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Volumn 30, Issue 6, 2010, Pages 507-512

DNA barcode-based molecular identification system for fish species

Author keywords

DNA barcoding; Fish; Hidden Markov model; Molecular identification system for fish (MISF)

Indexed keywords

GENOMIC DNA; DNA; MITOCHONDRIAL DNA;

EID: 79957772476     PISSN: 10168478     EISSN: 02191032     Source Type: Journal    
DOI: 10.1007/s10059-010-0148-2     Document Type: Article
Times cited : (18)

References (36)
  • 3
    • 65349169533 scopus 로고    scopus 로고
    • Countering criticisms of single mitochondrial DNA gene barcoding in birds
    • Baker, A., Tavares, E., and Elbourne, R. (2009). Countering criticisms of single mitochondrial DNA gene barcoding in birds. Mol. Ecol. Res. 9, 257-268.
    • (2009) Mol. Ecol. Res. , vol.9 , pp. 257-268
    • Baker, A.1    Tavares, E.2    Elbourne, R.3
  • 5
    • 0035358999 scopus 로고    scopus 로고
    • Mitochondrial pseudogenes: Evolution's misplaced witnesses
    • DOI 10.1016/S0169-5347(01)02151-6, PII S0169534701021516
    • Bensasson, D., Zhang, D., Hartl, D., and Hewitt, G. (2001). Mitochondrial pseudogenes: evolution's misplaced witnesses. Trends Ecol. Evol. 16, 314-321. (Pubitemid 32706648)
    • (2001) Trends in Ecology and Evolution , vol.16 , Issue.6 , pp. 314-321
    • Bensasson, D.1    Zhang, D.-X.2    Hartl, D.L.3    Hewitt, G.M.4
  • 6
    • 0035478854 scopus 로고    scopus 로고
    • Random forests
    • DOI 10.1023/A:1010933404324
    • Breiman, L. (2001). Random forests. Machine Learning 45, 5-32. (Pubitemid 32933532)
    • (2001) Machine Learning , vol.45 , Issue.1 , pp. 5-32
    • Breiman, L.1
  • 7
    • 0031743421 scopus 로고    scopus 로고
    • Profile hidden Markov models
    • Eddy, S. (1998). Profile hidden Markov models. Bioinformatics 14, 755-763. (Pubitemid 28552108)
    • (1998) Bioinformatics , vol.14 , Issue.9 , pp. 755-763
    • Eddy, S.R.1
  • 8
    • 0003857782 scopus 로고    scopus 로고
    • Department of Genetics, Washington University School of Medicine
    • Eddy, S. (2008). HMMER user's guide. Department of Genetics, Washington University School of Medicine 2.
    • (2008) HMMER User's Guide , vol.2
    • Eddy, S.1
  • 9
    • 3042666256 scopus 로고    scopus 로고
    • MUSCLE: Multiple sequence alignment with high accuracy and high throughput
    • DOI 10.1093/nar/gkh340
    • Edgar, R. (2004). MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res. 32, 1792-1797. (Pubitemid 38832724)
    • (2004) Nucleic Acids Research , vol.32 , Issue.5 , pp. 1792-1797
    • Edgar, R.C.1
  • 10
    • 34248161638 scopus 로고    scopus 로고
    • A comprehensive DNA sequence library is essential for identification with DNA barcodes
    • DOI 10.1016/j.ympev.2006.11.021, PII S1055790306004775
    • Ekrem, T., Willassen, E., and Stur, E. (2007). A comprehensive DNA sequence library is essential for identification with DNA barcodes. Mol. Phylogenet. Evol. 43, 530-542. (Pubitemid 46705497)
    • (2007) Molecular Phylogenetics and Evolution , vol.43 , Issue.2 , pp. 530-542
    • Ekrem, T.1    Willassen, E.2    Stur, E.3
  • 11
    • 67650281206 scopus 로고    scopus 로고
    • A machine learning based method for the prediction of G protein-coupled receptorbinding PDZ domain proteins
    • Eo, H., Kim, S., Koo, H., and Kim, W. (2009). A machine learning based method for the prediction of G protein-coupled receptorbinding PDZ domain proteins. Mol. Cells 27, 629-634.
    • (2009) Mol. Cells , vol.27 , pp. 629-634
    • Eo, H.1    Kim, S.2    Koo, H.3    Kim, W.4
  • 12
    • 0028528103 scopus 로고
    • DNA primers for amplification of mitochondrial cytochrome c oxidase subunit I from diverse metazoan invertebrates
    • Folmer, O., Black, M., Hoeh, W., Lutz, R., and Vrijenhoek, R. (1994). DNA primers for amplification of mitochondrial cytochrome c oxidase subunit I from diverse metazoan invertebrates. Mol. Marine Biol. Biotech. 3, 294-299.
    • (1994) Mol. Marine Biol. Biotech. , vol.3 , pp. 294-299
    • Folmer, O.1    Black, M.2    Hoeh, W.3    Lutz, R.4    Vrijenhoek, R.5
  • 13
    • 0036492637 scopus 로고    scopus 로고
    • DNA sequences of the mitochondrial COI gene have low levels of divergence among deep-sea octocorals (Cnidaria: Anthozoa)
    • DOI 10.1023/A:1016517724749
    • France, S., and Hoover, L. (2002). DNA sequences of the mitochondrial COI gene have low levels of divergence among deepsea octocorals (Cnidaria: Anthozoa). Hydrobiologia 471, 149-155. (Pubitemid 34788742)
    • (2002) Hydrobiologia , vol.471 , pp. 149-155
    • France, S.C.1    Hoover, L.L.2
  • 15
    • 31344432889 scopus 로고    scopus 로고
    • The promise of DNA barcoding for taxonomy
    • DOI 10.1080/10635150500354886
    • Hebert, P., and Gregory, T. (2005). The promise of DNA barcoding for taxonomy. Systematic Biol. 54, 852-859. (Pubitemid 43142301)
    • (2005) Systematic Biology , vol.54 , Issue.5 , pp. 852-859
    • Hebert, P.D.N.1    Gregory, T.R.2
  • 16
    • 0042531561 scopus 로고    scopus 로고
    • Barcoding animal life: Cytochrome c oxidase subunit 1 divergences among closely related species
    • Hebert, P., Ratnasingham, S., and de Waard, J. (2003). Barcoding animal life: cytochrome c oxidase subunit 1 divergences among closely related species. Proc. Royal Soc. London-B 270, 96-99.
    • (2003) Proc. Royal Soc. London-B , vol.270 , pp. 96-99
    • Hebert, P.1    Ratnasingham, S.2    De Waard, J.3
  • 17
    • 8844220527 scopus 로고    scopus 로고
    • Identification of birds through DNA barcodes
    • Hebert, P., Stoeckle, M., Zemlak, T., and Francis, C. (2004). Identification of birds through DNA barcodes. PLoS Biol. 2, 1657-1663.
    • (2004) PLoS Biol. , vol.2 , pp. 1657-1663
    • Hebert, P.1    Stoeckle, M.2    Zemlak, T.3    Francis, C.4
  • 19
    • 0030305457 scopus 로고    scopus 로고
    • R: A language for data analysis and graphics
    • Ihaka, R., and Gentleman, R. (1996). R: A language for data analysis and graphics. J. Comput. Graph. Statistics 5, 299-314.
    • (1996) J. Comput. Graph. Statistics , vol.5 , pp. 299-314
    • Ihaka, R.1    Gentleman, R.2
  • 20
    • 0019296687 scopus 로고
    • A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences
    • DOI 10.1007/BF01731581
    • Kimura, M. (1980) A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J. Mol. Evol. 16, 111-120. (Pubitemid 11166431)
    • (1980) Journal of Molecular Evolution , vol.16 , Issue.2 , pp. 111-120
    • Kimura, M.1
  • 21
    • 33745829090 scopus 로고    scopus 로고
    • Relationship between morphological taxonomy and molecular divergence within Crustacea: Proposal of a molecular threshold to help species delimitation
    • DOI 10.1016/j.ympev.2006.03.014, PII S1055790306000972
    • Lefebure, T., Douady, C., Gouy, M., and Gibert, J. (2006). Relationship between morphological taxonomy and molecular divergence within Crustacea: proposal of a molecular threshold to help species delimitation. Mol. Phylogenet. Evol. 40, 435-447. (Pubitemid 44038589)
    • (2006) Molecular Phylogenetics and Evolution , vol.40 , Issue.2 , pp. 435-447
    • Lefebure, T.1    Douady, C.J.2    Gouy, M.3    Gibert, J.4
  • 22
    • 29144473686 scopus 로고    scopus 로고
    • DNA barcoding: Error rates based on comprehensive sampling
    • Meyer, C., and Paulay, G. (2005). DNA barcoding: error rates based on comprehensive sampling. PLoS Biol. 3, e422.
    • (2005) PLoS Biol. , vol.3
    • Meyer, C.1    Paulay, G.2
  • 23
    • 33644605459 scopus 로고    scopus 로고
    • Statistical approaches for DNA barcoding
    • Nielsen, R., and Matz, M. (2006). Statistical approaches for DNA barcoding. Systematic Biol. 55, 162-169.
    • (2006) Systematic Biol. , vol.55 , pp. 162-169
    • Nielsen, R.1    Matz, M.2
  • 25
    • 34248149943 scopus 로고    scopus 로고
    • BOLD: The barcode of life data system: Barcoding
    • DOI 10.1111/j.1471-8286.2007.01678.x
    • Ratnasingham, S., and Hebert, P. (2007). BOLD: the Barcode of Life Data System (http://www.barcodinglife.org). Mol. Ecol. Notes 7, 355-364. (Pubitemid 46714172)
    • (2007) Molecular Ecology Notes , vol.7 , Issue.3 , pp. 355-364
    • Ratnasingham, S.1    Hebert, P.D.N.2
  • 26
    • 43949118836 scopus 로고    scopus 로고
    • DNA barcodes of fish of the Scotia Sea, Antarctica indicate priority groups for taxonomic and systematics focus
    • DOI 10.1017/S0954102008001120, PII S0954102008001120
    • Rock, J., Costa, F., Walker, D., North, A., Hutchinson, W., and Carvalho, G. (2008). DNA barcodes of fish of the Scotia Sea, Antarctica indicate priority groups for taxonomic and systematics focus. Antarctic Sci. 20, 253-262. (Pubitemid 351704863)
    • (2008) Antarctic Science , vol.20 , Issue.3 , pp. 253-262
    • Rock, J.1    Costa, F.O.2    Walker, D.I.3    North, A.W.4    Hutchinson, W.F.5    Carvalho, G.R.6
  • 27
    • 84883847509 scopus 로고    scopus 로고
    • DNA barcoding a useful tool for taxonomists
    • Schindel, D., and Miller, S. (2005). DNA barcoding a useful tool for taxonomists. Nature 17, 435.
    • (2005) Nature , vol.17 , pp. 435
    • Schindel, D.1    Miller, S.2
  • 28
    • 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, J., Whiting, M., and Crandall, K. (2008). Many species in one: DNA barcoding overestimates the number of species when nuclear mitochondrial pseudogenes are coamplified. Proc. Natl. Acad. Sci. USA 105, 13486-13491.
    • (2008) Proc. Natl. Acad. Sci. USA , vol.105 , pp. 13486-13491
    • Song, H.1    Buhay, J.2    Whiting, M.3    Crandall, K.4
  • 29
    • 70349931089 scopus 로고    scopus 로고
    • COI barcodes for identification of Merodon hoverflies (Diptera, Syrphidae) of Lesvos Island, Greece
    • Stahls, G., Vujic, A., Perez-banon, C., Radenkovic, S., Rojo, S., and Petanidou, T. (2009). COI barcodes for identification of Merodon hoverflies (Diptera, Syrphidae) of Lesvos Island, Greece. Mol. Ecol. Res. 9, 1431-1438.
    • (2009) Mol. Ecol. Res. , vol.9 , pp. 1431-1438
    • Stahls, G.1    Vujic, A.2    Perez-banon, C.3    Radenkovic, S.4    Rojo, S.5    Petanidou, T.6
  • 31
    • 34547781750 scopus 로고    scopus 로고
    • MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0
    • DOI 10.1093/molbev/msm092
    • Tamura, K., Dudley, J., Nei, M., and Kumar, S. (2007) MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Mol. Biol. Evol. 24, 1596-1599. (Pubitemid 47236692)
    • (2007) Molecular Biology and Evolution , vol.24 , Issue.8 , pp. 1596-1599
    • Tamura, K.1    Dudley, J.2    Nei, M.3    Kumar, S.4
  • 33
    • 41749086468 scopus 로고    scopus 로고
    • Single mitochondrial gene barcodes reliably identify sister-species in diverse clades of birds
    • Tavares, E., and Baker, A. (2008) Single mitochondrial gene barcodes reliably identify sister-species in diverse clades of birds. BMC Evol. Biol. 8, 81.
    • (2008) BMC Evol. Biol. , vol.8 , pp. 81
    • Tavares, E.1    Baker, A.2
  • 34
    • 59149092641 scopus 로고    scopus 로고
    • The campaign to DNA barcode all fishes, FISH-BOL
    • Ward, R., Hanner, R., and Hebert, P. (2009). The campaign to DNA barcode all fishes, FISH-BOL. J. Fish Biol. 74, 329-356.
    • (2009) J. Fish Biol. , vol.74 , pp. 329-356
    • Ward, R.1    Hanner, R.2    Hebert, P.3
  • 35
    • 33847411916 scopus 로고    scopus 로고
    • DNA barcoding in animal species: Progress, potential and pitfalls
    • DOI 10.1002/bies.20529
    • Waugh, J. (2007). DNA barcoding in animal species: progress, potential and pitfalls. BioEssays 29, 188-197. (Pubitemid 46340253)
    • (2007) BioEssays , vol.29 , Issue.2 , pp. 188-197
    • Waugh, J.1


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