Mitogenomic exploration of higher teleostean phylogenies: a case study for moderate-scale evolutionary genomics with 38 newly determined complete mitochondrial DNA sequences

Molecular Biology and Evolution
M MiyaM Nishida

Abstract

Although adequate resolution of higher-level relationships of organisms apparently requires longer DNA sequences than those currently being analyzed, limitations of time and resources present difficulties in obtaining such sequences from many taxa. For fishes, these difficulties have been overcome by the development of a PCR-based approach for sequencing the complete mitochondrial genome (mitogenome), which employs a long PCR technique and many fish-versatile PCR primers. In addition, recent studies have demonstrated that such mitogenomic data are useful and decisive in resolving persistent controversies over higher-level relationships of teleosts. As a first step toward resolution of higher teleostean relationships, which have been described as the "(unresolved) bush at the top of the tree," we investigated relationships using mitogenomic data from 48 purposefully chosen teleosts, of which those from 38 were newly determined during the present study (a total of 632,315 bp), using the above method. Maximum-parsimony and maximum-likelihood analyses were conducted with the data set that comprised concatenated nucleotide sequences from 12 protein-coding genes (excluding the ND6 gene and third codon positions) and 22 transfer RNA (...Continue Reading

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Citations

Jul 5, 2005·Comptes rendus biologies·Agnès Dettai, Guillaume Lecointre
Dec 10, 2002·Molecular Phylogenetics and Evolution·Jun G InoueMutsumi Nishida
Dec 10, 2002·Molecular Phylogenetics and Evolution·Masaki MiyaMutsumi Nishida
May 14, 2003·Molecular Phylogenetics and Evolution·Naoya B IshiguroMutsumi Nishida
Mar 20, 2003·Molecular Phylogenetics and Evolution·James Bruce Stewart, Andrew T Beckenbach
Dec 17, 2008·Molecular Biology and Evolution·Yusuke YamanoueHarumi Sakai
Jan 29, 2010·Molecular Biology and Evolution·Xuan Zhuang, C-H Christina Cheng
Jul 2, 2010·Molecular Biology and Evolution·Enrico NegrisoloLuca Bargelloni
Jan 10, 2003·Nucleic Acids Research·Daniel JamesonPaul G Higgs
Nov 22, 2002·Biology of Reproduction·G M SomozaN M Sherwood
Jul 19, 2005·Proceedings. Biological Sciences·Scott V EdwardsAndrew M Shedlock
Nov 15, 2005·Genes & Genetic Systems·Yuya ShigenobuHitoshi Ida
May 17, 2012·PloS One·Christine N MeynardEmmanuel J P Douzery
Jul 22, 2014·Gene·M Y NorfatimahM N SitiAzizah
Mar 24, 2015·Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis·Xiaoyun SuiDekui He
Jul 17, 2015·Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis·Chang Eon ParkJae-Ho Shin
Jan 21, 2014·Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis·Chao ChenXiangdi Kong
Jan 21, 2014·Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis·Yanlu LiXiangdi Kong
Feb 20, 2015·Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis·Zhaohui ZhangTianxiang Gao
Feb 25, 2015·Mitochondrial DNA. Part A. DNA Mapping, Sequencing, and Analysis·Tianheng Gao, Daqing Chen

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