SR .
NUCLEIC ACIDS RESEARCH, 1997, 25 (05) :955-964
[6]   MrBayes 3: Bayesian phylogenetic inference under mixed models [J].
Ronquist, F ;
Huelsenbeck, JP .
BIOINFORMATICS, 2003, 19 (12) :1572-1574
[7]  
Tamura K, 2013, MOL BIOL EVOL, V30, P2725, DOI [10.1093/molbev/mst197, 10.1093/molbev/msr121]
[8]   The complete mitochondrial genomes of two species from Sinocyclocheilus (Cypriniformes: Cyprinidae) and a phylogenetic analysis within Cyprininae [J].
Wu, Xiaoyun ;
Wang, Lin ;
Chen, Shanyuan ;
Zan, Ruiguang ;
Xiao, Heng ;
Zhang, Ya-ping .
MOLECULAR BIOLOGY REPORTS, 2010, 37 (05) :2163-2171
[9]   Automatic annotation of organellar genomes with DOGMA [J].
Wyman, SK ;
Jansen, RK ;
Boore, JL .
BIOINFORMATICS, 2004, 20 (17) :3252-3255
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