메뉴 건너뛰기




Volumn 69, Issue , 2015, Pages 1-7

Performance of cytochrome c oxidase subunit I (COI), ribosomal DNA Large Subunit (LSU) and Internal Transcribed Spacer 2 (ITS2) in DNA barcoding of Collembola

Author keywords

Cytochrome c oxidase subunit I (COI, CO1, cox1, coxI); DNA barcoding; Internal transcribed spacer (ITS); Molecular identification; Ribosomal large subunit (LSU,28S); Springtails

Indexed keywords

ANIMALIA; COLLEMBOLA; EUKARYOTA;

EID: 84927780651     PISSN: 11645563     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.ejsobi.2015.04.001     Document Type: Article
Times cited : (29)

References (52)
  • 2
    • 84867065778 scopus 로고    scopus 로고
    • The widely used small subunit 18S rDNA molecule greatly underestimates true diversity in biodiversity surveys of the meiofauna
    • Tang C.Q., Leasi F., Obertegger U., Kieneke A., Barraclough T.G., Fontaneto D. The widely used small subunit 18S rDNA molecule greatly underestimates true diversity in biodiversity surveys of the meiofauna. Proc. Natl. Acad. Sci. U. S. A. 2012, 109:16208-16212.
    • (2012) Proc. Natl. Acad. Sci. U. S. A. , vol.109 , pp. 16208-16212
    • Tang, C.Q.1    Leasi, F.2    Obertegger, U.3    Kieneke, A.4    Barraclough, T.G.5    Fontaneto, D.6
  • 3
    • 73949143351 scopus 로고    scopus 로고
    • Deep phylogeographic divisions and long-term persistence of forest invertebrates (Hexapoda: Collembola) in the North-Western Mediterranean basin
    • Cicconardi F., Nardi F., Emerson B.C., Frati F., Fanciulli P.P. Deep phylogeographic divisions and long-term persistence of forest invertebrates (Hexapoda: Collembola) in the North-Western Mediterranean basin. Mol. Ecol. 2010, 19:386-400.
    • (2010) Mol. Ecol. , vol.19 , pp. 386-400
    • Cicconardi, F.1    Nardi, F.2    Emerson, B.C.3    Frati, F.4    Fanciulli, P.P.5
  • 4
    • 77950054175 scopus 로고    scopus 로고
    • Phylogenetic analysis of European Scutovertex mites (Acari, Oribatida, Scutoverticidae) reveals paraphyly and cryptic diversity: a molecular genetic and morphological approach
    • Schaeffer S., Pfingstl T., Koblmueller S., Winkler K.A., Sturmbauer C., Krisper G. Phylogenetic analysis of European Scutovertex mites (Acari, Oribatida, Scutoverticidae) reveals paraphyly and cryptic diversity: a molecular genetic and morphological approach. Mol. Phylogen. Evol. 2010, 55:677-688.
    • (2010) Mol. Phylogen. Evol. , vol.55 , pp. 677-688
    • Schaeffer, S.1    Pfingstl, T.2    Koblmueller, S.3    Winkler, K.A.4    Sturmbauer, C.5    Krisper, G.6
  • 7
    • 4544369240 scopus 로고    scopus 로고
    • Biological identification of springtails (Hexapoda : Collembola) from the Canadian Arctic, using mitochondrial DNA barcodes
    • Hogg I.D., Hebert P.D.N. Biological identification of springtails (Hexapoda : Collembola) from the Canadian Arctic, using mitochondrial DNA barcodes. Can. J. Zool. 2004, 82:749-754.
    • (2004) Can. J. Zool. , vol.82 , pp. 749-754
    • Hogg, I.D.1    Hebert, P.D.N.2
  • 8
    • 84866870459 scopus 로고    scopus 로고
    • Cryptic diversity in the Ubiquist species parisotoma notabilis (Collembola, isotomidae): a long-used Chimeric species?
    • Porco D., Potapov M., Bedos A., Busmachiu G., Weiner W.M., Hamra-Kroua S., Deharveng L. Cryptic diversity in the Ubiquist species parisotoma notabilis (Collembola, isotomidae): a long-used Chimeric species?. Plos One 2012, 7.
    • (2012) Plos One , vol.7
    • Porco, D.1    Potapov, M.2    Bedos, A.3    Busmachiu, G.4    Weiner, W.M.5    Hamra-Kroua, S.6    Deharveng, L.7
  • 13
    • 57649155508 scopus 로고    scopus 로고
    • Is there a molecular key to the level of "biological species" in eukaryotes? A DNA guide
    • Coleman A.W. Is there a molecular key to the level of "biological species" in eukaryotes? A DNA guide. Mol. Phylogen. Evol. 2009, 50:197-203.
    • (2009) Mol. Phylogen. Evol. , vol.50 , pp. 197-203
    • Coleman, A.W.1
  • 14
    • 84919648788 scopus 로고    scopus 로고
    • DNA metabarcoding and the cytochrome c oxidase subunit I marker: not a perfect match
    • Deagle B.E., Jarman S.N., Coissac E., Pompanon F., Taberlet P. DNA metabarcoding and the cytochrome c oxidase subunit I marker: not a perfect match. Biol. Lett. 2014, 10.
    • (2014) Biol. Lett. , vol.10
    • Deagle, B.E.1    Jarman, S.N.2    Coissac, E.3    Pompanon, F.4    Taberlet, P.5
  • 16
    • 84859598363 scopus 로고    scopus 로고
    • Towards next-generation biodiversity assessment using DNA metabarcoding
    • Taberlet P., Coissac E., Pompanon F., Brochmann C., Willerslev E. Towards next-generation biodiversity assessment using DNA metabarcoding. Mol. Ecol. 2012, 21:2045-2050.
    • (2012) Mol. Ecol. , vol.21 , pp. 2045-2050
    • Taberlet, P.1    Coissac, E.2    Pompanon, F.3    Brochmann, C.4    Willerslev, E.5
  • 17
    • 0003209114 scopus 로고    scopus 로고
    • The collembola of Fennoscandia and Denmark. Part 1: Poduromorpha
    • Fjellberg A. The collembola of Fennoscandia and Denmark. Part 1: Poduromorpha. Fauna Entomol. Scand. 1998, 35:1-183.
    • (1998) Fauna Entomol. Scand. , vol.35 , pp. 1-183
    • Fjellberg, A.1
  • 18
    • 84966551163 scopus 로고    scopus 로고
    • The collembola of Fennoscandia and Denmark. Part II: entomobryomorpha and Symphypleona
    • i-vi
    • Fjellberg A. The collembola of Fennoscandia and Denmark. Part II: entomobryomorpha and Symphypleona. Fauna Entomol. Scand. 2007, 42:1-264. i-vi.
    • (2007) Fauna Entomol. Scand. , vol.42 , pp. 1-264
    • Fjellberg, A.1
  • 19
    • 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., Vrijenhoek R. DNA primers for amplification of mitochondrial cytochrome c oxidase subunit I from diverse metazoan invertebrates. Mol. Mar. Biol. Biotechnol. 1994, 3:294-299.
    • (1994) Mol. Mar. Biol. Biotechnol. , vol.3 , pp. 294-299
    • Folmer, O.1    Black, M.2    Hoeh, W.3    Lutz, R.4    Vrijenhoek, R.5
  • 20
    • 41049097429 scopus 로고    scopus 로고
    • Were the first springtails semi-aquatic? A phylogenetic approach by means of 28S rDNA and optimization alignment
    • D'Haese C.A. Were the first springtails semi-aquatic? A phylogenetic approach by means of 28S rDNA and optimization alignment. Proc. R. Soc. B 2002, 269:1143-1151.
    • (2002) Proc. R. Soc. B , vol.269 , pp. 1143-1151
    • D'Haese, C.A.1
  • 22
    • 23044485088 scopus 로고    scopus 로고
    • Fungal-specific PCR primers developed for analysis of the ITS region of environmental DNA extracts
    • Martin K.J., Rygiewicz P.T. Fungal-specific PCR primers developed for analysis of the ITS region of environmental DNA extracts. BMC Microbiol. 2005, 5.
    • (2005) BMC Microbiol. , vol.5
    • Martin, K.J.1    Rygiewicz, P.T.2
  • 24
    • 0037100671 scopus 로고    scopus 로고
    • MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform
    • Katoh K., Misawa K., Kuma K., Miyata T. MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform. Nucleic Acids Res. 2002, 30:3059-3066.
    • (2002) Nucleic Acids Res. , vol.30 , pp. 3059-3066
    • Katoh, K.1    Misawa, K.2    Kuma, K.3    Miyata, T.4
  • 25
    • 74549125386 scopus 로고    scopus 로고
    • SeaView Version 4: a multiplatform graphical user interface for sequence alignment and phylogenetic tree building
    • Gouy M., Guindon S., Gascuel O. SeaView Version 4: a multiplatform graphical user interface for sequence alignment and phylogenetic tree building. Mol. Biol. Evol. 2010, 27:221-224.
    • (2010) Mol. Biol. Evol. , vol.27 , pp. 221-224
    • Gouy, M.1    Guindon, S.2    Gascuel, O.3
  • 27
    • 77957244650 scopus 로고    scopus 로고
    • Search and clustering orders of magnitude faster than BLAST
    • Edgar R.C. Search and clustering orders of magnitude faster than BLAST. Bioinformatics 2010, 26:2460-2461.
    • (2010) Bioinformatics , vol.26 , pp. 2460-2461
    • Edgar, R.C.1
  • 29
    • 84894229908 scopus 로고    scopus 로고
    • Barcoding the Collembola of Churchill: a molecular taxonomic reassessment of species diversity in a sub-Arctic area
    • Porco D., Skarzynski D., Decaens T., Hebert P.D.N., Deharveng L. Barcoding the Collembola of Churchill: a molecular taxonomic reassessment of species diversity in a sub-Arctic area. Mol. Ecol. Resour. 2014, 14:249-261.
    • (2014) Mol. Ecol. Resour. , vol.14 , pp. 249-261
    • Porco, D.1    Skarzynski, D.2    Decaens, T.3    Hebert, P.D.N.4    Deharveng, L.5
  • 30
    • 84856263745 scopus 로고    scopus 로고
    • On the inappropriate use of Kimura-2-parameter (K2P) divergences in the DNA-barcoding literature
    • Srivathsan A., Meier R. On the inappropriate use of Kimura-2-parameter (K2P) divergences in the DNA-barcoding literature. Cladistics 2012, 28:190-194.
    • (2012) Cladistics , vol.28 , pp. 190-194
    • Srivathsan, A.1    Meier, R.2
  • 31
    • 84856087248 scopus 로고    scopus 로고
    • Barcoding's next top model: an evaluation of nucleotide substitution models for specimen identification
    • Collins R.A., Boykin L.M., Cruickshank R.H., Armstrong K.F. Barcoding's next top model: an evaluation of nucleotide substitution models for specimen identification. Methods Ecol. Evol. 2012, 3:457-465.
    • (2012) Methods Ecol. Evol. , vol.3 , pp. 457-465
    • Collins, R.A.1    Boykin, L.M.2    Cruickshank, R.H.3    Armstrong, K.F.4
  • 34
    • 31744441569 scopus 로고    scopus 로고
    • Spore dispersal of a resupinate ectomycorrhizal fungus, Tomentella sublilacina, via soil food webs
    • Lilleskov E.A., Bruns T.D. Spore dispersal of a resupinate ectomycorrhizal fungus, Tomentella sublilacina, via soil food webs. Mycologia 2005, 97:762-769.
    • (2005) Mycologia , vol.97 , pp. 762-769
    • Lilleskov, E.A.1    Bruns, T.D.2
  • 35
    • 84886097822 scopus 로고    scopus 로고
    • Collembola, the biological species concept and the underestimation of global species richness
    • Cicconardi F., Fanciulli P.P., Emerson B.C. Collembola, the biological species concept and the underestimation of global species richness. Mol. Ecol. 2013, 22:5382-5396.
    • (2013) Mol. Ecol. , vol.22 , pp. 5382-5396
    • Cicconardi, F.1    Fanciulli, P.P.2    Emerson, B.C.3
  • 36
    • 14844337933 scopus 로고    scopus 로고
    • Molecular evidence for a fourth species within the Isotoma viridis group (Insecta, Collembola)
    • Burkhardt U., Filser J. Molecular evidence for a fourth species within the Isotoma viridis group (Insecta, Collembola). Zool. Scr. 2005, 34:177-185.
    • (2005) Zool. Scr. , vol.34 , pp. 177-185
    • Burkhardt, U.1    Filser, J.2
  • 41
    • 84859574767 scopus 로고    scopus 로고
    • Bioinformatic challenges for DNA metabarcoding of plants and animals
    • Coissac E., Riaz T., Puillandre N. Bioinformatic challenges for DNA metabarcoding of plants and animals. Mol. Ecol. 2012, 21:1834-1847.
    • (2012) Mol. Ecol. , vol.21 , pp. 1834-1847
    • Coissac, E.1    Riaz, T.2    Puillandre, N.3
  • 43
    • 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 G.A.C., Baird D.J. Environmental barcoding: a next-generation sequencing approach for biomonitoring applications using river Benthos. Plos One 2011, 6.
    • (2011) Plos One , vol.6
    • Hajibabaei, M.1    Shokralla, S.2    Zhou, X.3    Singer, G.A.C.4    Baird, D.J.5
  • 44
    • 84866642478 scopus 로고    scopus 로고
    • Biodiversity soup: metabarcoding of arthropods for rapid biodiversity assessment and biomonitoring
    • Yu D.W., Ji Y., Emerson B.C., Wang X., Ye C., Yang C., Ding Z. Biodiversity soup: metabarcoding of arthropods for rapid biodiversity assessment and biomonitoring. Methods Ecol. Evol. 2012, 3:613-623.
    • (2012) Methods Ecol. Evol. , vol.3 , pp. 613-623
    • Yu, D.W.1    Ji, Y.2    Emerson, B.C.3    Wang, X.4    Ye, C.5    Yang, C.6    Ding, Z.7
  • 48
    • 78149365938 scopus 로고    scopus 로고
    • Insidious effects of sequencing errors on perceived diversity in molecular surveys
    • Dickie I.A. Insidious effects of sequencing errors on perceived diversity in molecular surveys. New. Phytol. 2010, 188:916-918.
    • (2010) New. Phytol. , vol.188 , pp. 916-918
    • Dickie, I.A.1
  • 49
    • 33749535839 scopus 로고    scopus 로고
    • DNA barcoding and taxonomy in diptera: a tale of high intraspecific variability and low identification success
    • Meier R., Shiyang K., Vaidya G., Ng P.K.L. DNA barcoding and taxonomy in diptera: a tale of high intraspecific variability and low identification success. Syst. Biol. 2006, 55:715-728.
    • (2006) Syst. Biol. , vol.55 , pp. 715-728
    • Meier, R.1    Shiyang, K.2    Vaidya, G.3    Ng, P.K.L.4
  • 51
    • 76749097624 scopus 로고    scopus 로고
    • Including RNA secondary structures improves accuracy and robustness in reconstruction of phylogenetic trees
    • Keller A., Foerster F., Mueller T., Dandekar T., Schultz J., Wolf M. Including RNA secondary structures improves accuracy and robustness in reconstruction of phylogenetic trees. Biol. Direct 2010, 5.
    • (2010) Biol. Direct , vol.5
    • Keller, A.1    Foerster, F.2    Mueller, T.3    Dandekar, T.4    Schultz, J.5    Wolf, M.6
  • 52
    • 0037744566 scopus 로고    scopus 로고
    • Pseudogenes contribute to the extreme diversity of nuclear ribosomal DNA in the hard coral Acropora
    • Marquez L.M., Miller D.J., MacKenzie J.B., van Oppen M.J.H. Pseudogenes contribute to the extreme diversity of nuclear ribosomal DNA in the hard coral Acropora. Mol. Biol. Evol. 2003, 20:1077-1086.
    • (2003) Mol. Biol. Evol. , vol.20 , pp. 1077-1086
    • Marquez, L.M.1    Miller, D.J.2    MacKenzie, J.B.3    van Oppen, M.J.H.4


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.