메뉴 건너뛰기




Volumn 7, Issue 2, 2012, Pages

Direct comparisons of Illumina vs. Roche 454 sequencing technologies on the same microbial community DNA sample

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID SEQUENCE; ARTICLE; CONTIG MAPPING; CONTROLLED STUDY; DNA DETERMINATION; DNA SEQUENCE; DNA STRUCTURE; FRAMESHIFT MUTATION; GENE FREQUENCY; GENE SEQUENCE; GENE TECHNOLOGY; GENETIC ANALYSIS; GENETIC ASSOCIATION; GENETIC VARIABILITY; GENOME SIZE; GENOTYPE; INTERMETHOD COMPARISON; MICROBIAL COMMUNITY; NONHUMAN; NUCLEOTIDE SEQUENCE; PLANKTON; POPULATION ABUNDANCE; QUANTITATIVE ANALYSIS; SYSTEMATIC ERROR; VALIDATION PROCESS; BACTERIAL GENOME; COMPARATIVE STUDY; DNA BASE COMPOSITION; EVALUATION; METAGENOMICS; METHODOLOGY;

EID: 84856770811     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0030087     Document Type: Article
Times cited : (389)

References (31)
  • 2
    • 31544483932 scopus 로고    scopus 로고
    • Community genomics among stratified microbial assemblages in the ocean's interior
    • DeLong EF, Preston CM, Mincer T, Rich V, Hallam SJ, et al. (2006) Community genomics among stratified microbial assemblages in the ocean's interior. Science 311: 496-503.
    • (2006) Science , vol.311 , pp. 496-503
    • DeLong, E.F.1    Preston, C.M.2    Mincer, T.3    Rich, V.4    Hallam, S.J.5
  • 3
    • 77950251400 scopus 로고    scopus 로고
    • A human gut microbial gene catalogue established by metagenomic sequencing
    • Qin J, Li R, Raes J, Arumugam M, Burgdorf KS, et al. (2010) A human gut microbial gene catalogue established by metagenomic sequencing. Nature 464: 59-65.
    • (2010) Nature , vol.464 , pp. 59-65
    • Qin, J.1    Li, R.2    Raes, J.3    Arumugam, M.4    Burgdorf, K.S.5
  • 4
    • 68549085316 scopus 로고    scopus 로고
    • Comparative metagenomic analysis of a microbial community residing at a depth of 4,000 meters at station ALOHA in the North Pacific subtropical gyre
    • Konstantinidis KT, Braff J, Karl DM, DeLong EF, (2009) Comparative metagenomic analysis of a microbial community residing at a depth of 4,000 meters at station ALOHA in the North Pacific subtropical gyre. Appl Environ Microbiol 75: 5345-5355.
    • (2009) Appl Environ Microbiol , vol.75 , pp. 5345-5355
    • Konstantinidis, K.T.1    Braff, J.2    Karl, D.M.3    DeLong, E.F.4
  • 5
    • 24044455869 scopus 로고    scopus 로고
    • Genome sequencing in microfabricated high-density picolitre reactors
    • Margulies M, Egholm M, Altman WE, Attiya S, Bader JS, et al. (2005) Genome sequencing in microfabricated high-density picolitre reactors. Nature 437: 376-380.
    • (2005) Nature , vol.437 , pp. 376-380
    • Margulies, M.1    Egholm, M.2    Altman, W.E.3    Attiya, S.4    Bader, J.S.5
  • 7
    • 24644462173 scopus 로고    scopus 로고
    • Accurate multiplex polony sequencing of an evolved bacterial genome
    • Shendure J, Porreca GJ, Reppas NB, Lin X, McCutcheon JP, et al. (2005) Accurate multiplex polony sequencing of an evolved bacterial genome. Science 309: 1728-1732.
    • (2005) Science , vol.309 , pp. 1728-1732
    • Shendure, J.1    Porreca, G.J.2    Reppas, N.B.3    Lin, X.4    McCutcheon, J.P.5
  • 8
    • 77957075815 scopus 로고    scopus 로고
    • Impact of diet in shaping gut microbiota revealed by a comparative study in children from Europe and rural Africa
    • De Filippo C, Cavalieri D, Di Paola M, Ramazzotti M, Poullet JB, et al. (2010) Impact of diet in shaping gut microbiota revealed by a comparative study in children from Europe and rural Africa. Proc Natl Acad Sci U S A 107: 14691-14696.
    • (2010) Proc Natl Acad Sci U S A , vol.107 , pp. 14691-14696
    • De Filippo, C.1    Cavalieri, D.2    Di Paola, M.3    Ramazzotti, M.4    Poullet, J.B.5
  • 9
    • 78049286743 scopus 로고    scopus 로고
    • Microbial community transcriptomes reveal microbes and metabolic pathways associated with dissolved organic matter turnover in the sea
    • McCarren J, Becker JW, Repeta DJ, Shi Y, Young CR, et al. (2010) Microbial community transcriptomes reveal microbes and metabolic pathways associated with dissolved organic matter turnover in the sea. Proc Natl Acad Sci U S A 107: 16420-16427.
    • (2010) Proc Natl Acad Sci U S A , vol.107 , pp. 16420-16427
    • McCarren, J.1    Becker, J.W.2    Repeta, D.J.3    Shi, Y.4    Young, C.R.5
  • 11
    • 69549112742 scopus 로고    scopus 로고
    • Accurate determination of microbial diversity from 454 pyrosequencing data
    • Quince C, Lanzen A, Curtis TP, Davenport RJ, Hall N, et al. (2009) Accurate determination of microbial diversity from 454 pyrosequencing data. Nat Methods 6: 639-641.
    • (2009) Nat Methods , vol.6 , pp. 639-641
    • Quince, C.1    Lanzen, A.2    Curtis, T.P.3    Davenport, R.J.4    Hall, N.5
  • 12
    • 70350294348 scopus 로고    scopus 로고
    • Systematic artifacts in metagenomes from complex microbial communities
    • Gomez-Alvarez V, Teal TK, Schmidt TM, (2009) Systematic artifacts in metagenomes from complex microbial communities. ISME J 3: 1314-1317.
    • (2009) ISME J , vol.3 , pp. 1314-1317
    • Gomez-Alvarez, V.1    Teal, T.K.2    Schmidt, T.M.3
  • 14
    • 47149111640 scopus 로고    scopus 로고
    • TileQC: a system for tile-based quality control of Solexa data
    • Dolan PC, Denver DR, (2008) TileQC: a system for tile-based quality control of Solexa data. BMC Bioinformatics 9: 250.
    • (2008) BMC Bioinformatics , vol.9 , pp. 250
    • Dolan, P.C.1    Denver, D.R.2
  • 17
    • 80052753042 scopus 로고    scopus 로고
    • Metagenomic insights into the evolution, function, and complexity of the planktonic microbial community of lake lanier, a temperate freshwater ecosystem
    • Oh S, Caro-Quintero A, Tsementzi D, Deleon-Rodriguez N, Luo C, et al. (2011) Metagenomic insights into the evolution, function, and complexity of the planktonic microbial community of lake lanier, a temperate freshwater ecosystem. Appl Environ Microbiol 77: 6000-6011.
    • (2011) Appl Environ Microbiol , vol.77 , pp. 6000-6011
    • Oh, S.1    Caro-Quintero, A.2    Tsementzi, D.3    Deleon-Rodriguez, N.4    Luo, C.5
  • 19
    • 53849115701 scopus 로고    scopus 로고
    • Genomic patterns of recombination, clonal divergence and environment in marine microbial populations
    • Konstantinidis KT, DeLong EF, (2008) Genomic patterns of recombination, clonal divergence and environment in marine microbial populations. ISME J 2: 1052-1065.
    • (2008) ISME J , vol.2 , pp. 1052-1065
    • Konstantinidis, K.T.1    DeLong, E.F.2
  • 20
    • 77952670727 scopus 로고    scopus 로고
    • Viral and microbial community dynamics in four aquatic environments
    • Rodriguez-Brito B, Li L, Wegley L, Furlan M, Angly F, et al. (2010) Viral and microbial community dynamics in four aquatic environments. ISME J 4: 739-751.
    • (2010) ISME J , vol.4 , pp. 739-751
    • Rodriguez-Brito, B.1    Li, L.2    Wegley, L.3    Furlan, M.4    Angly, F.5
  • 21
    • 77954086440 scopus 로고    scopus 로고
    • Development and quantitative analyses of a universal rRNA-subtraction protocol for microbial metatranscriptomics
    • Stewart FJ, Ottesen EA, DeLong EF, (2010) Development and quantitative analyses of a universal rRNA-subtraction protocol for microbial metatranscriptomics. ISME J 4: 896-907.
    • (2010) ISME J , vol.4 , pp. 896-907
    • Stewart, F.J.1    Ottesen, E.A.2    DeLong, E.F.3
  • 22
    • 58149234737 scopus 로고    scopus 로고
    • Real-time DNA sequencing from single polymerase molecules
    • Eid J, Fehr A, Gray J, Luong K, Lyle J, et al. (2009) Real-time DNA sequencing from single polymerase molecules. Science 323: 133-138.
    • (2009) Science , vol.323 , pp. 133-138
    • Eid, J.1    Fehr, A.2    Gray, J.3    Luong, K.4    Lyle, J.5
  • 23
    • 75649124547 scopus 로고    scopus 로고
    • De novo assembly of human genomes with massively parallel short read sequencing
    • Li R, Zhu H, Ruan J, Qian W, Fang X, et al. (2009) De novo assembly of human genomes with massively parallel short read sequencing. Genome Res 20: 265-272.
    • (2009) Genome Res , vol.20 , pp. 265-272
    • Li, R.1    Zhu, H.2    Ruan, J.3    Qian, W.4    Fang, X.5
  • 24
    • 43149115851 scopus 로고    scopus 로고
    • Velvet: algorithms for de novo short read assembly using de Bruijn graphs
    • Zerbino DR, Birney E, (2008) Velvet: algorithms for de novo short read assembly using de Bruijn graphs. Genome Res 18: 821-829.
    • (2008) Genome Res , vol.18 , pp. 821-829
    • Zerbino, D.R.1    Birney, E.2
  • 25
    • 62349130698 scopus 로고    scopus 로고
    • Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
    • Langmead B, Trapnell C, Pop M, Salzberg SL, (2009) Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol 10: R25.
    • (2009) Genome Biol , vol.10
    • Langmead, B.1    Trapnell, C.2    Pop, M.3    Salzberg, S.L.4
  • 26
    • 33750976398 scopus 로고    scopus 로고
    • MetaGene: prokaryotic gene finding from environmental genome shotgun sequences
    • Noguchi H, Park J, Takagi T, (2006) MetaGene: prokaryotic gene finding from environmental genome shotgun sequences. Nucleic Acids Res 34: 5623-5630.
    • (2006) Nucleic Acids Res , vol.34 , pp. 5623-5630
    • Noguchi, H.1    Park, J.2    Takagi, T.3
  • 27
    • 78651326786 scopus 로고    scopus 로고
    • FragGeneScan: predicting genes in short and error-prone reads
    • Rho M, Tang H, Ye Y, (2010) FragGeneScan: predicting genes in short and error-prone reads. Nucleic Acids Res 38: e191.
    • (2010) Nucleic Acids Res , vol.38
    • Rho, M.1    Tang, H.2    Ye, Y.3
  • 28
    • 0036226603 scopus 로고    scopus 로고
    • BLAT-the BLAST-like alignment tool
    • Kent WJ, (2002) BLAT-the BLAST-like alignment tool. Genome Res 12: 656-664.
    • (2002) Genome Res , vol.12 , pp. 656-664
    • Kent, W.J.1
  • 30
    • 0030801002 scopus 로고    scopus 로고
    • Gapped BLAST and PSI-BLAST: a new generation of protein database search programs
    • Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, et al. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 25: 3389-3402.
    • (1997) Nucleic Acids Res , vol.25 , pp. 3389-3402
    • Altschul, S.F.1    Madden, T.L.2    Schaffer, A.A.3    Zhang, J.4    Zhang, Z.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.