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Volumn 7, Issue 12, 2012, Pages

Conveniently Pre-Tagged and Pre-Packaged: Extended Molecular Identification and Metagenomics Using Complete Metazoan Mitochondrial Genomes

Author keywords

[No Author keywords available]

Indexed keywords

DNA 16S; MITOCHONDRIAL DNA; RIBOSOME DNA;

EID: 84871314939     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0051263     Document Type: Article
Times cited : (13)

References (93)
  • 1
    • 79951808135 scopus 로고    scopus 로고
    • Next-generation sequencing as a tool to study microbial evolution
    • doi: 10.1111/j.1365-294X.2010.04835.x
    • Brockhurst MA, Colegrave N, Rozen DE, (2011) Next-generation sequencing as a tool to study microbial evolution. Mol Ecol 20 (5):: 972-980 doi: 10.1111/j.1365-294X.2010.04835.x.
    • (2011) Mol Ecol , vol.20 , Issue.5 , pp. 972-980
    • Brockhurst, M.A.1    Colegrave, N.2    Rozen, D.E.3
  • 2
    • 77956798475 scopus 로고    scopus 로고
    • Next-generation sequencing techniques for eukaryotic microorganisms: sequencing-based solutions to biological problems
    • Nowrousian M, (2010) Next-generation sequencing techniques for eukaryotic microorganisms: sequencing-based solutions to biological problems. Eukaryot Cell 9 (9):: 1300-10.
    • (2010) Eukaryot Cell , vol.9 , Issue.9 , pp. 1300-1310
    • Nowrousian, M.1
  • 4
    • 77951929876 scopus 로고    scopus 로고
    • Ultrasequencing of the meiofaunal biosphere: practice, pitfalls and promises
    • Creer S, Fonseca VG, Porazinska DL, Giblin-Davis RM, Sung W, et al. (2010) Ultrasequencing of the meiofaunal biosphere: practice, pitfalls and promises. Mol Ecol 19 Suppl 1: 4-20.
    • (2010) Mol Ecol , vol.19 , Issue.SUPPL. 1 , pp. 4-20
    • Creer, S.1    Fonseca, V.G.2    Porazinska, D.L.3    Giblin-Davis, R.M.4    Sung, W.5
  • 5
    • 84858617141 scopus 로고    scopus 로고
    • Sequencing our way towards understanding global eukaryotic biodiversity
    • Bik HM, Porazinska DL, Creer S, Caporaso JG, Knight R, et al. (2012) Sequencing our way towards understanding global eukaryotic biodiversity. Trends Ecol Evol 27 (4):: 233-243.
    • (2012) Trends Ecol Evol , vol.27 , Issue.4 , pp. 233-243
    • Bik, H.M.1    Porazinska, D.L.2    Creer, S.3    Caporaso, J.G.4    Knight, R.5
  • 6
    • 84859598363 scopus 로고    scopus 로고
    • Towards next-generation biodiversity assessment using DNA metabarcoding
    • Taberlet P, Coissac E, Pompanon F, Brochmann C, Willerslev E, (2012) Towards next-generation biodiversity assessment using DNA metabarcoding. Mol Ecol 21 (8):: 2045-2050.
    • (2012) Mol Ecol , vol.21 , Issue.8 , pp. 2045-2050
    • Taberlet, P.1    Coissac, E.2    Pompanon, F.3    Brochmann, C.4    Willerslev, E.5
  • 7
    • 35648976118 scopus 로고    scopus 로고
    • The diploid genome sequence of an individual human
    • Levy S, Sutton G, Ng PC, Feuk L, Halpern AL, et al. (2007) The diploid genome sequence of an individual human. PLoS Biol 5 (10):: e254.
    • (2007) PLoS Biol , vol.5 , Issue.10
    • Levy, S.1    Sutton, G.2    Ng, P.C.3    Feuk, L.4    Halpern, A.L.5
  • 8
    • 80054776462 scopus 로고    scopus 로고
    • Resources and costs for microbial sequence analysis evaluated using virtual machines and cloud computing
    • Angiuoli SV, White JR, Matalka M, White O, Fricke WF, (2011) Resources and costs for microbial sequence analysis evaluated using virtual machines and cloud computing. PLoS One 6 (10):: e26624.
    • (2011) PLoS One , vol.6 , Issue.10
    • Angiuoli, S.V.1    White, J.R.2    Matalka, M.3    White, O.4    Fricke, W.F.5
  • 9
    • 34248161638 scopus 로고    scopus 로고
    • A comprehensive DNA sequence library is essential for identification with DNA barcodes
    • Ekrem T, Willassen E, Stur E, (2007) A comprehensive DNA sequence library is essential for identification with DNA barcodes. Mol Phylogenet Evol 43 (2):: 530-542.
    • (2007) Mol Phylogenet Evol , vol.43 , Issue.2 , pp. 530-542
    • Ekrem, T.1    Willassen, E.2    Stur, E.3
  • 11
    • 0034619822 scopus 로고    scopus 로고
    • Mitochondrial genome variation and the origin of modern humans
    • Ingman M, Kaessmann H, Pääbo S, Gyllensten U, (2000) Mitochondrial genome variation and the origin of modern humans. Nature 408: 708-713.
    • (2000) Nature , vol.408 , pp. 708-713
    • Ingman, M.1    Kaessmann, H.2    Pääbo, S.3    Gyllensten, U.4
  • 12
    • 0031041407 scopus 로고    scopus 로고
    • Rates of nuclear and cytoplasmic mitochondrial DNA sequence divergence in mammals
    • Lopez JV, Culver M, Stephens JC, Johnson WE, O'Brien SJ, (2007) Rates of nuclear and cytoplasmic mitochondrial DNA sequence divergence in mammals. Mol Biol Evol 14 (3):: 277-286.
    • (2007) Mol Biol Evol , vol.14 , Issue.3 , pp. 277-286
    • Lopez, J.V.1    Culver, M.2    Stephens, J.C.3    Johnson, W.E.4    O'Brien, S.J.5
  • 13
    • 33744997660 scopus 로고    scopus 로고
    • Evolutionary rates, divergence dates, and the performance of mitochondrial genes in Bayesian phylogenetic analysis
    • Mueller RL, (2006) Evolutionary rates, divergence dates, and the performance of mitochondrial genes in Bayesian phylogenetic analysis. Syst Biol 55 (2):: 289-300.
    • (2006) Syst Biol , vol.55 , Issue.2 , pp. 289-300
    • Mueller, R.L.1
  • 14
    • 34547871296 scopus 로고    scopus 로고
    • Variability of the mitochondrial genome in mammals at the inter-species/intra-species boundary
    • Santamaria M, Lanave C, Vicario S, Saccone C, (2007) Variability of the mitochondrial genome in mammals at the inter-species/intra-species boundary. Biol Chem 388 (9):: 943-946.
    • (2007) Biol Chem , vol.388 , Issue.9 , pp. 943-946
    • Santamaria, M.1    Lanave, C.2    Vicario, S.3    Saccone, C.4
  • 16
  • 17
    • 84860508725 scopus 로고    scopus 로고
    • Assessment of Three Mitochondrial Genes (16S, Cytb, CO1) for Identifying Species in the Praomyini Tribe (Rodentia: Muridae
    • doi: 10.1371/journal.pone.0036586
    • Nicolas V, Schaeffer B, Missoup AD, Kennis J, Colyn M, et al. (2012) Assessment of Three Mitochondrial Genes (16S, Cytb, CO1) for Identifying Species in the Praomyini Tribe (Rodentia: Muridae). PLoS ONE 7 (5):: e36586 doi:10.1371/journal.pone.0036586.
    • (2012) PLoS ONE , vol.7 , Issue.5
    • Nicolas, V.1    Schaeffer, B.2    Missoup, A.D.3    Kennis, J.4    Colyn, M.5
  • 19
    • 34248149943 scopus 로고    scopus 로고
    • BOLD: The Barcode of Life Data System
    • Ratnasingham S, Hebert PDN, (2007) BOLD: The Barcode of Life Data System (www.barcodinglife.org). Molecular Ecology Notes 7: 355-364 DOI: 10.1111/j.1471-8286.2006.01678.x.
    • (2007) Molecular Ecology Notes , vol.7 , pp. 355-364
    • Ratnasingham, S.1    Hebert, P.D.N.2
  • 20
    • 80053590068 scopus 로고    scopus 로고
    • Ten new complete mitochondrial genomes of pulmonates (Mollusca: Gastropoda) and their impact on phylogenetic relationships
    • White TR, Conrad MM, Tseng R, Balayan S, Golding R, et al. (2011) Ten new complete mitochondrial genomes of pulmonates (Mollusca: Gastropoda) and their impact on phylogenetic relationships. BMC Evol Biol 11: 295.
    • (2011) BMC Evol Biol , vol.11 , pp. 295
    • White, T.R.1    Conrad, M.M.2    Tseng, R.3    Balayan, S.4    Golding, R.5
  • 21
    • 79959348651 scopus 로고    scopus 로고
    • Evolutionary history of Otophysi (Teleostei), a major clade of the modern freshwater fishes: Pangaean origin and Mesozoic radiation
    • Nakatani M, Miya M, Mabuchi K, Saitoh K, Nishida M, (2011) Evolutionary history of Otophysi (Teleostei), a major clade of the modern freshwater fishes: Pangaean origin and Mesozoic radiation. BMC Evol Biol 11: 177.
    • (2011) BMC Evol Biol , vol.11 , pp. 177
    • Nakatani, M.1    Miya, M.2    Mabuchi, K.3    Saitoh, K.4    Nishida, M.5
  • 22
    • 78649512174 scopus 로고    scopus 로고
    • Multiplexed DNA sequence capture of mitochondrial genomes using PCR products
    • Maricic T, Whitten M, Pääbo S, (2010) Multiplexed DNA sequence capture of mitochondrial genomes using PCR products. PLoS One 5 (11):: e14004.
    • (2010) PLoS One , vol.5 , Issue.11
    • Maricic, T.1    Whitten, M.2    Pääbo, S.3
  • 23
    • 84863824379 scopus 로고    scopus 로고
    • The complete mitochondrial genome of two recently derived species of the fish genus Nannoperca (Perciformes, Percichthyidae
    • Prosdocimi F, de Carvalho DC, de Almeida RN, Beheregaray LB, (2012) The complete mitochondrial genome of two recently derived species of the fish genus Nannoperca (Perciformes, Percichthyidae). Mol Biol Rep 39 (3):: 2767-72.
    • (2012) Mol Biol Rep , vol.39 , Issue.3 , pp. 2767-2772
    • Prosdocimi, F.1    de Carvalho, D.C.2    de Almeida, R.N.3    Beheregaray, L.B.4
  • 24
    • 0027968068 scopus 로고
    • CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
    • Thompson JD, Higgins DG, Gibson TJ, (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22 (22):: 4673-4680.
    • (1994) Nucleic Acids Res , vol.22 , Issue.22 , pp. 4673-4680
    • Thompson, J.D.1    Higgins, D.G.2    Gibson, T.J.3
  • 25
    • 81255207159 scopus 로고    scopus 로고
    • An efficient simulator of 454 data using configurable statistical models
    • Lysholm F, Andersson B, Persson B, (2011) An efficient simulator of 454 data using configurable statistical models. BMC Res Notes 4 (1):: 449.
    • (2011) BMC Res Notes , vol.4 , Issue.1 , pp. 449
    • Lysholm, F.1    Andersson, B.2    Persson, B.3
  • 26
    • 68549104404 scopus 로고    scopus 로고
    • The Sequence Alignment/Map format and SAMtools
    • Li H, Handsaker B, Wysoker A, Fennell T, Ruan J, et al. (2009) The Sequence Alignment/Map format and SAMtools. Bioinformatics 25 (16):: 2078-2079.
    • (2009) Bioinformatics , vol.25 , Issue.16 , pp. 2078-2079
    • Li, H.1    Handsaker, B.2    Wysoker, A.3    Fennell, T.4    Ruan, J.5
  • 27
    • 3042615882 scopus 로고    scopus 로고
    • Using the miraEST assembler for reliable and automated mRNA transcript assembly and SNP detection in sequenced ESTs
    • Chevreux B, Pfisterer T, Drescher B, Driesel AJ, Müller WE, et al. (2004) Using the miraEST assembler for reliable and automated mRNA transcript assembly and SNP detection in sequenced ESTs. Genome Res 14 (6):: 1147-1159 DOI: 10.1101/gr.1917404.
    • (2004) Genome Res , vol.14 , Issue.6 , pp. 1147-1159
    • Chevreux, B.1    Pfisterer, T.2    Drescher, B.3    Driesel, A.J.4    Müller, W.E.5
  • 28
    • 3543051830 scopus 로고    scopus 로고
    • Mauve: multiple alignment of conserved genomic sequence with rearrangements
    • Darling AC, Mau B, Blattner FR, Perna NT, (2004) Mauve: multiple alignment of conserved genomic sequence with rearrangements. Genome Res 14 (7):: 1394-403.
    • (2004) Genome Res , vol.14 , Issue.7 , pp. 1394-1403
    • Darling, A.C.1    Mau, B.2    Blattner, F.R.3    Perna, N.T.4
  • 29
    • 79954532457 scopus 로고    scopus 로고
    • Antarctic Ascidians (Tunicata) of the French-Australian survey CEAMARC in Terre Adélie
    • Monniot F, Dettai A, Eleaume M, Cruaud C, Ameziane N, (2011) Antarctic Ascidians (Tunicata) of the French-Australian survey CEAMARC in Terre Adélie. Zootaxa 2817: 1-54.
    • (2011) Zootaxa , vol.2817 , pp. 1-54
    • Monniot, F.1    Dettai, A.2    Eleaume, M.3    Cruaud, C.4    Ameziane, N.5
  • 30
    • 38949205862 scopus 로고    scopus 로고
    • CO1 DNA barcoding amphibians: take the chance, meet the challenge
    • Smith MA, Poyarkov NA Jr, Hebert PD, (2008) CO1 DNA barcoding amphibians: take the chance, meet the challenge. Mol Ecol Resour 8 (2):: 235-246.
    • (2008) Mol Ecol Resour , vol.8 , Issue.2 , pp. 235-246
    • Smith, M.A.1    Poyarkov Jr., N.A.2    Hebert, P.D.3
  • 31
    • 77956284971 scopus 로고    scopus 로고
    • Assessing the Value of DNA Barcodes and Other Priority Gene Regions for Molecular Phylogenetics of Lepidoptera
    • Wilson JJ, (2010) Assessing the Value of DNA Barcodes and Other Priority Gene Regions for Molecular Phylogenetics of Lepidoptera. PLoS One 5 (5):: e10525.
    • (2010) PLoS One , vol.5 , Issue.5
    • Wilson, J.J.1
  • 32
    • 80052073301 scopus 로고    scopus 로고
    • DNA barcoding to support conservation: species identification, genetic structure and biogeography of fishes in the Murray-Darling River Basin, Australia
    • Hardy CM, Adams DM, Jerry DR, Court LN, Morgan MJ, et al. (2011) DNA barcoding to support conservation: species identification, genetic structure and biogeography of fishes in the Murray-Darling River Basin, Australia. Marine and Freshwater Research 2011, 62: 887-901.
    • (2011) Marine and Freshwater Research , vol.62 , pp. 887-901
    • Hardy, C.M.1    Adams, D.M.2    Jerry, D.R.3    Court, L.N.4    Morgan, M.J.5
  • 33
    • 84874110715 scopus 로고    scopus 로고
    • Molecular characterization and phylogenetic analysis of ascarid nematodes from twenty-one species of captive wild mammals based on mitochondrial and nuclear sequences
    • Li Y, Niu L, Wang Q, Zhang Z, Chen Z, et al. (2012) Molecular characterization and phylogenetic analysis of ascarid nematodes from twenty-one species of captive wild mammals based on mitochondrial and nuclear sequences. Parasitology May 1: 1-10.
    • (2012) Parasitology May , vol.1 , pp. 1-10
    • Li, Y.1    Niu, L.2    Wang, Q.3    Zhang, Z.4    Chen, Z.5
  • 34
    • 34547781750 scopus 로고    scopus 로고
    • MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0
    • Tamura K, Dudley J, Nei M, Kumar S, (2007) MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol Biol Evol 24 (8):: 1596-9.
    • (2007) Mol Biol Evol , vol.24 , Issue.8 , pp. 1596-1599
    • Tamura, K.1    Dudley, J.2    Nei, M.3    Kumar, S.4
  • 35
    • 43149105019 scopus 로고    scopus 로고
    • DNA barcodes provide a quick preview of mitochondrial genome composition
    • Min XJ, Hickey DA, (2007) DNA barcodes provide a quick preview of mitochondrial genome composition. PLoS One 2 (3):: e325.
    • (2007) PLoS One , vol.2 , Issue.3
    • Min, X.J.1    Hickey, D.A.2
  • 36
    • 84871263856 scopus 로고    scopus 로고
    • Chapman AD (2009) Numbers of living species in Australia and the world. Toowoomba, Australia: 2nd edition. Australian Biodiversity Information Services. http://www.environment.gov.au/biodiversity/abrs/publications/other/species-numbers/index.html. Last accessed: 2012 November 12.
  • 38
    • 84864920004 scopus 로고    scopus 로고
    • Comparison of next-generation sequencing systems
    • Liu L, Li Y, Li S, Hu N, He Y, et al. (2012) Comparison of next-generation sequencing systems. J Biomed Biotechnol 2012: 251364.
    • (2012) J Biomed Biotechnol , vol.2012 , pp. 251364
    • Liu, L.1    Li, Y.2    Li, S.3    Hu, N.4    He, Y.5
  • 39
    • 70449106047 scopus 로고    scopus 로고
    • Enabling technologies of genomic-scale sequence enrichment for targeted high-throughput sequencing
    • Summerer D, (2009) Enabling technologies of genomic-scale sequence enrichment for targeted high-throughput sequencing. Genomics 94 (6):: 363-8.
    • (2009) Genomics , vol.94 , Issue.6 , pp. 363-368
    • Summerer, D.1
  • 40
    • 0000390450 scopus 로고
    • Purification of Mitochondrial DNA with Wizard™ Minipreps DNA Purification System
    • Beckman K, Smith MF, Orrego C, (1993) Purification of Mitochondrial DNA with Wizard™ Minipreps DNA Purification System. Promega Notes Magazine 43: 10.
    • (1993) Promega Notes Magazine , vol.43 , pp. 10
    • Beckman, K.1    Smith, M.F.2    Orrego, C.3
  • 41
    • 34347263073 scopus 로고    scopus 로고
    • Purification of mitochondrial and plastid DNA
    • Lang BF, Burger G, (2007) Purification of mitochondrial and plastid DNA. Nat Protoc 2 (3):: 652-660.
    • (2007) Nat Protoc , vol.2 , Issue.3 , pp. 652-660
    • Lang, B.F.1    Burger, G.2
  • 42
    • 0017106273 scopus 로고
    • Simple agarose gel electrophoretic method for the identification and characterization of plasmid deoxyribonucleic acid
    • Meyers JA, Sanchez D, Elwell LP, Falkow S, (1976) Simple agarose gel electrophoretic method for the identification and characterization of plasmid deoxyribonucleic acid. J Bacteriol 127 (3):: 1529-1537.
    • (1976) J Bacteriol , vol.127 , Issue.3 , pp. 1529-1537
    • Meyers, J.A.1    Sanchez, D.2    Elwell, L.P.3    Falkow, S.4
  • 43
    • 0000822783 scopus 로고
    • Preparative and analytical purification of DNA from agarose
    • Vogelstein B, Gillespie D, (1979) Preparative and analytical purification of DNA from agarose. Proc Natl Acad Sci U S A 76 (2):: 615-9.
    • (1979) Proc Natl Acad Sci U S A , vol.76 , Issue.2 , pp. 615-619
    • Vogelstein, B.1    Gillespie, D.2
  • 44
  • 45
    • 84871315666 scopus 로고    scopus 로고
    • Life Technologies response to Loman et al. (2012). http://www.iontorrent.com/lomanpaper. Last accessed: 2012 November 12.
  • 46
    • 43149085041 scopus 로고    scopus 로고
    • De novo bacterial genome sequencing: millions of very short reads assembled on a desktop computer
    • Hernandez D, François P, Farinelli L, Osterås M, Schrenzel J, (2008) De novo bacterial genome sequencing: millions of very short reads assembled on a desktop computer. Genome Res 18 (5):: 802-809.
    • (2008) Genome Res , vol.18 , Issue.5 , pp. 802-809
    • Hernandez, D.1    François, P.2    Farinelli, L.3    Osterås, M.4    Schrenzel, J.5
  • 47
    • 43149115851 scopus 로고    scopus 로고
    • Velvet: algorithms for de novo short read assembly using de Bruijn graphs
    • Zerbino DR, Birney E, (2008) Velvet: algorithms for de novo short read assembly using de Bruijn graphs. Genome Res 18: 821-829.
    • (2008) Genome Res , vol.18 , pp. 821-829
    • Zerbino, D.R.1    Birney, E.2
  • 50
    • 80055082271 scopus 로고    scopus 로고
    • Accelerated Profile HMM Searches
    • Eddy SR, (2011) Accelerated Profile HMM Searches. PLoS Comput Biol 2011:7 (10):: e1002195.
    • (2011) PLoS Comput Biol , vol.7 , Issue.10
    • Eddy, S.R.1
  • 51
    • 84858292395 scopus 로고    scopus 로고
    • Improved systematic tRNA gene annotation allows new insights into the evolution of mitochondrial tRNA structures and into the mechanisms of mitochondrial genome rearrangements
    • Jühling F, Pütz J, Bernt M, Donath A, Middendorf M, et al. (2012) Improved systematic tRNA gene annotation allows new insights into the evolution of mitochondrial tRNA structures and into the mechanisms of mitochondrial genome rearrangements. Nucleic Acids Res 40 (7):: 2833-45.
    • (2012) Nucleic Acids Res , vol.40 , Issue.7 , pp. 2833-2845
    • Jühling, F.1    Pütz, J.2    Bernt, M.3    Donath, A.4    Middendorf, M.5
  • 52
    • 66749153209 scopus 로고    scopus 로고
    • Editorial: Deep-sea taxonomy: A contribution to our knowledge of biodiversity
    • Brökeland W, George KH, (2009) Editorial: Deep-sea taxonomy: A contribution to our knowledge of biodiversity. Zootaxa 2096: 6-8.
    • (2009) Zootaxa , vol.2096 , pp. 6-8
    • Brökeland, W.1    George, K.H.2
  • 53
    • 31344432889 scopus 로고    scopus 로고
    • The promise of DNA barcoding for taxonomy
    • Hebert PDN, Gregory TR, (2005) The promise of DNA barcoding for taxonomy. Syst Biol 54: 852-859.
    • (2005) Syst Biol , vol.54 , pp. 852-859
    • Hebert, P.D.N.1    Gregory, T.R.2
  • 54
    • 78650604323 scopus 로고    scopus 로고
    • After 7 years and 1000 citations: comparative assessment of the DNA barcoding and the DNA taxonomy proposals for taxonomists and non-taxonomists
    • Teletchea F, (2010) After 7 years and 1000 citations: comparative assessment of the DNA barcoding and the DNA taxonomy proposals for taxonomists and non-taxonomists. Mitochondrial DNA 216: 206-226.
    • (2010) Mitochondrial DNA , vol.216 , pp. 206-226
    • Teletchea, F.1
  • 55
    • 80052593773 scopus 로고    scopus 로고
    • Mitochondrial genomes and Doubly Uniparental Inheritance: new insights from Musculista senhousia sex-linked mitochondrial DNAs (Bivalvia Mytilidae
    • Passamonti M, Ricci A, Milani L, Ghiselli F, (2011) Mitochondrial genomes and Doubly Uniparental Inheritance: new insights from Musculista senhousia sex-linked mitochondrial DNAs (Bivalvia Mytilidae). BMC Genomics 12: 442.
    • (2011) BMC Genomics , vol.12 , pp. 442
    • Passamonti, M.1    Ricci, A.2    Milani, L.3    Ghiselli, F.4
  • 56
  • 57
    • 77953303125 scopus 로고    scopus 로고
    • Mitochondrial heteroplasmy and DNA barcoding in Hawaiian Hylaeus (Nesoprosopis) bees (Hymenoptera: Colletidae
    • Magnacca KN, Brown MJ, (2010) Mitochondrial heteroplasmy and DNA barcoding in Hawaiian Hylaeus (Nesoprosopis) bees (Hymenoptera: Colletidae). BMC Evol Biol 10: 174.
    • (2010) BMC Evol Biol , vol.10 , pp. 174
    • Magnacca, K.N.1    Brown, M.J.2
  • 58
    • 84858778486 scopus 로고    scopus 로고
    • Mitogenome phylogenetics: the impact of using single regions and partitioning schemes on topology, substitution rate and divergence time estimation
    • Duchêne S, Archer FI, Vilstrup J, Caballero S, Morin PA, (2011) Mitogenome phylogenetics: the impact of using single regions and partitioning schemes on topology, substitution rate and divergence time estimation. PLoS One 6 (11):: e27138.
    • (2011) PLoS One , vol.6 , Issue.11
    • Duchêne, S.1    Archer, F.I.2    Vilstrup, J.3    Caballero, S.4    Morin, P.A.5
  • 59
    • 71549149673 scopus 로고    scopus 로고
    • Tunicate mitogenomics and phylogenetics: peculiarities of the Herdmania momus mitochondrial genome and support for the new chordate phylogeny
    • Singh TR, Tsagkogeorga G, Delsuc F, Blanquart S, Shenkar N, et al. (2009) Tunicate mitogenomics and phylogenetics: peculiarities of the Herdmania momus mitochondrial genome and support for the new chordate phylogeny. BMC Genomics 10: 534.
    • (2009) BMC Genomics , vol.10 , pp. 534
    • Singh, T.R.1    Tsagkogeorga, G.2    Delsuc, F.3    Blanquart, S.4    Shenkar, N.5
  • 60
    • 84871316940 scopus 로고    scopus 로고
    • Empirical evaluation of partitioning schemes for phylogenetic analyses of mitogenomic data: An avian case study
    • S1055-7903(12)00363-6
    • Powell AF, Barker FK, Lanyon SM, (2012) Empirical evaluation of partitioning schemes for phylogenetic analyses of mitogenomic data: An avian case study. Mol Phylogenet Evol pp. S1055-7903(12)00363-6.
    • (2012) Mol Phylogenet Evol
    • Powell, A.F.1    Barker, F.K.2    Lanyon, S.M.3
  • 61
    • 0032860013 scopus 로고    scopus 로고
    • Evolutionary genomics in Metazoa: the mitochondrial DNA as a model system
    • Saccone C, De Giorgi C, Gissi C, Pesole G, Reyes A, (1999) Evolutionary genomics in Metazoa: the mitochondrial DNA as a model system. Gene 238 (1):: 195-209.
    • (1999) Gene , vol.238 , Issue.1 , pp. 195-209
    • Saccone, C.1    De Giorgi, C.2    Gissi, C.3    Pesole, G.4    Reyes, A.5
  • 62
    • 52549130466 scopus 로고    scopus 로고
    • Evolution of the mitochondrial genome of Metazoa as exemplified by comparison of congeneric species
    • Gissi C, Iannelli F, Pesole G, (2008) Evolution of the mitochondrial genome of Metazoa as exemplified by comparison of congeneric species. Heredity 101 (4):: 301-20.
    • (2008) Heredity , vol.101 , Issue.4 , pp. 301-320
    • Gissi, C.1    Iannelli, F.2    Pesole, G.3
  • 63
    • 84859323555 scopus 로고    scopus 로고
    • The evolution of the mitochondrial genetic code in arthropods revisited
    • Abascal F, Posada D, Zardoya R, (2012) The evolution of the mitochondrial genetic code in arthropods revisited. Mitochondrial DNA 23 (2):: 84-91.
    • (2012) Mitochondrial DNA , vol.23 , Issue.2 , pp. 84-91
    • Abascal, F.1    Posada, D.2    Zardoya, R.3
  • 64
    • 0029834015 scopus 로고    scopus 로고
    • Phylogenetic performance of mitochondrial protein-coding genes in resolving relationships among vertebrates
    • Zardoya R, Meyer A, (1996) Phylogenetic performance of mitochondrial protein-coding genes in resolving relationships among vertebrates. Mol Biol Evol 13 (7):: 933-942.
    • (1996) Mol Biol Evol , vol.13 , Issue.7 , pp. 933-942
    • Zardoya, R.1    Meyer, A.2
  • 65
    • 70350771134 scopus 로고    scopus 로고
    • Mitochondrial DNA as a marker of molecular diversity: a reappraisal
    • Galtier N, Nabholz B, Glémin S, Hurst GD, (2009) Mitochondrial DNA as a marker of molecular diversity: a reappraisal. Mol Ecol 18 (22):: 4541-45450.
    • (2009) Mol Ecol , vol.18 , Issue.22 , pp. 4541-45450
    • Galtier, N.1    Nabholz, B.2    Glémin, S.3    Hurst, G.D.4
  • 66
    • 67349147341 scopus 로고    scopus 로고
    • Reconstructing the phylogenetic relationships of the earth's most diverse clade of freshwater fishes-order Cypriniformes (Actinopterygii: Ostariophysi): a case study using multiple nuclear loci and the mitochondrial genome
    • Mayden RL, Chen WJ, Bart HL, Doosey MH, Simons AM, et al. (2009) Reconstructing the phylogenetic relationships of the earth's most diverse clade of freshwater fishes-order Cypriniformes (Actinopterygii: Ostariophysi): a case study using multiple nuclear loci and the mitochondrial genome. Mol Phylogenet Evol 51 (3):: 500-514.
    • (2009) Mol Phylogenet Evol , vol.51 , Issue.3 , pp. 500-514
    • Mayden, R.L.1    Chen, W.J.2    Bart, H.L.3    Doosey, M.H.4    Simons, A.M.5
  • 67
    • 56049094112 scopus 로고    scopus 로고
    • Intraspecific phylogeographic genomics from multiple complete mtDNA genomes in Atlantic cod (Gadus morhua): origins of the "codmother," transatlantic vicariance and midglacial population expansion
    • Carr SM, Marshall HD, (2008) Intraspecific phylogeographic genomics from multiple complete mtDNA genomes in Atlantic cod (Gadus morhua): origins of the "codmother," transatlantic vicariance and midglacial population expansion. Genetics 180 (1):: 381-389.
    • (2008) Genetics , vol.180 , Issue.1 , pp. 381-389
    • Carr, S.M.1    Marshall, H.D.2
  • 69
    • 84857124895 scopus 로고    scopus 로고
    • Mitochondrial genomes from modern horses reveal the major haplogroups that underwent domestication
    • Achilli A, Olivieri A, Soares P, Lancioni H, Hooshiar Kashani B, et al. (2012) Mitochondrial genomes from modern horses reveal the major haplogroups that underwent domestication. Proc Natl Acad Sci U S A 109 (7):: 2449-54.
    • (2012) Proc Natl Acad Sci U S A , vol.109 , Issue.7 , pp. 2449-2454
    • Achilli, A.1    Olivieri, A.2    Soares, P.3    Lancioni, H.4    Hooshiar Kashani, B.5
  • 70
    • 79960657575 scopus 로고    scopus 로고
    • DNA barcoding and molecular systematics of the benthic and demersal organisms of the CEAMARC survey
    • doi: 10.1016/j.polar.2011.02.002
    • Dettai A, Adamowizc S, Allcock AL, Arango C, Barnes DK, et al. (2011) DNA barcoding and molecular systematics of the benthic and demersal organisms of the CEAMARC survey. Polar Sci 5 (2):: 298-312 doi:10.1016/j.polar.2011.02.002.
    • (2011) Polar Sci , vol.5 , Issue.2 , pp. 298-312
    • Dettai, A.1    Adamowizc, S.2    Allcock, A.L.3    Arango, C.4    Barnes, D.K.5
  • 71
    • 79954587407 scopus 로고    scopus 로고
    • Environmental Barcoding: A Next-Generation Sequencing Approach for Biomonitoring Applications Using River Benthos
    • Hajibabaei M, Shokralla S, Zhou X, Singer GAC, Baird DJ, (2011) Environmental Barcoding: A Next-Generation Sequencing Approach for Biomonitoring Applications Using River Benthos. Plos One 6 (4):: e17497.
    • (2011) Plos One , vol.6 , Issue.4
    • Hajibabaei, M.1    Shokralla, S.2    Zhou, X.3    Singer, G.A.C.4    Baird, D.J.5
  • 72
    • 2442637641 scopus 로고    scopus 로고
    • NUMTs in sequenced eukaryotic genomes
    • Richly E, Leister D, (2004) NUMTs in sequenced eukaryotic genomes. Mol Biol Evol 21 (6):: 1081-1084.
    • (2004) Mol Biol Evol , vol.21 , Issue.6 , pp. 1081-1084
    • Richly, E.1    Leister, D.2
  • 73
    • 51649110939 scopus 로고    scopus 로고
    • Many species in one: DNA barcoding overestimates the number of species when nuclear mitochondrial pseudogenes are coamplified
    • Song H, Buhay JE, Whiting MF, Crandall KA, (2008) Many species in one: DNA barcoding overestimates the number of species when nuclear mitochondrial pseudogenes are coamplified. Proc Natl Acad Sci U S A 105 (36):: 13486-91.
    • (2008) Proc Natl Acad Sci U S A , vol.105 , Issue.36 , pp. 13486-13491
    • Song, H.1    Buhay, J.E.2    Whiting, M.F.3    Crandall, K.A.4
  • 74
    • 1642297400 scopus 로고    scopus 로고
    • Myth of the molecule: DNA barcodes for species cannot replace morphology for identification and classification
    • Will KW, Rubinoff D, (2004) Myth of the molecule: DNA barcodes for species cannot replace morphology for identification and classification. Cladistics 20: 47-55.
    • (2004) Cladistics , vol.20 , pp. 47-55
    • Will, K.W.1    Rubinoff, D.2
  • 75
    • 22044434823 scopus 로고    scopus 로고
    • Towards integrative taxonomy
    • Dayrat B, (2005) Towards integrative taxonomy. Biol J Linnean Soc 85 (3):: 407-415.
    • (2005) Biol J Linnean Soc , vol.85 , Issue.3 , pp. 407-415
    • Dayrat, B.1
  • 76
    • 50249139663 scopus 로고    scopus 로고
    • Seventeen New Complete mtDNA Sequences Reveal Extensive Mitochondrial Genome Evolution within the Demospongiae
    • doi: 10.1371/journal.pone.0002723
    • Wang X, Lavrov DV, (2008) Seventeen New Complete mtDNA Sequences Reveal Extensive Mitochondrial Genome Evolution within the Demospongiae. PLoS ONE 3 (7):: e2723 doi:10.1371/journal.pone.0002723.
    • (2008) PLoS ONE , vol.3 , Issue.7
    • Wang, X.1    Lavrov, D.V.2
  • 77
    • 0036897723 scopus 로고    scopus 로고
    • Slow mitochondrial DNA sequence evolution in the Anthozoa (Cnidaria
    • Shearer TL, Van Oppen MJH, Romano SL, Wörheide G, (2002) Slow mitochondrial DNA sequence evolution in the Anthozoa (Cnidaria). Mol Ecol 11 (12):: 2475-2487.
    • (2002) Mol Ecol , vol.11 , Issue.12 , pp. 2475-2487
    • Shearer, T.L.1    Van Oppen, M.J.H.2    Romano, S.L.3    Wörheide, G.4
  • 78
    • 40949140505 scopus 로고    scopus 로고
    • Slow mitochondrial COI sequence evolution at the base of the metazoan tree and its implications for DNA barcoding
    • Huang D, Meier R, Todd PA, Chou LM, (2008) Slow mitochondrial COI sequence evolution at the base of the metazoan tree and its implications for DNA barcoding. J Mol Evol 66 (2):: 167-74.
    • (2008) J Mol Evol , vol.66 , Issue.2 , pp. 167-174
    • Huang, D.1    Meier, R.2    Todd, P.A.3    Chou, L.M.4
  • 79
    • 59549091441 scopus 로고    scopus 로고
    • Potential of DNA sequences to identify zoanthids (Cnidaria: Zoantharia
    • Sinniger F, Reimer JD, Pawlowski J, (2008) Potential of DNA sequences to identify zoanthids (Cnidaria: Zoantharia). Zoolog Sci 25 (12):: 1253-1260.
    • (2008) Zoolog Sci , vol.25 , Issue.12 , pp. 1253-1260
    • Sinniger, F.1    Reimer, J.D.2    Pawlowski, J.3
  • 80
    • 83755174645 scopus 로고    scopus 로고
    • Robotic sampling, in situ monitoring and molecular detection of marine zooplankton
    • doi: 10.1016/j.jembe.2011.11.022
    • Harvey JBJ, Ryan JP, Marin R III, Preston CM, Alvarado N, et al. (2012) Robotic sampling, in situ monitoring and molecular detection of marine zooplankton. J Exp Mar Biol Ecol 413: 60-70 doi:10.1016/j.jembe.2011.11.022.
    • (2012) J Exp Mar Biol Ecol , vol.413 , pp. 60-70
    • Harvey, J.B.J.1    Ryan, J.P.2    Marin III., R.3    Preston, C.M.4    Alvarado, N.5
  • 82
    • 78649512700 scopus 로고    scopus 로고
    • Using DNA barcoding and phylogenetics to identify Antarctic invertebrate larvae: Lessons from a large scale study
    • Heimeier D, Lavery S, Sewell MA, (2010) Using DNA barcoding and phylogenetics to identify Antarctic invertebrate larvae: Lessons from a large scale study. Mar Genomics 3 (3-4):: 165-177.
    • (2010) Mar Genomics , vol.3 , Issue.3-4 , pp. 165-177
    • Heimeier, D.1    Lavery, S.2    Sewell, M.A.3
  • 83
    • 78650171235 scopus 로고    scopus 로고
    • A "Rosetta Stone" for zooplankton: DNA barcode analysis of holozooplankton diversity of the Sargasso Sea (NW Atlantic Ocean
    • Bucklin A, Ortman BD, Jennings RM, Nigro L, Sweetman CJ, et al. (2010) A "Rosetta Stone" for zooplankton: DNA barcode analysis of holozooplankton diversity of the Sargasso Sea (NW Atlantic Ocean). Deep-Sea Res II 57: 2234-2224.
    • (2010) Deep-Sea Res II , vol.57 , pp. 2224-2234
    • Bucklin, A.1    Ortman, B.D.2    Jennings, R.M.3    Nigro, L.4    Sweetman, C.J.5
  • 84
    • 75349110972 scopus 로고    scopus 로고
    • DNA barcoding of Arctic Ocean holozooplankton for species identification and recognition
    • Bucklin A, Hopcroft RR, Kosobokova KN, Nigro LN, Ortman BD, et al. (2010) DNA barcoding of Arctic Ocean holozooplankton for species identification and recognition. Deep-Sea Res II 57: 40-48.
    • (2010) Deep-Sea Res II , vol.57 , pp. 40-48
    • Bucklin, A.1    Hopcroft, R.R.2    Kosobokova, K.N.3    Nigro, L.N.4    Ortman, B.D.5
  • 86
    • 84866707721 scopus 로고    scopus 로고
    • Distance and Character-Based Evaluation of the V4 Region of the 18S rRNA Gene for the Identification of Diatoms (Bacillariophyceae
    • Luddington IA, Kaczmarska I, Lovejoy C, (2012) Distance and Character-Based Evaluation of the V4 Region of the 18S rRNA Gene for the Identification of Diatoms (Bacillariophyceae). PLoS One 7 (9):: e45664.
    • (2012) PLoS One , vol.7 , Issue.9
    • Luddington, I.A.1    Kaczmarska, I.2    Lovejoy, C.3
  • 87
    • 79951821767 scopus 로고    scopus 로고
    • How and why DNA barcodes underestimate the diversity of microbial eukaryotes
    • Piganeau G, Eyre-Walker A, Jancek S, Grimsley N, Moreau H, (2011) How and why DNA barcodes underestimate the diversity of microbial eukaryotes. PLoS One 6 (2):: e16342.
    • (2011) PLoS One , vol.6 , Issue.2
    • Piganeau, G.1    Eyre-Walker, A.2    Jancek, S.3    Grimsley, N.4    Moreau, H.5
  • 88
    • 84880321899 scopus 로고    scopus 로고
    • Second-generation environmental sequencing unmasks marine metazoan biodiversity
    • doi: 10.1038/ncomms1095
    • Fonseca VG, Carvalho GR, Sung W, Johnson HF, Power DM, et al. (2010) Second-generation environmental sequencing unmasks marine metazoan biodiversity. Nat Commun 1: 98 doi: 10.1038/ncomms1095.
    • (2010) Nat Commun , vol.1 , pp. 98
    • Fonseca, V.G.1    Carvalho, G.R.2    Sung, W.3    Johnson, H.F.4    Power, D.M.5
  • 89
    • 65549163583 scopus 로고    scopus 로고
    • Intragenomic variability and pseudogenes of ribosomal DNA in stone flounder Kareius bicoloratus
    • Xu J, Zhang Q, Xu X, Wang Z, Qi J, (2009) Intragenomic variability and pseudogenes of ribosomal DNA in stone flounder Kareius bicoloratus. Mol Phylogenet Evol 52 (1):: 157-166.
    • (2009) Mol Phylogenet Evol , vol.52 , Issue.1 , pp. 157-166
    • Xu, J.1    Zhang, Q.2    Xu, X.3    Wang, Z.4    Qi, J.5
  • 90
    • 38849095337 scopus 로고    scopus 로고
    • Sequence variation within the rRNA gene loci of 12 Drosophila species
    • Stage DE, Eickbush TH, (2007) Sequence variation within the rRNA gene loci of 12 Drosophila species. Genome Res 17 (12):: 1888-97.
    • (2007) Genome Res , vol.17 , Issue.12 , pp. 1888-1897
    • Stage, D.E.1    Eickbush, T.H.2
  • 91
    • 77958610660 scopus 로고    scopus 로고
    • pplacer: linear time maximum-likelihood and Bayesian phylogenetic placement of sequences onto a fixed reference tree
    • Matsen FA, Kodner RB, Armbrust EV, (2010) pplacer: linear time maximum-likelihood and Bayesian phylogenetic placement of sequences onto a fixed reference tree. BMC Bioinformatics 11: 538.
    • (2010) BMC Bioinformatics , vol.11 , pp. 538
    • Matsen, F.A.1    Kodner, R.B.2    Armbrust, E.V.3
  • 92
    • 37249027666 scopus 로고    scopus 로고
    • Measuring rDNA diversity in eukaryotic microbial systems: how intragenomic variation, pseudogenes, and PCR artifacts confound biodiversity estimates
    • Thornhill DJ, Lajeunesse TC, Santos SR, (2007) Measuring rDNA diversity in eukaryotic microbial systems: how intragenomic variation, pseudogenes, and PCR artifacts confound biodiversity estimates. Mol Ecol 16 (24):: 5326-40.
    • (2007) Mol Ecol , vol.16 , Issue.24 , pp. 5326-5340
    • Thornhill, D.J.1    Lajeunesse, T.C.2    Santos, S.R.3
  • 93
    • 84861567354 scopus 로고    scopus 로고
    • Sliding window analyses for optimal selection of mini-barcodes, and application to 454-pyrosequencing for specimen identification from degraded DNA
    • Boyer S, Brown SD, Collins RA, Cruickshank RH, Lefort MC, et al. (2012) Sliding window analyses for optimal selection of mini-barcodes, and application to 454-pyrosequencing for specimen identification from degraded DNA. PLoS One 7 (5):: e38215.
    • (2012) PLoS One , vol.7 , Issue.5
    • Boyer, S.1    Brown, S.D.2    Collins, R.A.3    Cruickshank, R.H.4    Lefort, M.C.5


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