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Volumn 39, Issue 21, 2011, Pages

EcoPrimers: Inference of new DNA barcode markers from whole genome sequence analysis

Author keywords

[No Author keywords available]

Indexed keywords

PRIMER DNA;

EID: 82255164364     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkr732     Document Type: Article
Times cited : (424)

References (40)
  • 3
    • 34249684822 scopus 로고    scopus 로고
    • DNA-based taxonomy for associating adults and larvae in multi-species assemblages of chafers (Coleoptera: Scarabaeidae)
    • DOI 10.1016/j.ympev.2007.02.024, PII S1055790307000590
    • Ahrens, D., Monaghan, M.T. and Vogler, A.P. (2007) DNA-based taxonomy for associating adults and larvae in multi-species assemblages of chafers (Coleoptera: Scarabaeidae). Mol. Phylogenet Evol., 44, 436-449. (Pubitemid 46829924)
    • (2007) Molecular Phylogenetics and Evolution , vol.44 , Issue.1 , pp. 436-449
    • Ahrens, D.1    Monaghan, M.T.2    Vogler, A.P.3
  • 4
    • 69149084832 scopus 로고    scopus 로고
    • A DNA barcode for land plants
    • CBOL Plant Working Group
    • CBOL Plant Working Group (2009) A DNA barcode for land plants. Proc. Natl Acad. Sci. USA, 106, 12794-12797.
    • (2009) Proc. Natl Acad. Sci. USA , vol.106 , pp. 12794-12797
  • 7
    • 46949088285 scopus 로고    scopus 로고
    • Species detection using environmental DNA from water samples
    • DOI 10.1098/rsbl.2008.0118, PII Y0311412102515N0
    • Ficetola, G.F., Miaud, C., Pompanon, F. and Taberlet, P. (2008) Species detection using environmental DNA from water samples. Biol Lett., 4, 423-425. (Pubitemid 351961462)
    • (2008) Biology Letters , vol.4 , Issue.4 , pp. 423-425
    • Ficetola, G.F.1    Miaud, C.2    Pompanon, F.3    Taberlet, P.4
  • 11
    • 77954336858 scopus 로고    scopus 로고
    • ITS as an environmental DNA barcode for fungi: An in silico approach reveals potential PCR biases
    • Bellemain, E., Carlsen, T., Brochmann, C., Coissac, E., Taberlet, P. and Kauserud, H. (2010) ITS as an environmental DNA barcode for fungi: an in silico approach reveals potential PCR biases. BMC Microbiol., 10, 189.
    • (2010) BMC Microbiol. , vol.10 , pp. 189
    • Bellemain, E.1    Carlsen, T.2    Brochmann, C.3    Coissac, E.4    Taberlet, P.5    Kauserud, H.6
  • 14
    • 0001829453 scopus 로고    scopus 로고
    • Nucleic acids II: The polymerase chain reaction
    • Hillis, D., Moritz, C. and Mable, B. (eds) 2nd edn. Sinauer Assoc., Sunderland, MA
    • Palumbi, S. (1996) Nucleic acids II: the polymerase chain reaction. In: Hillis, D., Moritz, C. and Mable, B. (eds), Molecular Systematics, 2nd edn. Sinauer Assoc., Sunderland, MA, pp. 205-247.
    • (1996) Molecular Systematics , pp. 205-247
    • Palumbi, S.1
  • 17
    • 0033990048 scopus 로고    scopus 로고
    • Primer3 on the WWW for general users and for biologist programmers
    • Rozen, S. and Skaletsky, H. (2000) Primer3 on the WWW for general users and for biologist programmers. Methods Mol. Biol., 132, 365-386.
    • (2000) Methods Mol. Biol. , vol.132 , pp. 365-386
    • Rozen, S.1    Skaletsky, H.2
  • 18
    • 34548738981 scopus 로고    scopus 로고
    • QPRIMER
    • Kim, N. and Lee, C. (2007) QPRIMER. Bioinformatics, 23, 2331-2333.
    • (2007) Bioinformatics , vol.23 , pp. 2331-2333
    • Kim, N.1    Lee, C.2
  • 19
    • 67849103762 scopus 로고    scopus 로고
    • TmPrime: Fast, flexible oligonucleotide design software for gene synthesis
    • Bode, M., Khor, S., Ye, H., Li, M.-H. and Ying, J.Y. (2009) TmPrime: fast, flexible oligonucleotide design software for gene synthesis. Nucleic Acids Res., 37, W214-W221.
    • (2009) Nucleic Acids Res. , vol.37
    • Bode, M.1    Khor, S.2    Ye, H.3    Li, M.-H.4    Ying, J.Y.5
  • 20
    • 45549107624 scopus 로고    scopus 로고
    • UniPrime: A workflow-based platform for improved universal primer design
    • Bekaert, M. and Teeling, E.C. (2008) UniPrime: a workflow-based platform for improved universal primer design. Nucleic Acids Res., 36, e56.
    • (2008) Nucleic Acids Res. , vol.36
    • Bekaert, M.1    Teeling, E.C.2
  • 22
    • 3543104816 scopus 로고    scopus 로고
    • Amplicon: Software for designing PCR primers on aligned DNA sequences
    • DOI 10.1093/bioinformatics/bth121
    • Jarman, S.N. (2004) Amplicon: software for designing pcr primers on aligned dna sequences. Bioinformatics, 20, 1644-1645. (Pubitemid 39023171)
    • (2004) Bioinformatics , vol.20 , Issue.10 , pp. 1644-1645
    • Jarman, S.N.1
  • 24
    • 0016942292 scopus 로고
    • A space-economical suffix tree construction algorithm
    • McCreight, E.M. (1976) A space-economical suffix tree construction algorithm. J. ACM, 23, 262-272.
    • (1976) J. ACM , vol.23 , pp. 262-272
    • McCreight, E.M.1
  • 25
    • 85028161017 scopus 로고
    • SODA '90: Proceedings of the first annual ACM-SIAM symposium on Discrete algorithms
    • Philadelphia, PA, USA
    • Manber, U. and Myers, G. (1990) SODA '90: Proceedings of the first annual ACM-SIAM symposium on Discrete algorithms. Society for Industrial and Applied Mathematics, Philadelphia, PA, USA, pp. 319-327.
    • (1990) Society for Industrial and Applied Mathematics , pp. 319-327
    • Manber, U.1    Myers, G.2
  • 26
    • 0033066718 scopus 로고    scopus 로고
    • REPuter: Fast computation of maximal repeats in complete genomes
    • DOI 10.1093/bioinformatics/15.5.426
    • Kurtz, S. and Schleiermacher, C. (1999) REPuter: fast computation of maximal repeats in complete genomes. Bioinformatics, 15, 426-427. (Pubitemid 29312632)
    • (1999) Bioinformatics , vol.15 , Issue.5 , pp. 426-427
    • Kurtz, S.1    Schleiermacher, C.2
  • 27
    • 33845869791 scopus 로고    scopus 로고
    • Repseek, a tool to retrieve approximate repeats from large DNA sequences
    • DOI 10.1093/bioinformatics/btl519
    • Achaz, G., Boyer, F., Rocha, E.P.C., Viari, A. and Coissac, E. (2007) Repseek, a tool to retrieve approximate repeats from large DNA sequences. Bioinformatics, 23, 119-121. (Pubitemid 46017864)
    • (2007) Bioinformatics , vol.23 , Issue.1 , pp. 119-121
    • Achaz, G.1    Boyer, F.2    Rocha, E.P.C.3    Viari, A.4    Coissac, E.5
  • 28
    • 0020128233 scopus 로고
    • Smoothsort, an alternative for sorting in situ
    • Dijkstra, E.W. (1982) Smoothsort, an alternative for sorting in situ. Sci. Comput. Program, 1, 223-233.
    • (1982) Sci. Comput. Program , vol.1 , pp. 223-233
    • Dijkstra, E.W.1
  • 32
    • 0014757386 scopus 로고
    • A general method applicable to the search for similarities in the amino acid sequence of two proteins
    • Needleman, S.B. and Wunsch, C.D. (1970) A general method applicable to the search for similarities in the amino acid sequence of two proteins. J. Mol. Biol., 48, 443-53.
    • (1970) J. Mol. Biol. , vol.48 , pp. 443-53
    • Needleman, S.B.1    Wunsch, C.D.2
  • 34
    • 0001506104 scopus 로고    scopus 로고
    • Modulation of non-templated nucleotide addition by Taq DNA polymerase: Primer modifications that facilitate genotyping
    • 1008-1010
    • Brownstein, M.J., Carpten, J.D. and Smith, J.R. (1996) Modulation of non-templated nucleotide addition by Taq DNA polymerase: primer modifications that facilitate genotyping. Biotechniques, 20, 1004-1006, 1008-1010.
    • (1996) Biotechniques , vol.20 , pp. 1004-1006
    • Brownstein, M.J.1    Carpten, J.D.2    Smith, J.R.3
  • 35
    • 0029763225 scopus 로고    scopus 로고
    • Substrate nucleotide-determined non-templated addition of adenine by Taq DNA polymerase: Implications for PCR-based genotyping and cloning
    • Magnuson, V.L., Ally, D.S., Nylund, S.J., Karanjawala, Z.E., Rayman, J.B., Knapp, J.I., Lowe, A.L., Ghosh, S. and Collins, F.S. (1996) Substrate nucleotide-determined non-templated addition of adenine by Taq DNA polymerase: implications for PCR-based genotyping and cloning. Biotechniques, 21, 700-709. (Pubitemid 26333349)
    • (1996) BioTechniques , vol.21 , Issue.4 , pp. 700-709
    • Magnuson, V.L.1    Ally, D.S.2    Nylund, S.J.3    Karanjawala, Z.E.4    Rayman, J.B.5    Knapp, J.I.6    Lowe, A.L.7    Ghosh, S.8    Collins, F.S.9
  • 36
    • 70349272591 scopus 로고    scopus 로고
    • Analysing diet of small herbivores: The efficiency of DNA barcoding coupled with high-throughput pyrosequencing for deciphering the composition of complex plant mixtures
    • Soininen, E.M., Valentini, A., Coissac, E., Miquel, C., Gielly, L., Brochmann, C., Brysting, A.K., Sonstebo, J.H., Ims, R.A., Yoccoz, N.G. et al. (2009) Analysing diet of small herbivores: the efficiency of DNA barcoding coupled with high-throughput pyrosequencing for deciphering the composition of complex plant mixtures. Front Zool., 6, 16.
    • (2009) Front Zool. , vol.6 , pp. 16
    • Soininen, E.M.1    Valentini, A.2    Coissac, E.3    Miquel, C.4    Gielly, L.5    Brochmann, C.6    Brysting, A.K.7    Sonstebo, J.H.8    Ims, R.A.9    Yoccoz, N.G.10
  • 39
    • 70349525156 scopus 로고    scopus 로고
    • Large-scale parallel 454 sequencing reveals host ecological group specificity of arbuscular mycorrhizal fungi in a boreonemoral forest
    • Opik, M., Metsis, M., Daniell, T.J., Zobel, M. and Moora, M. (2009) Large-scale parallel 454 sequencing reveals host ecological group specificity of arbuscular mycorrhizal fungi in a boreonemoral forest. New Phytol., 184, 424-437.
    • (2009) New Phytol. , vol.184 , pp. 424-437
    • Opik, M.1    Metsis, M.2    Daniell, T.J.3    Zobel, M.4    Moora, M.5


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