메뉴 건너뛰기




Volumn 27, Issue 1, 2016, Pages 449-454

Thrice better than once: Quality control guidelines to validate new mitogenomes

Author keywords

Barcoding; bats; phylogeny

Indexed keywords

ARTICLE; BAT; DNA SEQUENCE; GENETIC DATABASE; MITOCHONDRIAL GENOME; NONHUMAN; PRACTICE GUIDELINE; PRIORITY JOURNAL; PUBLICATION; QUALITY CONTROL; TAXON; ANIMAL; GENETICS; MOLECULAR EVOLUTION; PHYLOGENY;

EID: 84949623607     PISSN: 19401736     EISSN: 19401744     Source Type: Journal    
DOI: 10.3109/19401736.2014.900666     Document Type: Article
Times cited : (25)

References (36)
  • 1
    • 0026332751 scopus 로고
    • The complete nucleotide sequence of the mitochondrial DNA of the fin whale, Balaenoptera physalus
    • Arnason U, Gullberg A, Widegren B. (1991). The complete nucleotide sequence of the mitochondrial DNA of the fin whale, Balaenoptera physalus. J Mol Evol 33: 556-8
    • (1991) J Mol Evol , vol.33 , pp. 556-558
    • Arnason, U.1    Gullberg, A.2    Widegren, B.3
  • 2
    • 33748449028 scopus 로고    scopus 로고
    • Speciation in mammals and the genetic species concept
    • Baker RJ, Bradley RD. (2006). Speciation in mammals and the genetic species concept. J Mammal 87: 643-62
    • (2006) J Mammal , vol.87 , pp. 643-662
    • Baker, R.J.1    Bradley, R.D.2
  • 3
    • 0344863881 scopus 로고    scopus 로고
    • A new Central American species from the Carollia brevicauda complex
    • Museum of Texas Tech University
    • Baker RJ, Solari S, Hoffmann F. (2002). A new Central American species from the Carollia brevicauda complex. Occasional Papers, Museum of Texas Tech University, 217: i, 1-12
    • (2002) Occasional Papers , vol.217 , Issue.I , pp. 1-12
    • Baker, R.J.1    Solari, S.2    Hoffmann, F.3
  • 4
    • 84881085358 scopus 로고    scopus 로고
    • Preserving accuracy in GenBank
    • co-authors
    • Bidartondo MI, and 255 co-authors. (2008). Preserving accuracy in GenBank. Science 319: 1616
    • (2008) Science , vol.319 , pp. 1616-2255
    • Bidartondo, M.I.1
  • 5
    • 84884591564 scopus 로고    scopus 로고
    • Next-generation sequencing and phylogenetic signal of complete mitochondrial genomes for resolving the evolutionary history of leaf-nosed bats (Phyllostomidae)
    • Botero-Castro F, Tilak MK, Justy F, Catzeflis F, Delsuc F, Douzery EJ. (2013). Next-generation sequencing and phylogenetic signal of complete mitochondrial genomes for resolving the evolutionary history of leaf-nosed bats (Phyllostomidae). Mol Phylogenet Evol 69: 728-39
    • (2013) Mol Phylogenet Evol , vol.69 , pp. 728-739
    • Botero-Castro, F.1    Tilak, M.K.2    Justy, F.3    Catzeflis, F.4    Delsuc, F.5    Douzery, E.J.6
  • 6
    • 67650757433 scopus 로고    scopus 로고
    • TrimAl: A tool for automated alignment trimming in large-scale phylogenetic analyses
    • Capella-Gutiérrez S, Silla-Martínez J, Gabaldón T. (2009). trimAl: A tool for automated alignment trimming in large-scale phylogenetic analyses. Bioinformatics 25: 1972-3
    • (2009) Bioinformatics , vol.25 , pp. 1972-1973
    • Capella-Gutiérrez, S.1    Silla-Martínez, J.2    Gabaldón, T.3
  • 7
    • 33847368554 scopus 로고    scopus 로고
    • DNA barcoding of Neotropical bats: Species identification and discovery within Guyana
    • Clare EL, Lim BK, Engstrom MD, Eger JL, Hebert PDN. (2007). DNA barcoding of Neotropical bats: Species identification and discovery within Guyana. Mol Ecol Notes 7: 184-90
    • (2007) Mol Ecol Notes , vol.7 , pp. 184-190
    • Clare, E.L.1    Lim, B.K.2    Engstrom, M.D.3    Eger, J.L.4    Hebert, P.D.N.5
  • 8
    • 79960760224 scopus 로고    scopus 로고
    • Neotropical bats: Estimating species diversity with DNA barcodes
    • Clare EL, Lim BK, Fenton MB, Hebert PDN. (2011). Neotropical bats: Estimating species diversity with DNA barcodes. PLoS One 6: e22648
    • (2011) PLoS One , vol.6 , pp. e22648
    • Clare, E.L.1    Lim, B.K.2    Fenton, M.B.3    Hebert, P.D.N.4
  • 9
    • 84862177773 scopus 로고    scopus 로고
    • MitoZoa 2.0: A database resource and search tools for comparative and evolutionary analyses of mitochondrial genomes in Metazoa
    • D'onorio De Meo P, D'antonio M, Griggio F, Lupi R, Borsani M, Pavesi G, Castrignanò T, et al. (2012). MitoZoa 2.0: A database resource and search tools for comparative and evolutionary analyses of mitochondrial genomes in Metazoa. Nucleic Acids Res 40: D1168-72
    • (2012) Nucleic Acids Res , vol.40 , pp. D1168-D1172
    • D'Onorio De Meo, P.1    D'Antonio, M.2    Griggio, F.3    Lupi, R.4    Borsani, M.5    Pavesi, G.6    Castrignanò, T.7
  • 10
    • 84871314939 scopus 로고    scopus 로고
    • Conveniently pre-tagged and pre-packaged: Extended molecular identification and metagenomics using complete metazoan mitochondrial genomes
    • Dettai A, Gallut C, Brouillet S, Pothier J, Lecointre G, Debruyne R. (2012). Conveniently pre-tagged and pre-packaged: Extended molecular identification and metagenomics using complete metazoan mitochondrial genomes. PLoS One 7: e51263
    • (2012) PLoS One , vol.7 , pp. e51263
    • Dettai, A.1    Gallut, C.2    Brouillet, S.3    Pothier, J.4    Lecointre, G.5    Debruyne, R.6
  • 11
    • 13244255415 scopus 로고    scopus 로고
    • MUSCLE: A multiple sequence alignment method with reduced time and space complexity
    • Edgar RC. (2004). MUSCLE: A multiple sequence alignment method with reduced time and space complexity. BMC Bioinformatics 5: 113
    • (2004) BMC Bioinformatics , vol.5 , pp. 113
    • Edgar, R.C.1
  • 15
    • 77956068579 scopus 로고    scopus 로고
    • Comparisons between mitochondrial genomes of domestic goat (Capra hircus) reveal the presence of numts and multiple sequencing errors
    • Hassanin A, Bonillo C, Nguyen BX, Cruaud C. (2010). Comparisons between mitochondrial genomes of domestic goat (Capra hircus) reveal the presence of numts and multiple sequencing errors. Mitochondrial DNA 21: 68-76
    • (2010) Mitochondrial DNA , vol.21 , pp. 68-76
    • Hassanin, A.1    Bonillo, C.2    Nguyen, B.X.3    Cruaud, C.4
  • 16
    • 84855612650 scopus 로고    scopus 로고
    • Pattern and timing of diversification of Cetartiodactyla (Mammalia, Laurasiatheria), as revealed by a comprehensive analysis of mitochondrial genomes
    • Hassanin A, Delsuc F, Ropiquet A, Hammer C, Jansen Van Vuuren B, Matthee C, Ruiz-Garcia M, et al. (2012). Pattern and timing of diversification of Cetartiodactyla (Mammalia, Laurasiatheria), as revealed by a comprehensive analysis of mitochondrial genomes. CR Biologies 335: 32-50
    • (2012) CR Biologies , vol.335 , pp. 32-50
    • Hassanin, A.1    Delsuc, F.2    Ropiquet, A.3    Hammer, C.4    Jansen Van Vuuren, B.5    Matthee, C.6    Ruiz-Garcia, M.7
  • 18
    • 84879374761 scopus 로고    scopus 로고
    • Molecular phylogeography of the brown bear (Ursus arctos) in Northeastern Asia based on analyses of complete mitochondrial DNA sequences
    • Hirata D, Mano T, Abramov A, Baryshnikov G, Kosintsev P, Vorobiev A, Raichev E, et al. (2013). Molecular phylogeography of the brown bear (Ursus arctos) in Northeastern Asia based on analyses of complete mitochondrial DNA sequences. Mol Biol Evol 30: 1644-52
    • (2013) Mol Biol Evol , vol.30 , pp. 1644-1652
    • Hirata, D.1    Mano, T.2    Abramov, A.3    Baryshnikov, G.4    Kosintsev, P.5    Vorobiev, A.6    Raichev, E.7
  • 19
    • 84863507534 scopus 로고    scopus 로고
    • Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data
    • Kearse M, Moir R, Wilson A, Stones-Havas S, Cheung M, Sturrock S, Buxton S, et al. (2012). Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data. Bioinformatics 28: 1647-9
    • (2012) Bioinformatics , vol.28 , pp. 1647-1649
    • Kearse, M.1    Moir, R.2    Wilson, A.3    Stones-Havas, S.4    Cheung, M.5    Sturrock, S.6    Buxton, S.7
  • 22
    • 84883356664 scopus 로고    scopus 로고
    • Evolutionary origin of the Scombridae (tunas and mackerels): Members of a paleogene adaptive radiation with 14 other pelagic fish families
    • Miya M, Friedman M, Satoh TP, Takeshima H, Sado T, Iwasaki W, Yamanoue Y, et al. (2013) Evolutionary origin of the Scombridae (tunas and mackerels): Members of a paleogene adaptive radiation with 14 other pelagic fish families. PLoS One 8: e73535
    • (2013) PLoS One , vol.8 , pp. e73535
    • Miya, M.1    Friedman, M.2    Satoh, T.P.3    Takeshima, H.4    Sado, T.5    Iwasaki, W.6    Yamanoue, Y.7
  • 24
    • 38349192060 scopus 로고    scopus 로고
    • Strong variations of mitochondrial mutation rate across mammals-The longevity hypothesis
    • Nabholz B, Glemin S, Galtier N. (2008). Strong variations of mitochondrial mutation rate across mammals-The longevity hypothesis. Mol Biol Evol 25: 120-30
    • (2008) Mol Biol Evol , vol.25 , pp. 120-130
    • Nabholz, B.1    Glemin, S.2    Galtier, N.3
  • 25
    • 84868213202 scopus 로고    scopus 로고
    • Beyond barcoding: A mitochondrial genomics approach to molecular phylogenetics and diagnostics of blowflies (Diptera: Calliphoridae)
    • Nelson L, Lambkin C, Batterham P, Wallman J, Dowton M, Whiting M, Yeates D, Cameron S. (2012). Beyond barcoding: A mitochondrial genomics approach to molecular phylogenetics and diagnostics of blowflies (Diptera: Calliphoridae). Gene 511: 131-42
    • (2012) Gene , vol.511 , pp. 131-142
    • Nelson, L.1    Lambkin, C.2    Batterham, P.3    Wallman, J.4    Dowton, M.5    Whiting, M.6    Yeates, D.7    Cameron, S.8
  • 26
    • 79960845140 scopus 로고    scopus 로고
    • DNA barcoding of African fruit bats (Mammalia, Pteropodidae) the mitochondrial genome does not provide a reliable discrimination between Epomophorus gambianus and Micropteropus pusillus
    • Nesi N, Nakouné E, Cruaud C, Hassanin A. (2011). DNA barcoding of African fruit bats (Mammalia, Pteropodidae). The mitochondrial genome does not provide a reliable discrimination between Epomophorus gambianus and Micropteropus pusillus. C R Biologies 334: 544-54
    • (2011) CR Biologies , vol.334 , pp. 544-554
    • Nesi, N.1    Nakouné, E.2    Cruaud, C.3    Hassanin, A.4
  • 27
    • 0038783511 scopus 로고    scopus 로고
    • The complete nucleotide sequence of goat (Capra hircus) mitochondrial genome
    • Parma P, Feligini M, Greppi G, Enne G. (2003). The complete nucleotide sequence of goat (Capra hircus) mitochondrial genome. Mitochondrial DNA 14: 199-203
    • (2003) Mitochondrial DNA , vol.14 , pp. 199-203
    • Parma, P.1    Feligini, M.2    Greppi, G.3    Enne, G.4
  • 28
  • 29
    • 84874210937 scopus 로고    scopus 로고
    • Assessing DNA barcoding as a tool for species identification and data quality control
    • Shen Y-Y, Chen X, Murphy RW. (2013). Assessing DNA barcoding as a tool for species identification and data quality control. PLoS ONE 8: e57125
    • (2013) PLoS ONE , vol.8 , pp. e57125
    • Shen, Y.-Y.1    Chen, X.2    Murphy, R.W.3
  • 30
    • 33748471969 scopus 로고    scopus 로고
    • Mitochondrial DNA sequence, karyotypic, and morphological variation in the Carollia castanea species complex (Chiroptera: Phyllostomidae) with description of a new species
    • Museum of Texas Tech University
    • Solari S, Baker RJ. (2006). Mitochondrial DNA sequence, karyotypic, and morphological variation in the Carollia castanea species complex (Chiroptera: Phyllostomidae) with description of a new species. Occasional Papers, Museum of Texas Tech University, 254: 1-16
    • (2006) Occasional Papers , vol.254 , pp. 1-16
    • Solari, S.1    Baker, R.J.2
  • 31
    • 33750403801 scopus 로고    scopus 로고
    • RAxML-VI-HPC: Maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models
    • Stamatakis A. (2006). RAxML-VI-HPC: Maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22: 2688-90
    • (2006) Bioinformatics , vol.22 , pp. 2688-2690
    • Stamatakis, A.1
  • 34
    • 77957114651 scopus 로고    scopus 로고
    • The complete mitochondrial genome of the domestic red deer (Cervus elaphus) of New Zealand and its phylogenic position within the family Cervidae
    • Wada K, Okumura K, Nishibori M, Kikkawa Y, Yokohama M. (2010). The complete mitochondrial genome of the domestic red deer (Cervus elaphus) of New Zealand and its phylogenic position within the family Cervidae. Anim Sci J 81: 551-7
    • (2010) Anim Sci J , vol.81 , pp. 551-557
    • Wada, K.1    Okumura, K.2    Nishibori, M.3    Kikkawa, Y.4    Yokohama, M.5
  • 35
    • 79953763102 scopus 로고    scopus 로고
    • On the phylogeny of Mustelidae subfamilies: Analysis of seventeen nuclear non-coding loci and mitochondrial complete genomes
    • Yu L, Peng D, Liu J, Luan P, Liang L, Lee H, Lee M, et al. (2011a). On the phylogeny of Mustelidae subfamilies: Analysis of seventeen nuclear non-coding loci and mitochondrial complete genomes. BMC Evol Biol 11: 92
    • (2011) BMC Evol Biol , vol.11 , pp. 92
    • Yu, L.1    Peng, D.2    Liu, J.3    Luan, P.4    Liang, L.5    Lee, H.6    Lee, M.7
  • 36
    • 84887098781 scopus 로고    scopus 로고
    • Efficient sequencing of Anuran mtDNAs and a mitogenomic exploration of the phylogeny and evolution of frogs
    • Zhang P, Liang D, Mao R, Hillis D, Wake D, Cannatella D. (2013). Efficient sequencing of Anuran mtDNAs and a mitogenomic exploration of the phylogeny and evolution of frogs. Mol Biol Evol 30: 1899-915
    • (2013) Mol Biol Evol , vol.30 , pp. 1899-1915
    • Zhang, P.1    Liang, D.2    Mao, R.3    Hillis, D.4    Wake, D.5    Cannatella, D.6


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.