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Comparison of Mitochondrial Genome Sequences of Cetartiodactyls (Mammalia, Laurasiatheria)

Received: 28 May 2015     Accepted: 7 June 2015     Published: 16 June 2015
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Abstract

Comparing complete animal mitochondrial genome sequences is becoming increasingly common as a model for genome evolution and phylogenetic reconstruction. In the present work, we compare the complete mitochondrial genome sequences of five species of cetaceans and artiodactyls and infer phylogenetic relationships among them. The genome of the taxa contains the 37 genes found in a typical mammalian genome, a general structure that is highly-conserved among species. Phylogenetic trees constructed using MP, ML, and BI methods show a similar topology, and indicate the paraphyly of Artiodactyla, due to the sister-group relationship between the Cetacea and the Hippopotamidae. The study confirms that mitogenomics is a useful tool for research on mammal phylogenetics, but recognizes that increased taxon sampling is still required to resolve existing differences between nuclear and mitochondrial gene trees.

Published in International Journal of Genetics and Genomics (Volume 3, Issue 3)
DOI 10.11648/j.ijgg.20150303.11
Page(s) 26-31
Creative Commons

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

Copyright

Copyright © The Author(s), 2015. Published by Science Publishing Group

Keywords

Cetartiodactyls, Mitogenomics, Base Composition, Phylogenetic Relationship

References
[1] Wilson K, Cahill V, Ballment E, Benzie J (2000) The complete sequence of the mitochondrial genome of the crustacean Penaeus monodon: are malacostracan crustaceans more closely related to insects than to branchiopods? Mol Biol Evol 17:863–874
[2] Salvato P, Simonato M, Battisti A, Negrisolo E (2008) The complete mitochondrial genome of the bag-shelter moth Ochrogaster lunifer (Lepidoptera, Notodontidae). BMC Genomics 9:331
[3] Cummings MP, Otto SP, Wakeley J (1995) Sampling properties of DNA sequence data in phylogenetic analysis. Mol Biol Evol 12: 814–822
[4] Russo CA, Takezaki N, Nei M (1996) Efficiencies of different genes and different tree-building methods in recovering a known vertebrate phylogeny. Mol Biol Evol 13:525–536
[5] Zardoya R, Meyer A (1996) Phylogenetic performance of mitochondrial protein-coding genes in resolving relationships among vertebrates. Mol Biol Evol 13:933–942
[6] Taanman JW (1999) The mitochondrial genome: structure, transcription, translation and replication. BBA Bioenergetics 1410:103–123
[7] Wilson DE, Reeder DM (2005) Mammal species of the world. A taxonomic and geographic reference, 3rd. ed., Johns Hopkins University Press
[8] Thewissen JG, Hussain ST (1993) Origin of underwater hearing in whales. Nature 361:444–445
[9] Thewissen JG, Williams EM, Roe LJ, Hussain ST (2001) Skeletons of terrestrial cetaceans and the relationship of whales to artiodactyls. Nature 413:277–281
[10] Murphy DA, Stein JA, Schlenger W, Maibach E (2001) Conceptualizing the multidimensional nature of self-efficacy: assessment of situational context and level of behavioral challenge to maintain safer sex. Health Psychology 20:281–290
[11] Hassanin A, Delsuc F, Ropiquet A, Hammere C, Vuuren BJ, Matthee C, Ruiz García M, Catzeflis F, Areskoug V, Couloux A (2012) Pattern and timing of diversification of Cetartiodactyla (Mammalia, Laurasiatheria), as revealed by a comprehensive analysis of mitochondrial genomes. Comptes Rendus Biologies 335:32–50
[12] Wang Q, Yang C (2013) The Phylogeny of the Cetartiodactyla Based on Complete Mitochondrial Genomes. Intern J Biol 5:30–36
[13] Nikaido M, Rooney AP, Okada N (1999) Phylogenetic relationships among cetartiodactyls based on insertions of short and long interpersed elements: hippopotamuses are the closest extant relatives of whales. Proc Nat Acad Sci USA 96:10261–10266
[14] Montgelard C, Catzeflis FM, Douzery E (1997) Phylogenetic relationships of artiodactyls and cetaceans as deduced from the comparison of cytochrome b and 12S rRNA mitochondrial sequences. Mol Biol Evol 14:550–559
[15] Nikaido M, Kawai K, Cao Y, Harada M, Tomita S, Okada N, Hasegawa M (2001) Maximum likelihood analysis of the complete mitochondrial genomes of eutherians and a reevaluation of the phylogeny of bats and insectivores. J Mol Evol 53:508–516
[16] Hall TA (1999) Bioedit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 41:95–8
[17] Swofford DL (2002) PAUP* Phylogenetic Analysis Using Parsimony (*and Other Methods) 4.0 edn Sinauer Sunderland MA
[18] Felsenstein J (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791
[19] Posada D, Crandall KA (1998) MODELTEST: testing the model of DNA substitution. Bioinformatics Applications Note 14:817–818
[20] Ronquist F, Huelsenbeck JP (2003) Mrbayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19:1572–1574
[21] Pumo DE, Finamore PS, Franek WR, Phillips CJ, Tarzami S, Balzarano D (1998) Complete mitochondrial genome of a neotropical fruit bat, Artibeus jamaicensis, and a new hypothesis of the relationships of bats to other eutherian mammals. J Mol Evol 47:709–717
[22] Lin YH, McLenachan PA, Gore AR, Phillips MJ, Ota R, Hendy MD, Penny D (2002) Four new mitochondrial genomes and the increased stability of evolutionary trees of mammals from improved taxon sampling. Mol Biol Evol 19:2060–2070
[23] Meredith RW, Janečka JE, Gatesy J, Ryder OA, Fisher CA, Teeling EC, Simão TLL, Stadler T, Rabosky DL, Honeycutt RL, Flynn JJ, Ingram CM, Steiner C, Williams TL, Robinson TJ, Burk-Herrick A, Westerman M, Ayoub NA, Springer MS, Murphy WJ (2011) Impacts of the Cretaceous Terrestrial Revolution and KPg extinction on mammal diversification. Science 334:521–524
[24] Morin PA, Archer FI, Foote AD, Vilstrup J, Allen EE, Wade P, Durban J, Parsons K, Pitman R, Li L, Bouffard P, Abel Nielsen SC, Rasmussen M, Willerslev E, Gilbert MTP, Harkins T (2010) Complete mitochondrial genome phylogeographic analysis of killer whales (Orcinus orca) indicates multiple species. Genome Research 20:908–916
[25] Douglas KC, Halbert ND, Kolenda C, Childers C, Hunter DL, Derr JN (2011) Complete mitochondrial DNA sequence analysis of Bison bison and bison–cattle hybrids: Function and phylogeny. Mitochondrion 11:166–175
[26] Coskun PE, Ruíz-Pesini E, Wallace DC (2003) Control region mtDNA variants: longevity, climatic adaptation, and a forensic conundrum. Proc Nat Acad Sci USA 100:2174–21726
[27] Meganathan PR, Pagan HJ, McCulloch ES, Stevens RD, Ray DA (2012) Complete mitochondrial genome sequences of three bats species and whole genome mitochondrial analyses reveal patterns of codon bias and lend support to a basal split in Chiroptera. Gene 492:121-129
[28] Asakawa S, Kumazawa Y, Araki T, Himeno H, Miura KI, Watanabe K (1991) Strand-specific nucleotide composition bias in echinoderm and vertebrate mitochondrial genomes. J Mol Evol 32: 511–520
[29] Gingerich PD, ul Haq M, Zalmout IS, Khan IH, Malkani MS (2001) Origin of whales from early artiodactyls: hands and feet of Eocene Protocetidae from Pakistan. Science 293:2239–2242
Cite This Article
  • APA Style

    Wenceslao Parrilla-Martínez, Luis Manuel Guevara-Chumacero. (2015). Comparison of Mitochondrial Genome Sequences of Cetartiodactyls (Mammalia, Laurasiatheria). International Journal of Genetics and Genomics, 3(3), 26-31. https://doi.org/10.11648/j.ijgg.20150303.11

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    ACS Style

    Wenceslao Parrilla-Martínez; Luis Manuel Guevara-Chumacero. Comparison of Mitochondrial Genome Sequences of Cetartiodactyls (Mammalia, Laurasiatheria). Int. J. Genet. Genomics 2015, 3(3), 26-31. doi: 10.11648/j.ijgg.20150303.11

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    AMA Style

    Wenceslao Parrilla-Martínez, Luis Manuel Guevara-Chumacero. Comparison of Mitochondrial Genome Sequences of Cetartiodactyls (Mammalia, Laurasiatheria). Int J Genet Genomics. 2015;3(3):26-31. doi: 10.11648/j.ijgg.20150303.11

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  • @article{10.11648/j.ijgg.20150303.11,
      author = {Wenceslao Parrilla-Martínez and Luis Manuel Guevara-Chumacero},
      title = {Comparison of Mitochondrial Genome Sequences of Cetartiodactyls (Mammalia, Laurasiatheria)},
      journal = {International Journal of Genetics and Genomics},
      volume = {3},
      number = {3},
      pages = {26-31},
      doi = {10.11648/j.ijgg.20150303.11},
      url = {https://doi.org/10.11648/j.ijgg.20150303.11},
      eprint = {https://article.sciencepublishinggroup.com/pdf/10.11648.j.ijgg.20150303.11},
      abstract = {Comparing complete animal mitochondrial genome sequences is becoming increasingly common as a model for genome evolution and phylogenetic reconstruction. In the present work, we compare the complete mitochondrial genome sequences of five species of cetaceans and artiodactyls and infer phylogenetic relationships among them. The genome of the taxa contains the 37 genes found in a typical mammalian genome, a general structure that is highly-conserved among species. Phylogenetic trees constructed using MP, ML, and BI methods show a similar topology, and indicate the paraphyly of Artiodactyla, due to the sister-group relationship between the Cetacea and the Hippopotamidae. The study confirms that mitogenomics is a useful tool for research on mammal phylogenetics, but recognizes that increased taxon sampling is still required to resolve existing differences between nuclear and mitochondrial gene trees.},
     year = {2015}
    }
    

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    T1  - Comparison of Mitochondrial Genome Sequences of Cetartiodactyls (Mammalia, Laurasiatheria)
    AU  - Wenceslao Parrilla-Martínez
    AU  - Luis Manuel Guevara-Chumacero
    Y1  - 2015/06/16
    PY  - 2015
    N1  - https://doi.org/10.11648/j.ijgg.20150303.11
    DO  - 10.11648/j.ijgg.20150303.11
    T2  - International Journal of Genetics and Genomics
    JF  - International Journal of Genetics and Genomics
    JO  - International Journal of Genetics and Genomics
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    PB  - Science Publishing Group
    SN  - 2376-7359
    UR  - https://doi.org/10.11648/j.ijgg.20150303.11
    AB  - Comparing complete animal mitochondrial genome sequences is becoming increasingly common as a model for genome evolution and phylogenetic reconstruction. In the present work, we compare the complete mitochondrial genome sequences of five species of cetaceans and artiodactyls and infer phylogenetic relationships among them. The genome of the taxa contains the 37 genes found in a typical mammalian genome, a general structure that is highly-conserved among species. Phylogenetic trees constructed using MP, ML, and BI methods show a similar topology, and indicate the paraphyly of Artiodactyla, due to the sister-group relationship between the Cetacea and the Hippopotamidae. The study confirms that mitogenomics is a useful tool for research on mammal phylogenetics, but recognizes that increased taxon sampling is still required to resolve existing differences between nuclear and mitochondrial gene trees.
    VL  - 3
    IS  - 3
    ER  - 

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Author Information
  • Department of Biology, Autonomous Metropolitan University, Iztapalapa Campus, Mexico City, Mexico

  • Department of Biology, Autonomous Metropolitan University, Iztapalapa Campus, Mexico City, Mexico

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