메뉴 건너뛰기




Volumn 360, Issue 1462, 2005, Pages 1975-1980

TaxI: A software tool for DNA barcoding using distance methods

Author keywords

16S rRNA; Cox1; DNA barcoding; Molecular taxonomy; Species recognition

Indexed keywords

ALGORITHM; BIODIVERSITY; DATA SET; DNA; EVOLUTION; PHYLOGENETICS; SOFTWARE; TAXONOMY;

EID: 33645771763     PISSN: 09628436     EISSN: None     Source Type: Journal    
DOI: 10.1098/rstb.2005.1729     Document Type: Article
Times cited : (116)

References (31)
  • 2
    • 0037426836 scopus 로고    scopus 로고
    • Counting angels with DNA
    • doi:10.1038/421122a
    • Blaxter, M. 2003 Counting angels with DNA. Nature 421, 122-124. (doi:10.1038/421122a.)
    • (2003) Nature , vol.421 , pp. 122-124
    • Blaxter, M.1
  • 4
    • 0028528103 scopus 로고
    • DNA primers for amplification of mitochondrial cytochrome C oxidase subunit I from diverse metazoan invertebrates
    • Folmer, O., Black, M., Heah, W., Lutz, R. & Vrijenhoek, R. 1994 DNA primers for amplification of mitochondrial cytochrome C oxidase subunit I from diverse metazoan invertebrates. Mol. Mar. Biol. Biotechnol. 3, 294-299.
    • (1994) Mol. Mar. Biol. Biotechnol. , vol.3 , pp. 294-299
    • Folmer, O.1    Black, M.2    Heah, W.3    Lutz, R.4    Vrijenhoek, R.5
  • 6
    • 0037423543 scopus 로고    scopus 로고
    • Biological identifications through DNA barcodes
    • doi:10.1098/rspb.2002.2218
    • Hebert, P. D. N., Cywinska, A., Ball, S. L. & deWaard, J. R. 2003a Biological identifications through DNA barcodes. Proc. R. Soc. B 270, 313-321. (doi:10.1098/rspb.2002.2218.)
    • (2003) Proc. R. Soc. B , vol.270 , pp. 313-321
    • Hebert, P.D.N.1    Cywinska, A.2    Ball, S.L.3    DeWaard, J.R.4
  • 7
    • 0042531561 scopus 로고    scopus 로고
    • Barcoding animal life: Cytochrome c oxidase subunit 1 divergences among closely related species
    • doi:10.1098/rsbl.2003.0025
    • Hebert, P. D. N., Ratnasingham, S. & deWaard, J. R. 2003b Barcoding animal life: cytochrome c oxidase subunit 1 divergences among closely related species. Proc. R. Soc. B 270(Suppl. 1), S96-S99. (doi:10.1098/rsbl.2003.0025.)
    • (2003) Proc. R. Soc. B , vol.270 , Issue.SUPPL. 1
    • Hebert, P.D.N.1    Ratnasingham, S.2    DeWaard, J.R.3
  • 8
    • 0000732090 scopus 로고
    • Evolution of protein molecules
    • (ed. H. N. Munro). New York: Academic Press
    • Jukes, T. H. & Cantor, C. R. 1969 Evolution of protein molecules. In Mammalian protein metabolism (ed. H. N. Munro), pp. 21-132. New York: Academic Press.
    • (1969) Mammalian Protein Metabolism , pp. 21-132
    • Jukes, T.H.1    Cantor, C.R.2
  • 9
    • 0019296687 scopus 로고
    • A simple method for estimating evolutionary rate of base substitutions through comparative studies of nucleotide sequences
    • doi:10.1007/BF01731581
    • Kimura, M. 1980 A simple method for estimating evolutionary rate of base substitutions through comparative studies of nucleotide sequences. J. Mol. Evol. 16, 111-120. (doi:10.1007/BF01731581.)
    • (1980) J. Mol. Evol. , vol.16 , pp. 111-120
    • Kimura, M.1
  • 10
    • 23244432820 scopus 로고    scopus 로고
    • New amphibians and global conservation: A boost in species discoveries in a highly endangered vertebrate group
    • Köhler, J., Vieites, D. R., Bonett, R. M., Garcia, F. H., Glaw, F., Steinke, D. & Vences, M. 2005 New amphibians and global conservation: A boost in species discoveries in a highly endangered vertebrate group. BioScience 55, 693-696.
    • (2005) BioScience , vol.55 , pp. 693-696
    • Köhler, J.1    Vieites, D.R.2    Bonett, R.M.3    Garcia, F.H.4    Glaw, F.5    Steinke, D.6    Vences, M.7
  • 11
    • 0037296612 scopus 로고    scopus 로고
    • The intellectual content of taxonomy: A comment on DNA taxonomy
    • doi:10.1016/S0169-5347(02)00060-5
    • Upscomb, D., Platnick, N. & Wheeler, Q. 2003 The intellectual content of taxonomy: a comment on DNA taxonomy. Trends Ecol. Evol. 18, 65-66. (doi:10.1016/S0169-5347(02)00060-5.)
    • (2003) Trends Ecol. Evol. , vol.18 , pp. 65-66
    • Upscomb, D.1    Platnick, N.2    Wheeler, Q.3
  • 12
    • 0028361182 scopus 로고
    • Recovering evolutionary trees under a more realistic model of sequence evolution
    • Lockhart, P. J., Steel, M. A., Hendy, M. D. & Penny, D. 1994 Recovering evolutionary trees under a more realistic model of sequence evolution. Mol. Biol. Evol. 11, 605-612.
    • (1994) Mol. Biol. Evol. , vol.11 , pp. 605-612
    • Lockhart, P.J.1    Steel, M.A.2    Hendy, M.D.3    Penny, D.4
  • 13
    • 0037296509 scopus 로고    scopus 로고
    • Taxonomy: Renaissance of Tower of Babel?
    • doi:10.1016/80169-5347(02)00061-7
    • Mallett, J. & Willmott, K. 2003 Taxonomy: renaissance of Tower of Babel? Trends Ecol. Evol. 18, 57-59. (doi:10.1016/80169-5347(02)00061-7.)
    • (2003) Trends Ecol. Evol. , vol.18 , pp. 57-59
    • Mallett, J.1    Willmott, K.2
  • 14
    • 29144517946 scopus 로고    scopus 로고
    • Reverse taxonomy: An approach towards determining the diversity of meiobenthic organisms based on ribosomal RNA signature sequences
    • doi:10. 1098/rstb.2005.1723
    • Markmann, M. & Tautz, D. 2005 Reverse taxonomy: an approach towards determining the diversity of meiobenthic organisms based on ribosomal RNA signature sequences. Phil. Trans. R. Soc. B 360, 1917-1924. (doi:10. 1098/rstb.2005.1723)
    • (2005) Phil. Trans. R. Soc. B , vol.360 , pp. 1917-1924
    • Markmann, M.1    Tautz, D.2
  • 15
    • 0034024902 scopus 로고    scopus 로고
    • Molecular systematics of the order Anaspidea based on mitochondrial DNA sequence (12S, 16S, and COI)
    • Medina, M. & Walsh, P. J. 2000 Molecular systematics of the order Anaspidea based on mitochondrial DNA sequence (12S, 16S, and COI). Mol Phylogenet. Evol. 15, 41-58.
    • (2000) Mol Phylogenet. Evol. , vol.15 , pp. 41-58
    • Medina, M.1    Walsh, P.J.2
  • 16
    • 8844224149 scopus 로고    scopus 로고
    • DNA barcoding: Promise and pitfalls
    • doi:10.1371/journal.pbio.0020354
    • Moritz, C. & Cicero, C. 2004 DNA barcoding: promise and pitfalls. PLoS Biol. 2, 1529-1531. (doi:10.1371/journal.pbio.0020354.)
    • (2004) PLoS Biol. , vol.2 , pp. 1529-1531
    • Moritz, C.1    Cicero, C.2
  • 17
    • 0030934592 scopus 로고    scopus 로고
    • Effects of nucleotide sequence alignment on phylogeny estimation: A case study of 18S rDNAs of apicomplexa
    • Morrison, D. A. & Ellis, J. T. 1997 Effects of nucleotide sequence alignment on phylogeny estimation: A case study of 18S rDNAs of apicomplexa. Mol. Biol. Evol. 14, 428-141.
    • (1997) Mol. Biol. Evol. , vol.14 , pp. 428-1141
    • Morrison, D.A.1    Ellis, J.T.2
  • 19
    • 0034623005 scopus 로고    scopus 로고
    • T-Coffee: A novel method for fast and accurate multiple sequence alignment
    • doi:10.1006/jmbi.2000.4042
    • Notredame, C., Higgins, D. G. & Heringa, J. 2000 T-Coffee: a novel method for fast and accurate multiple sequence alignment. J. Mol. Biol. 302, 205-217. (doi:10.1006/jmbi.2000.4042.)
    • (2000) J. Mol. Biol. , vol.302 , pp. 205-217
    • Notredame, C.1    Higgins, D.G.2    Heringa, J.3
  • 21
    • 0023989064 scopus 로고
    • Improved tools for biological sequence comparison
    • Pearson, W. R. & Lipman, D. J. 1988 Improved tools for biological sequence comparison. Proc. Natl Acad. Sci. USA 85, 2444-2448.
    • (1988) Proc. Natl Acad. Sci. USA , vol.85 , pp. 2444-2448
    • Pearson, W.R.1    Lipman, D.J.2
  • 22
    • 0035174578 scopus 로고    scopus 로고
    • The species concept for prokaryotes
    • doi:10.1016/80168-6445(00)00040-1
    • Rosello-Mora, R. & Amann, R. 2001 The species concept for prokaryotes. FEMS Microbiol. Rev. 25, 39-67. (doi:10.1016/80168-6445(00)00040-1. )
    • (2001) FEMS Microbiol. Rev. , vol.25 , pp. 39-67
    • Rosello-Mora, R.1    Amann, R.2
  • 23
    • 3843088539 scopus 로고    scopus 로고
    • Molecular phylogeny and character evolution in the Western Palaearctic Helicidae s.l. (Gastropoda: Stylommatophora)
    • doi:10.1016/j.ympev.2004.03.004
    • Steinke, D., Albrecht, C. & Pfenninger, M. 2004 Molecular phylogeny and character evolution in the Western Palaearctic Helicidae s.l. (Gastropoda: Stylommatophora). Mol. Phylogenet. Evol. 32, 724-734. (doi:10.1016/j.ympev.2004. 03.004.)
    • (2004) Mol. Phylogenet. Evol. , vol.32 , pp. 724-734
    • Steinke, D.1    Albrecht, C.2    Pfenninger, M.3
  • 24
    • 0021716351 scopus 로고
    • Estimation of evolutionary distance between nucleotide sequences
    • Tajima, F. & Nei, M. 1984 Estimation of evolutionary distance between nucleotide sequences. Mol. Biol. Evol. 1, 269-285.
    • (1984) Mol. Biol. Evol. , vol.1 , pp. 269-285
    • Tajima, F.1    Nei, M.2
  • 25
    • 0026711010 scopus 로고
    • Estimation of the number of nucleotide substitutions when there are strong transition-transversion and G+C-content biases
    • Tamura, K. 1992 Estimation of the number of nucleotide substitutions when there are strong transition-transversion and G+C-content biases. Mol. Biol. Evol. 9, 678-687.
    • (1992) Mol. Biol. Evol. , vol.9 , pp. 678-687
    • Tamura, K.1
  • 26
    • 0027157960 scopus 로고
    • Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees
    • Tamura, K. & Nei, M. 1993 Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Mol. Biol. Evol. 10, 512-526.
    • (1993) Mol. Biol. Evol. , vol.10 , pp. 512-526
    • Tamura, K.1    Nei, M.2
  • 28
    • 0029878406 scopus 로고    scopus 로고
    • Extreme divergence of mitochondrial DNA within species of pulmonate land snails
    • Thomaz, D., Guiller, A. & Clarke, B. 1996 Extreme divergence of mitochondrial DNA within species of pulmonate land snails. Proc. R. Soc. B 263, 363-368.
    • (1996) Proc. R. Soc. B , vol.263 , pp. 363-368
    • Thomaz, D.1    Guiller, A.2    Clarke, B.3
  • 29
    • 0028692811 scopus 로고
    • Sources of ambiguity in nucleic acid sequence alignment
    • (ed. B. Schierwater, B. Streit, G. P. Wagner & R. DeSalle). Basel: Birkhauser Verlag
    • Wheeler, W. C. 1994 Sources of ambiguity in nucleic acid sequence alignment. In Molecular ecology and evolution: approaches and applications (ed. B. Schierwater, B. Streit, G. P. Wagner & R. DeSalle), pp. 323-352. Basel: Birkhauser Verlag.
    • (1994) Molecular Ecology and Evolution: Approaches and Applications , pp. 323-352
    • Wheeler, W.C.1
  • 30
    • 33645772986 scopus 로고    scopus 로고
    • Deciphering amphibian diversity through DNA barcoding: Chances and challenges
    • doi:10.1098/rstb.2005.1717
    • Vences, M., Thomas, M., Bonett, R. M. & Vieites, D. R. 2005a Deciphering amphibian diversity through DNA barcoding: chances and challenges. Phil. Trans. R. Soc. B 360, 1859-1868. (doi:10.1098/rstb.2005.1717.)
    • (2005) Phil. Trans. R. Soc. B , vol.360 , pp. 1859-1868
    • Vences, M.1    Thomas, M.2    Bonett, R.M.3    Vieites, D.R.4
  • 31
    • 17444426152 scopus 로고    scopus 로고
    • Comparative performance of the 16S rRNA in DNA barcoding of amphibians
    • doi:10.1186/1742-9994-2-5
    • Vences, M., Thomas, M., van der Meijden, A., Chiari, Y. & Vieites, D. R. 2005b Comparative performance of the 16S rRNA in DNA barcoding of amphibians. Front. Zool. 2, 5. (doi:10.1186/1742-9994-2-5.)
    • (2005) Front. Zool. , vol.2 , pp. 5
    • Vences, M.1    Thomas, M.2    Van Der Meijden, A.3    Chiari, Y.4    Vieites, D.R.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.