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Volumn 12, Issue 5, 2013, Pages 440-453

Next-generation sequencing technologies and their impact on microbial genomics

Author keywords

Genome sequencing; Metagenomics; NGS; Prokaryotes; Resequencing; RNA seq

Indexed keywords

RNA 16S; TRANSCRIPTOME;

EID: 84884516482     PISSN: 20412649     EISSN: 20412657     Source Type: Journal    
DOI: 10.1093/bfgp/els062     Document Type: Article
Times cited : (55)

References (139)
  • 1
    • 0029653518 scopus 로고
    • Whole-genome random sequencing and assembly of Haemophilus influenzae Rd
    • Fleischmann RD, Adams MD, White O, et al. Whole-genome random sequencing and assembly of Haemophilus influenzae Rd. Science 1995;269:496-512.
    • (1995) Science , vol.269 , pp. 496-512
    • Fleischmann, R.D.1    Adams, M.D.2    White, O.3
  • 2
    • 0028829125 scopus 로고
    • The minimal gene complement of Mycoplasma genitalium
    • Fraser CM, Gocayne JD, White O, et al. The minimal gene complement of Mycoplasma genitalium. Science 1995;270: 397-403.
    • (1995) Science , vol.270 , pp. 397-403
    • Fraser, C.M.1    Gocayne, J.D.2    White, O.3
  • 3
    • 0025283215 scopus 로고
    • Automated DNA sequencing of the human HPRT locus
    • Edwards A, Voss H, Rice P, etal. Automated DNA sequencing of the human HPRT locus. Genomics 1990;6:593-608.
    • (1990) Genomics , vol.6 , pp. 593-608
    • Edwards, A.1    Voss, H.2    Rice, P.3
  • 4
    • 0028987725 scopus 로고
    • Pairwise end sequencing: a unified approach to genomic mapping and sequencing
    • Roach JC, Boysen C, Wang K, et al. Pairwise end sequencing: a unified approach to genomic mapping and sequencing. Genomics 1995;26:345-53.
    • (1995) Genomics , vol.26 , pp. 345-353
    • Roach, J.C.1    Boysen, C.2    Wang, K.3
  • 5
    • 0030950735 scopus 로고    scopus 로고
    • Human whole-genome shotgun sequencing
    • Weber JL, Myers EW. Human whole-genome shotgun sequencing. GenomeRes 1997;7:401-9.
    • (1997) GenomeRes , vol.7 , pp. 401-409
    • Weber, J.L.1    Myers, E.W.2
  • 6
    • 0030731108 scopus 로고    scopus 로고
    • The complete genome sequence of the gram-positive bacterium Bacillus subtilis
    • Kunst F, Ogasawara N, Moszer I, et al. The complete genome sequence of the gram-positive bacterium Bacillus subtilis. Nature 1997;390:249-56.
    • (1997) Nature , vol.390 , pp. 249-256
    • Kunst, F.1    Ogasawara, N.2    Moszer, I.3
  • 7
    • 15444350252 scopus 로고    scopus 로고
    • The complete genome sequence of Escherichia coli K-12
    • Blattner FR, Plunkett G, Bloch CA, et al. The complete genome sequence of Escherichia coli K-12. Science 1997;277: 1453-74.
    • (1997) Science , vol.277 , pp. 1453-1474
    • Blattner, F.R.1    Plunkett, G.2    Bloch, C.A.3
  • 8
  • 9
    • 0032509302 scopus 로고    scopus 로고
    • Genome sequence of the nematode C. elegans: a platform for investigating biology
    • C. elegans sequencing Consortium
    • C. elegans sequencing Consortium. Genome sequence of the nematode C. elegans: a platform for investigating biology. Science 1998;282:2012-8.
    • (1998) Science , vol.282 , pp. 2012-2018
  • 10
    • 0034649566 scopus 로고    scopus 로고
    • Analysis of the genome sequence of the flowering plant Arabidopsis thaliana
    • Arabidopsis Genome Initiative
    • Arabidopsis Genome Initiative. Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature 2000;408:796-815.
    • (2000) Nature , vol.408 , pp. 796-815
  • 11
    • 0034708758 scopus 로고    scopus 로고
    • A whole-genome assembly of Drosophila
    • Myers EW, Sutton GG, Delcher AL, etal. A whole-genome assembly of Drosophila. Science 2000;287:2196-204.
    • (2000) Science , vol.287 , pp. 2196-2204
    • Myers, E.W.1    Sutton, G.G.2    Delcher, A.L.3
  • 12
    • 2042437650 scopus 로고    scopus 로고
    • Initial sequencing and analysis of the human genome
    • Lander ES, Linton LM, Birren B, et al. Initial sequencing and analysis of the human genome. Nature 2001;409: 860-921.
    • (2001) Nature , vol.409 , pp. 860-921
    • Lander, E.S.1    Linton, L.M.2    Birren, B.3
  • 13
    • 0035895505 scopus 로고    scopus 로고
    • The sequence of the human genome
    • Venter JC, Adams MD, Myers EW, et al. The sequence of the human genome. Science 2001;291:1304-51.
    • (2001) Science , vol.291 , pp. 1304-1351
    • Venter, J.C.1    Adams, M.D.2    Myers, E.W.3
  • 14
    • 72849144434 scopus 로고    scopus 로고
    • Sequencing technologies-the next generation
    • Metzker ML. Sequencing technologies-the next generation. Nat Rev Genet 2010;11:31-46.
    • (2010) Nat Rev Genet , vol.11 , pp. 31-46
    • Metzker, M.L.1
  • 16
    • 52949096084 scopus 로고    scopus 로고
    • Next-generation DNA sequencing methods
    • Mardis ER. Next-generation DNA sequencing methods. Annu RevGenomicsHum Genet 2008;9:387-402.
    • (2008) Annu RevGenomicsHum Genet , vol.9 , pp. 387-402
    • Mardis, E.R.1
  • 17
    • 28844463698 scopus 로고    scopus 로고
    • Emerging technologies in DNA sequencing
    • Metzker ML. Emerging technologies in DNA sequencing. Genome Res 2005;15:1767-76.
    • (2005) Genome Res , vol.15 , pp. 1767-1776
    • Metzker, M.L.1
  • 18
    • 67650447476 scopus 로고    scopus 로고
    • Fifteen years of microbial genomics: meeting the challenges and fulfilling the dream
    • Kyrpides NC. Fifteen years of microbial genomics: meeting the challenges and fulfilling the dream. Nat Biotechnol 2009; 27:627-32.
    • (2009) Nat Biotechnol , vol.27 , pp. 627-632
    • Kyrpides, N.C.1
  • 19
    • 54949159260 scopus 로고    scopus 로고
    • Time to remove the model organism blinkers
    • Parkhill J. Time to remove the model organism blinkers. Trends Microbiol 2008;16:510-1.
    • (2008) Trends Microbiol , vol.16 , pp. 510-511
    • Parkhill, J.1
  • 21
    • 28544440749 scopus 로고    scopus 로고
    • An analysis of the feasibility of short read sequencing
    • Whiteford N, Haslam N, Weber G, et al. An analysis of the feasibility of short read sequencing. Nucleic Acids Res 2005; 33:e171.
    • (2005) Nucleic Acids Res , vol.33
    • Whiteford, N.1    Haslam, N.2    Weber, G.3
  • 22
    • 77955385735 scopus 로고    scopus 로고
    • Read length and repeat resolution: exploring prokaryote genomes using next-generation sequencing technologies
    • Cahill MJ, Köser CU, Ross NE, et al. Read length and repeat resolution: exploring prokaryote genomes using next-generation sequencing technologies. PLoS One 2010; 5:e11518.
    • (2010) PLoS One , vol.5
    • Cahill, M.J.1    Köser, C.U.2    Ross, N.E.3
  • 23
    • 70449701942 scopus 로고    scopus 로고
    • Sense from sequence reads: methods for alignment and assembly
    • Flicek P, Birney E. Sense from sequence reads: methods for alignment and assembly. Nat Methods 2009;6: S6-S12.
    • (2009) Nat Methods , vol.6
    • Flicek, P.1    Birney, E.2
  • 24
    • 67449095888 scopus 로고    scopus 로고
    • Genome assembly reborn: recent computational challenges
    • Pop M. Genome assembly reborn: recent computational challenges. Brief Bioinformatics 2009;10:354-66.
    • (2009) Brief Bioinformatics , vol.10 , pp. 354-366
    • Pop, M.1
  • 25
    • 59949093527 scopus 로고    scopus 로고
    • De novo fragment assembly with short mate-paired reads: does the read length matter?
    • Chaisson MJ, Brinza D, Pevzner PA. De novo fragment assembly with short mate-paired reads: does the read length matter? Genome Res 2009;19:336-46.
    • (2009) Genome Res , vol.19 , pp. 336-346
    • Chaisson, M.J.1    Brinza, D.2    Pevzner, P.A.3
  • 26
    • 79953187986 scopus 로고    scopus 로고
    • Helicobacter pylori genome evolution during human infection
    • Kennemann L, Didelot X, Aebischer T, et al. Helicobacter pylori genome evolution during human infection. Proc Natl Acad SciUSA 2011;108:5033-8.
    • (2011) Proc Natl Acad SciUSA , vol.108 , pp. 5033-5038
    • Kennemann, L.1    Didelot, X.2    Aebischer, T.3
  • 27
    • 77957866587 scopus 로고    scopus 로고
    • Rapid identification of genetic modifications in Bacillus anthracis using whole genome draft sequences generated by 454 pyrosequencing
    • Chen PE, Willner KM, Butani A, et al. Rapid identification of genetic modifications in Bacillus anthracis using whole genome draft sequences generated by 454 pyrosequencing. PLoS One 2010;5:e12397.
    • (2010) PLoS One , vol.5
    • Chen, P.E.1    Willner, K.M.2    Butani, A.3
  • 29
    • 48349124258 scopus 로고    scopus 로고
    • High-throughput sequencing provides insights into genome variation and evolution in Salmonella typhi
    • Holt KE, Parkhill J, Mazzoni CJ, et al. High-throughput sequencing provides insights into genome variation and evolution in Salmonella typhi. Nat Genet 2008;40:987-93.
    • (2008) Nat Genet , vol.40 , pp. 987-993
    • Holt, K.E.1    Parkhill, J.2    Mazzoni, C.J.3
  • 30
    • 79955460244 scopus 로고    scopus 로고
    • Use of whole genome sequencing to estimate the mutation rate of Mycobacterium tuberculosis during latent infection
    • Ford CB, Lin PL, Chase MR, et al. Use of whole genome sequencing to estimate the mutation rate of Mycobacterium tuberculosis during latent infection. NatGenet 2011;43:482-6.
    • (2011) NatGenet , vol.43 , pp. 482-486
    • Ford, C.B.1    Lin, P.L.2    Chase, M.R.3
  • 31
    • 24044455869 scopus 로고    scopus 로고
    • Genome sequencing in microfabricated high-density picolitre reactors
    • Margulies M, Egholm M, Altman WE, et al. Genome sequencing in microfabricated high-density picolitre reactors. Nature 2005;437:376-80.
    • (2005) Nature , vol.437 , pp. 376-380
    • Margulies, M.1    Egholm, M.2    Altman, W.E.3
  • 33
    • 39649084637 scopus 로고    scopus 로고
    • Bioinformatics challenges of new sequencing technology
    • Pop M, Salzberg SL. Bioinformatics challenges of new sequencing technology. TrendsGenet 2008;24:142-9.
    • (2008) TrendsGenet , vol.24 , pp. 142-149
    • Pop, M.1    Salzberg, S.L.2
  • 34
    • 0035232164 scopus 로고    scopus 로고
    • Fragment assembly with doublebarreled data
    • Pevzner PA, Tang H. Fragment assembly with doublebarreled data. Bioinformatics 2001;17(Suppl 1):S225-S233.
    • (2001) Bioinformatics , vol.17 , Issue.SUPPL 1
    • Pevzner, P.A.1    Tang, H.2
  • 35
    • 34547312505 scopus 로고    scopus 로고
    • Shotgun sequence assembly
    • Pop M. Shotgun sequence assembly. Adv Comput 2004;60: 193-248.
    • (2004) Adv Comput , vol.60 , pp. 193-248
    • Pop, M.1
  • 36
    • 33746605947 scopus 로고    scopus 로고
    • A Sanger/pyrosequencing hybrid approach for the generation of high-quality draft assemblies of marine microbial genomes
    • Goldberg SMD, Johnson J, Busam D, et al. A Sanger/pyrosequencing hybrid approach for the generation of high-quality draft assemblies of marine microbial genomes. ProcNatl Acad SciUSA 2006;103:11240-5.
    • (2006) ProcNatl Acad SciUSA , vol.103 , pp. 11240-11245
    • Goldberg, S.M.D.1    Johnson, J.2    Busam, D.3
  • 37
    • 77956279237 scopus 로고    scopus 로고
    • Assembly of large genomes using second-generation sequencing
    • Schatz MC, Delcher AL, Salzberg SL. Assembly of large genomes using second-generation sequencing. Genome Res 2010;20:1165-73.
    • (2010) Genome Res , vol.20 , pp. 1165-1173
    • Schatz, M.C.1    Delcher, A.L.2    Salzberg, S.L.3
  • 38
    • 39049156065 scopus 로고    scopus 로고
    • Short read fragment assembly of bacterial genomes
    • Chaisson MJ, Pevzner PA. Short read fragment assembly of bacterial genomes. GenomeRes 2008;18:324-30.
    • (2008) GenomeRes , vol.18 , pp. 324-330
    • Chaisson, M.J.1    Pevzner, P.A.2
  • 39
    • 58349105386 scopus 로고    scopus 로고
    • High quality draft sequences for prokaryotic genomes using a mix of new sequencing technologies
    • Aury J-M, Cruaud C, Barbe V, et al. High quality draft sequences for prokaryotic genomes using a mix of new sequencing technologies. BMCGenomics 2008;9:603.
    • (2008) BMCGenomics , vol.9 , pp. 603
    • Aury, J.-M.1    Cruaud, C.2    Barbe, V.3
  • 40
    • 84863664355 scopus 로고    scopus 로고
    • A hybrid approach for the automated finishing of bacterial genomes
    • Bashir A, Klammer AA, Robins WP, et al. A hybrid approach for the automated finishing of bacterial genomes. Nat Biotechnol 2012;30:701-7.
    • (2012) Nat Biotechnol , vol.30 , pp. 701-707
    • Bashir, A.1    Klammer, A.A.2    Robins, W.P.3
  • 41
    • 79959723260 scopus 로고    scopus 로고
    • Rapid hybrid de novo assembly of a microbial genome using only short reads: Corynebacterium pseudotuberculosis I19 as a case study
    • Cerdeira LT, Carneiro AR, Ramos RTJ, et al. Rapid hybrid de novo assembly of a microbial genome using only short reads: Corynebacterium pseudotuberculosis I19 as a case study. JMicrobiolMethods 2011;86:218-23.
    • (2011) JMicrobiolMethods , vol.86 , pp. 218-223
    • Cerdeira, L.T.1    Carneiro, A.R.2    Ramos, R.T.J.3
  • 42
    • 80052211950 scopus 로고    scopus 로고
    • Genome sequences and comparative genomics of two Lactobacillus ruminis strains from the bovine and human intestinal tracts
    • Forde BM, Neville B, O'Donnell MM, et al. Genome sequences and comparative genomics of two Lactobacillus ruminis strains from the bovine and human intestinal tracts. Microbial Cell Factories 2011;10:S13.
    • (2011) Microbial Cell Factories , vol.10
    • Forde, B.M.1    Neville, B.2    O'Donnell, M.M.3
  • 43
    • 59949090259 scopus 로고    scopus 로고
    • De novo assembly using low-coverage short read sequence data from the rice pathogen Pseudomonas syringae pv
    • Reinhardt JA, Baltrus DA, Nishimura MT, et al. De novo assembly using low-coverage short read sequence data from the rice pathogen Pseudomonas syringae pv. oryzae. GenomeRes 2009;19:294-305.
    • (2009) oryzae. GenomeRes , vol.19 , pp. 294-305
    • Reinhardt, J.A.1    Baltrus, D.A.2    Nishimura, M.T.3
  • 44
    • 71449100076 scopus 로고    scopus 로고
    • Mapping the tree of life: progress and prospects
    • Pace NR. Mapping the tree of life: progress and prospects. MicrobiolMol Biol Rev 2009;73:565-76.
    • (2009) MicrobiolMol Biol Rev , vol.73 , pp. 565-576
    • Pace, N.R.1
  • 45
    • 46449124442 scopus 로고    scopus 로고
    • A diversity profile of the human skin microbiota
    • Grice EA, Kong HH, Renaud G, et al. A diversity profile of the human skin microbiota. Genome Res 2008;18: 1043-50.
    • (2008) Genome Res , vol.18 , pp. 1043-1050
    • Grice, E.A.1    Kong, H.H.2    Renaud, G.3
  • 46
    • 33645865842 scopus 로고    scopus 로고
    • Identification of dominant bacteria in feces and colonic mucosa from healthy Spanish adults by culturing and by 16S rDNA sequence analysis
    • Delgado S, Suárez A, Mayo B. Identification of dominant bacteria in feces and colonic mucosa from healthy Spanish adults by culturing and by 16S rDNA sequence analysis. Dig Dis Sci 2006;51:744-51.
    • (2006) Dig Dis Sci , vol.51 , pp. 744-751
    • Delgado, S.1    Suárez, A.2    Mayo, B.3
  • 47
    • 0036185771 scopus 로고    scopus 로고
    • Assessment of microbial diversity in human colonic samples by 16S rDNA sequence analysis
    • Hold GL, Pryde SE, Russell VJ, et al. Assessment of microbial diversity in human colonic samples by 16S rDNA sequence analysis. FEMS Microbiol Ecol 2002;39: 33-9.
    • (2002) FEMS Microbiol Ecol , vol.39 , pp. 33-39
    • Hold, G.L.1    Pryde, S.E.2    Russell, V.J.3
  • 48
    • 11144354360 scopus 로고    scopus 로고
    • Environmental genome shotgun sequencing of the Sargasso Sea
    • Venter JC, Remington K, Heidelberg JF, et al. Environmental genome shotgun sequencing of the Sargasso Sea. Science 2004;304:66-74.
    • (2004) Science , vol.304 , pp. 66-74
    • Venter, J.C.1    Remington, K.2    Heidelberg, J.F.3
  • 49
    • 1542377296 scopus 로고    scopus 로고
    • Community structure and metabolism through reconstruction of microbial genomes from the environment
    • Tyson GW, Chapman J, Hugenholtz P, et al. Community structure and metabolism through reconstruction of microbial genomes from the environment. Nature 2004; 428:37-43.
    • (2004) Nature , vol.428 , pp. 37-43
    • Tyson, G.W.1    Chapman, J.2    Hugenholtz, P.3
  • 50
    • 0033151643 scopus 로고    scopus 로고
    • Ribosomal DNA sequencing as a tool for identification of bacterial pathogens
    • Kolbert CP, Persing DH. Ribosomal DNA sequencing as a tool for identification of bacterial pathogens. Curr Opin Microbiol 1999;2:299-305.
    • (1999) Curr Opin Microbiol , vol.2 , pp. 299-305
    • Kolbert, C.P.1    Persing, D.H.2
  • 51
    • 34548696115 scopus 로고    scopus 로고
    • 16S rRNA gene sequencing for bacterial identification in the diagnostic laboratory: pluses, perils, and pitfalls
    • Janda JM, Abbott SL. 16S rRNA gene sequencing for bacterial identification in the diagnostic laboratory: pluses, perils, and pitfalls. JClinMicrobiol 2007;45:2761-4.
    • (2007) JClinMicrobiol , vol.45 , pp. 2761-2764
    • Janda, J.M.1    Abbott, S.L.2
  • 52
    • 34548671168 scopus 로고    scopus 로고
    • DNA pyrosequencing- based bacterial pathogen identification in a pediatric hospital setting
    • Luna RA, Fasciano LR, Jones SC, et al. DNA pyrosequencing- based bacterial pathogen identification in a pediatric hospital setting. JClinMicrobiol 2007;45:2985-92.
    • (2007) JClinMicrobiol , vol.45 , pp. 2985-2992
    • Luna, R.A.1    Fasciano, L.R.2    Jones, S.C.3
  • 53
    • 65949108590 scopus 로고    scopus 로고
    • Metagenomic pyrosequencing and microbial identification
    • Petrosino JF, Highlander S, Luna RA, et al. Metagenomic pyrosequencing and microbial identification. Clin Chem 2009;55:856-66.
    • (2009) Clin Chem , vol.55 , pp. 856-866
    • Petrosino, J.F.1    Highlander, S.2    Luna, R.A.3
  • 54
    • 57649184474 scopus 로고    scopus 로고
    • Genome-scale analyses of health-promoting bacteria: probiogenomics
    • Ventura M, O'Flaherty S, Claesson MJ, et al. Genome-scale analyses of health-promoting bacteria: probiogenomics. Nat RevMicrobiol 2009;7:61-71.
    • (2009) Nat RevMicrobiol , vol.7 , pp. 61-71
    • Ventura, M.1    O'Flaherty, S.2    Claesson, M.J.3
  • 55
    • 69249109724 scopus 로고    scopus 로고
    • Comparative analysis of pyrosequencing and a phylogenetic microarray for exploring microbial community structures in the human distal intestine
    • Claesson MJ, O'Sullivan O, Wang Q, et al. Comparative analysis of pyrosequencing and a phylogenetic microarray for exploring microbial community structures in the human distal intestine. PLoS One 2009;4:e6669.
    • (2009) PLoS One , vol.4
    • Claesson, M.J.1    O'Sullivan, O.2    Wang, Q.3
  • 56
    • 78650453707 scopus 로고    scopus 로고
    • Comparison of two next-generation sequencing technologies for resolving highly complex microbiota composition using tandem variable 16S rRNA gene regions
    • Claesson MJ, Wang Q, O'Sullivan O, et al. Comparison of two next-generation sequencing technologies for resolving highly complex microbiota composition using tandem variable 16S rRNA gene regions. Nucleic Acids Res 2010;38: e200.
    • (2010) Nucleic Acids Res , vol.38
    • Claesson, M.J.1    Wang, Q.2    O'Sullivan, O.3
  • 57
    • 79952005915 scopus 로고    scopus 로고
    • Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample
    • Caporaso JG, Lauber CL, Walters WA, et al. Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample. Proc Natl Acad Sci U S A 2011; 108(Suppl):4516-22.
    • (2011) Proc Natl Acad Sci U S A , vol.108 , Issue.SUPPL , pp. 4516-4522
    • Caporaso, J.G.1    Lauber, C.L.2    Walters, W.A.3
  • 58
    • 84355163066 scopus 로고    scopus 로고
    • Illumina-based analysis of microbial community diversity
    • Degnan PH, Ochman H. Illumina-based analysis of microbial community diversity. ISMEJ 2012;6:183-94.
    • (2012) ISMEJ , vol.6 , pp. 183-194
    • Degnan, P.H.1    Ochman, H.2
  • 59
    • 76049126745 scopus 로고    scopus 로고
    • Ecology of the rare microbial biosphere of the Arctic Ocean
    • Galand PE, Casamayor EO, Kirchman DL, et al. Ecology of the rare microbial biosphere of the Arctic Ocean. Proc Natl Acad SciUSA 2009;106:22427-32.
    • (2009) Proc Natl Acad SciUSA , vol.106 , pp. 22427-22432
    • Galand, P.E.1    Casamayor, E.O.2    Kirchman, D.L.3
  • 60
    • 84867741260 scopus 로고    scopus 로고
    • Salt marsh sediment diversity: a test of the variability of the rare biosphere among environmental replicates
    • Bowen JL, Morrison HG, Hobbie JE, et al. Salt marsh sediment diversity: a test of the variability of the rare biosphere among environmental replicates. ISME J 2012;6:2014-23.
    • (2012) ISME J , vol.6 , pp. 2014-2023
    • Bowen, J.L.1    Morrison, H.G.2    Hobbie, J.E.3
  • 61
    • 84864722033 scopus 로고    scopus 로고
    • Gut microbiota composition correlates with diet and health in the elderly
    • Claesson MJ, Jeffery IB, Conde S, et al. Gut microbiota composition correlates with diet and health in the elderly. Nature 2012;488:178-84.
    • (2012) Nature , vol.488 , pp. 178-184
    • Claesson, M.J.1    Jeffery, I.B.2    Conde, S.3
  • 62
    • 84861694251 scopus 로고    scopus 로고
    • Identifying a healthy oral microbiome through metagenomics
    • Alcaraz LD, Belda-Ferre P, Cabrera-Rubio R, et al. Identifying a healthy oral microbiome through metagenomics. Clin Microbiol Infect 2012;18(Suppl 4):54-7.
    • (2012) Clin Microbiol Infect , vol.18 , Issue.SUPPL 4 , pp. 54-57
    • Alcaraz, L.D.1    Belda-Ferre, P.2    Cabrera-Rubio, R.3
  • 63
    • 84861653143 scopus 로고    scopus 로고
    • Changes in the intestinal microbiota from adulthood through to old age
    • O'Toole PW. Changes in the intestinal microbiota from adulthood through to old age. Clin Microbiol Infect 2012; 18(Suppl 4):44-6.
    • (2012) Clin Microbiol Infect , vol.18 , Issue.SUPPL 4 , pp. 44-46
    • O'Toole, P.W.1
  • 64
    • 58749112734 scopus 로고    scopus 로고
    • A core gut microbiome in obese and lean twins
    • Turnbaugh PJ, Hamady M, Yatsunenko T, et al. A core gut microbiome in obese and lean twins. Nature 2009;457: 480-4.
    • (2009) Nature , vol.457 , pp. 480-484
    • Turnbaugh, P.J.1    Hamady, M.2    Yatsunenko, T.3
  • 65
    • 79952201936 scopus 로고    scopus 로고
    • Exploring the oral microbiota of children at various developmental stages of their dentition in the relation to their oral health
    • Crielaard W, Zaura E, Schuller AA, et al. Exploring the oral microbiota of children at various developmental stages of their dentition in the relation to their oral health. BMCMed Genomics 2011;4:22.
    • (2011) BMCMed Genomics , vol.4 , pp. 22
    • Crielaard, W.1    Zaura, E.2    Schuller, A.A.3
  • 66
    • 79958768051 scopus 로고    scopus 로고
    • Skin microbiome: genomics-based insights into the diversity and role of skin microbes
    • Kong HH. Skin microbiome: genomics-based insights into the diversity and role of skin microbes. TrendsMolMed 2011; 17:320-8.
    • (2011) TrendsMolMed , vol.17 , pp. 320-328
    • Kong, H.H.1
  • 67
    • 84862209519 scopus 로고    scopus 로고
    • A metagenomic approach to characterization of the vaginal microbiome signature in pregnancy
    • Aagaard K, Riehle K, Ma J, et al. A metagenomic approach to characterization of the vaginal microbiome signature in pregnancy. PLoS One 2012;7:e36466.
    • (2012) PLoS One , vol.7
    • Aagaard, K.1    Riehle, K.2    Ma, J.3
  • 68
    • 20544444045 scopus 로고    scopus 로고
    • Diversity of the human intestinal microbial flora
    • Eckburg PB, Bik EM, Bernstein CN, et al. Diversity of the human intestinal microbial flora. Science 2005;308:1635-8.
    • (2005) Science , vol.308 , pp. 1635-1638
    • Eckburg, P.B.1    Bik, E.M.2    Bernstein, C.N.3
  • 69
    • 84862162269 scopus 로고    scopus 로고
    • Composition of the adult digestive tract bacterial microbiome based on seven mouth surfaces, tonsils, throat and stool samples
    • Segata N, Haake SK, Mannon P, et al. Composition of the adult digestive tract bacterial microbiome based on seven mouth surfaces, tonsils, throat and stool samples. Genome Biol 2012;13:R42.
    • (2012) Genome Biol , vol.13
    • Segata, N.1    Haake, S.K.2    Mannon, P.3
  • 70
    • 84862276328 scopus 로고    scopus 로고
    • Structure, function and diversity of the healthy human microbiome
    • The Human Microbiome Project consortium.
    • The Human Microbiome Project consortium. Structure, function and diversity of the healthy human microbiome. Nature 2012;486:207-14.
    • (2012) Nature , vol.486 , pp. 207-214
  • 71
    • 33845901507 scopus 로고    scopus 로고
    • Microbial ecology: human gut microbes associated with obesity
    • Ley RE, Turnbaugh PJ, Klein S, et al. Microbial ecology: human gut microbes associated with obesity. Nature 2006; 444:1022-3.
    • (2006) Nature , vol.444 , pp. 1022-1023
    • Ley, R.E.1    Turnbaugh, P.J.2    Klein, S.3
  • 72
    • 84861578319 scopus 로고    scopus 로고
    • An irritable bowel syndrome subtype defined by species-specific alterations in faecal microbiota
    • Jeffery IB, O'Toole PW, öhman L, et al. An irritable bowel syndrome subtype defined by species-specific alterations in faecal microbiota. Gut 2012;61:997-1006.
    • (2012) Gut , vol.61 , pp. 997-1006
    • Jeffery, I.B.1    O'Toole, P.W.2    Öhman, L.3
  • 73
    • 33947235074 scopus 로고    scopus 로고
    • The Sorcerer II Global Ocean Sampling expedition: expanding the universe of protein families
    • Yooseph S, Sutton G, Rusch DB, et al. The Sorcerer II Global Ocean Sampling expedition: expanding the universe of protein families. PLoS Biol 2007;5:e16.
    • (2007) PLoS Biol , vol.5
    • Yooseph, S.1    Sutton, G.2    Rusch, D.B.3
  • 74
    • 77950251400 scopus 로고    scopus 로고
    • A human gut microbial gene catalogue established by metagenomic sequencing
    • Qin J, Li R, Raes J, et al. A human gut microbial gene catalogue established by metagenomic sequencing. Nature 2010;464:59-65.
    • (2010) Nature , vol.464 , pp. 59-65
    • Qin, J.1    Li, R.2    Raes, J.3
  • 75
    • 84863022950 scopus 로고    scopus 로고
    • Genomic analysis identifies association of Fusobacterium with colorectal carcinoma
    • Kostic AD, Gevers D, Pedamallu CS, etal. Genomic analysis identifies association of Fusobacterium with colorectal carcinoma. Genome Res 2012;22:292-8.
    • (2012) Genome Res , vol.22 , pp. 292-298
    • Kostic, A.D.1    Gevers, D.2    Pedamallu, C.S.3
  • 76
    • 77950670562 scopus 로고    scopus 로고
    • Altered profiles of intestinal microbiota and organic acids may be the origin of symptoms in irritable bowel syndrome
    • e114-e115
    • Tana C, Umesaki Y, Imaoka A, et al. Altered profiles of intestinal microbiota and organic acids may be the origin of symptoms in irritable bowel syndrome. Neurogastroenterol Motil 2010;22:512-9, e114-5.
    • (2010) Neurogastroenterol Motil , vol.22 , pp. 512-519
    • Tana, C.1    Umesaki, Y.2    Imaoka, A.3
  • 77
    • 33845874101 scopus 로고    scopus 로고
    • An obesity-associated gut microbiome with increased capacity for energy harvest
    • Turnbaugh PJ, Ley RE, Mahowald MA, et al. An obesity-associated gut microbiome with increased capacity for energy harvest. Nature 2006;444:1027-31.
    • (2006) Nature , vol.444 , pp. 1027-1031
    • Turnbaugh, P.J.1    Ley, R.E.2    Mahowald, M.A.3
  • 78
    • 57249113908 scopus 로고    scopus 로고
    • Helicobacter pylori and esophageal cancer risk: a meta-analysis
    • Islami F, Kamangar F. Helicobacter pylori and esophageal cancer risk: a meta-analysis. Cancer Prevent Res 2008;1: 329-38.
    • (2008) Cancer Prevent Res , vol.1 , pp. 329-338
    • Islami, F.1    Kamangar, F.2
  • 79
    • 34247547360 scopus 로고    scopus 로고
    • Inverse associations of Helicobacter pylori with asthma and allergy
    • Chen Y, Blaser MJ. Inverse associations of Helicobacter pylori with asthma and allergy. Arch IntMed 2007;167:821-7.
    • (2007) Arch IntMed , vol.167 , pp. 821-827
    • Chen, Y.1    Blaser, M.J.2
  • 80
    • 50549099726 scopus 로고    scopus 로고
    • Substantial alterations of the cutaneous bacterial biota in psoriatic lesions
    • Gao Z, Tseng C, Strober BE, et al. Substantial alterations of the cutaneous bacterial biota in psoriatic lesions. PLoS One 2008;3:e2719.
    • (2008) PLoS One , vol.3
    • Gao, Z.1    Tseng, C.2    Strober, B.E.3
  • 81
    • 79953733693 scopus 로고    scopus 로고
    • Gut flora metabolism of phosphatidylcholine promotes cardiovascular disease
    • Wang Z, Klipfell E, Bennett BJ, et al. Gut flora metabolism of phosphatidylcholine promotes cardiovascular disease. Nature 2011;472:57-63.
    • (2011) Nature , vol.472 , pp. 57-63
    • Wang, Z.1    Klipfell, E.2    Bennett, B.J.3
  • 82
    • 84862286169 scopus 로고    scopus 로고
    • A framework for human microbiome research
    • The Human Microbiome Project consortium
    • The Human Microbiome Project consortium. A framework for human microbiome research. Nature 2012;486:215-21.
    • (2012) Nature , vol.486 , pp. 215-221
  • 83
    • 84862201019 scopus 로고    scopus 로고
    • Novel bacterial taxa in the human microbiome
    • Wylie KM, Truty RM, Sharpton TJ, et al. Novel bacterial taxa in the human microbiome. PLoS One 2012;7:e35294.
    • (2012) PLoS One , vol.7
    • Wylie, K.M.1    Truty, R.M.2    Sharpton, T.J.3
  • 84
    • 84861001724 scopus 로고    scopus 로고
    • Inflammatory bowel diseases phenotype, C. difficile and NOD2 genotype are associated with shifts in human ileum associated microbial composition.
    • Li E, Hamm CM, Gulati AS, et al. Inflammatory bowel diseases phenotype, C. difficile and NOD2 genotype are associated with shifts in human ileum associated microbial composition. PLoS One 2012;7:e26284.
    • (2012) PLoS One , vol.7
    • Li, E.1    Hamm, C.M.2    Gulati, A.S.3
  • 85
    • 2942560683 scopus 로고    scopus 로고
    • Benefits and pitfalls of using microarrays to monitor bacterial gene expression during infection
    • Hinton JCD, Hautefort I, Eriksson S, et al. Benefits and pitfalls of using microarrays to monitor bacterial gene expression during infection. Curr Opin Microbiol 2004;7: 277-82.
    • (2004) Curr Opin Microbiol , vol.7 , pp. 277-282
    • Hinton, J.C.D.1    Hautefort, I.2    Eriksson, S.3
  • 86
    • 33746361200 scopus 로고    scopus 로고
    • Hybridization interactions between probesets in short oligo microarrays lead to spurious correlations
    • Okoniewski MJ, Miller CJ. Hybridization interactions between probesets in short oligo microarrays lead to spurious correlations. BMC Bioinformatics 2006;7:276.
    • (2006) BMC Bioinformatics , vol.7 , pp. 276
    • Okoniewski, M.J.1    Miller, C.J.2
  • 87
    • 57749195712 scopus 로고    scopus 로고
    • RNA-Seq: a revolutionary tool for transcriptomics
    • Wang Z, Gerstein M, Snyder M. RNA-Seq: a revolutionary tool for transcriptomics. Nat Rev Genet 2009;10: 57-63.
    • (2009) Nat Rev Genet , vol.10 , pp. 57-63
    • Wang, Z.1    Gerstein, M.2    Snyder, M.3
  • 88
    • 70949102952 scopus 로고    scopus 로고
    • Next generation sequencing of microbial transcriptomes: challenges and opportunities
    • van Vliet AHM. Next generation sequencing of microbial transcriptomes: challenges and opportunities. FEMS Microbiol Lett 2010;302:1-7.
    • (2010) FEMS Microbiol Lett , vol.302 , pp. 1-7
    • van Vliet, A.H.M.1
  • 89
    • 0023948705 scopus 로고
    • Mapping protein- DNA interactions in vivo with formaldehyde: evidence that histone H4 is retained on a highly transcribed gene
    • Solomon MJ, Larsen PL, Varshavsky A. Mapping protein- DNA interactions in vivo with formaldehyde: evidence that histone H4 is retained on a highly transcribed gene. Cell 1988;53:937-47.
    • (1988) Cell , vol.53 , pp. 937-947
    • Solomon, M.J.1    Larsen, P.L.2    Varshavsky, A.3
  • 90
    • 38449114551 scopus 로고    scopus 로고
    • Chop it, ChIP it, check it: the current status of chromatin immunoprecipitation
    • Collas P, Dahl JA. Chop it, ChIP it, check it: the current status of chromatin immunoprecipitation. Frontiers Biosci 2008;13:929-43.
    • (2008) Frontiers Biosci , vol.13 , pp. 929-943
    • Collas, P.1    Dahl, J.A.2
  • 91
    • 70349352030 scopus 로고    scopus 로고
    • ChIP on chip assays: genome-wide analysis of transcription factor binding and histone modifications
    • Pillai S, Chellappan SP. ChIP on chip assays: genome-wide analysis of transcription factor binding and histone modifications. MethodsMol Biol 2009;523:341-66.
    • (2009) MethodsMol Biol , vol.523 , pp. 341-366
    • Pillai, S.1    Chellappan, S.P.2
  • 92
    • 0034704248 scopus 로고    scopus 로고
    • Genome-wide location and function of DNA binding proteins
    • Ren B, Robert F, Wyrick JJ, et al. Genome-wide location and function of DNA binding proteins. Science 2000;290: 2306-9.
    • (2000) Science , vol.290 , pp. 2306-2309
    • Ren, B.1    Robert, F.2    Wyrick, J.J.3
  • 93
    • 34547624303 scopus 로고    scopus 로고
    • Genome-wide maps of chromatin state in pluripotent and lineage-committed cells
    • Mikkelsen TS, Ku M, Jaffe DB, et al. Genome-wide maps of chromatin state in pluripotent and lineage-committed cells. Nature 2007;448:553-60.
    • (2007) Nature , vol.448 , pp. 553-560
    • Mikkelsen, T.S.1    Ku, M.2    Jaffe, D.B.3
  • 94
    • 34250159524 scopus 로고    scopus 로고
    • Genome-wide mapping of in vivo protein-DNA interactions
    • Johnson DS, Mortazavi A, Myers RM, et al. Genome-wide mapping of in vivo protein-DNA interactions. Science 2007;316:1497-502.
    • (2007) Science , vol.316 , pp. 1497-1502
    • Johnson, D.S.1    Mortazavi, A.2    Myers, R.M.3
  • 95
    • 34547633677 scopus 로고    scopus 로고
    • Genome-wide profiles of STAT1 DNA association using chromatin immunoprecipitation and massively parallel sequencing
    • Robertson G, Hirst M, Bainbridge M, et al. Genome-wide profiles of STAT1 DNA association using chromatin immunoprecipitation and massively parallel sequencing. NatMethods 2007;4:651-7.
    • (2007) NatMethods , vol.4 , pp. 651-657
    • Robertson, G.1    Hirst, M.2    Bainbridge, M.3
  • 96
    • 70349312354 scopus 로고    scopus 로고
    • ChIP-seq: advantages and challenges of a maturing technology
    • Park PJ. ChIP-seq: advantages and challenges of a maturing technology. Nat Rev Genet 2009;10:669-80.
    • (2009) Nat Rev Genet , vol.10 , pp. 669-680
    • Park, P.J.1
  • 97
    • 80053581966 scopus 로고    scopus 로고
    • An extracytoplasmic function sigma factor-mediated cell surface signaling system in Pseudomonas syringae pv. tomato DC3000 regulates gene expression in response to heterologous siderophores.
    • Markel E, Maciak C, Butcher BG, et al. An extracytoplasmic function sigma factor-mediated cell surface signaling system in Pseudomonas syringae pv. tomato DC3000 regulates gene expression in response to heterologous siderophores. J Bacteriol 2011;193:5775-83.
    • (2011) J Bacteriol , vol.193 , pp. 5775-5783
    • Markel, E.1    Maciak, C.2    Butcher, B.G.3
  • 98
    • 80052549681 scopus 로고    scopus 로고
    • Characterization of the Fur regulon in Pseudomonas syringae pv
    • Butcher BG, Bronstein PA, Myers CR, et al. Characterization of the Fur regulon in Pseudomonas syringae pv. tomato DC3000. J Bacteriol 2011;193:4598-611.
    • (2011) tomato DC3000. J Bacteriol , vol.193 , pp. 4598-4611
    • Butcher, B.G.1    Bronstein, P.A.2    Myers, C.R.3
  • 99
    • 79961063576 scopus 로고    scopus 로고
    • Mapping the regulon of Vibrio cholerae ferric uptake regulator expands its known network of gene regulation
    • Davies BW, Bogard RW, Mekalanos JJ. Mapping the regulon of Vibrio cholerae ferric uptake regulator expands its known network of gene regulation. Proc Natl Acad Sci US A 2011;108:12467-72.
    • (2011) Proc Natl Acad Sci US A , vol.108 , pp. 12467-12472
    • Davies, B.W.1    Bogard, R.W.2    Mekalanos, J.J.3
  • 100
    • 84861550649 scopus 로고    scopus 로고
    • A workflow for genome-wide mapping of archaeal transcription factors with ChIP-seq
    • Wilbanks EG, Larsen DJ, Neches RY, etal. A workflow for genome-wide mapping of archaeal transcription factors with ChIP-seq. Nucleic Acids Res 2012;40:e74.
    • (2012) Nucleic Acids Res , vol.40
    • Wilbanks, E.G.1    Larsen, D.J.2    Neches, R.Y.3
  • 101
    • 84861210509 scopus 로고    scopus 로고
    • Virulence regulator EspR of Mycobacterium tuberculosis is a nucleoid-associated protein
    • Blasco B, Chen JM, Hartkoorn R, etal. Virulence regulator EspR of Mycobacterium tuberculosis is a nucleoid-associated protein. PLoS Pathogens 2012;8:e1002621.
    • (2012) PLoS Pathogens , vol.8
    • Blasco, B.1    Chen, J.M.2    Hartkoorn, R.3
  • 103
    • 7444262496 scopus 로고    scopus 로고
    • The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)
    • Gerhard DS, Wagner L, Feingold EA, et al. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). GenomeRes 2004;14:2121-7.
    • (2004) GenomeRes , vol.14 , pp. 2121-2127
    • Gerhard, D.S.1    Wagner, L.2    Feingold, E.A.3
  • 104
  • 105
    • 84988044467 scopus 로고    scopus 로고
    • CAGE: cap analysis of gene expression
    • Kodzius R, Kojima M, Nishiyori H, et al. CAGE: cap analysis of gene expression. NatMethods 2006;3:211-22.
    • (2006) NatMethods , vol.3 , pp. 211-222
    • Kodzius, R.1    Kojima, M.2    Nishiyori, H.3
  • 106
    • 84859045122 scopus 로고    scopus 로고
    • Genome sequence and transcriptome analysis of the radioresistant bacterium Deinococcus gobiensis: insights into the extreme environmental adaptations
    • Yuan M, Chen M, Zhang W, et al. Genome sequence and transcriptome analysis of the radioresistant bacterium Deinococcus gobiensis: insights into the extreme environmental adaptations. PLoS One 2012;7:e34458.
    • (2012) PLoS One , vol.7
    • Yuan, M.1    Chen, M.2    Zhang, W.3
  • 107
    • 84856051566 scopus 로고    scopus 로고
    • Transcriptome sequencing of Salmonella enterica serovar Enteritidis under desiccation and starvation stress in peanut oil
    • Deng X, Li Z, Zhang W. Transcriptome sequencing of Salmonella enterica serovar Enteritidis under desiccation and starvation stress in peanut oil. Food Microbiol 2012;30: 311-5.
    • (2012) Food Microbiol , vol.30 , pp. 311-315
    • Deng, X.1    Li, Z.2    Zhang, W.3
  • 109
    • 80051915419 scopus 로고    scopus 로고
    • RNA-Seq-based monitoring of infection-linked changes in Vibrio cholerae gene expression
    • Mandlik A, Livny J, Robins WP, et al. RNA-Seq-based monitoring of infection-linked changes in Vibrio cholerae gene expression. CellHostMicrobe 2011;10:165-74.
    • (2011) CellHostMicrobe , vol.10 , pp. 165-174
    • Mandlik, A.1    Livny, J.2    Robins, W.P.3
  • 110
    • 70849119931 scopus 로고    scopus 로고
    • Transcriptome complexity in a genome-reduced bacterium
    • Güell M, van Noort V, Yus E, et al. Transcriptome complexity in a genome-reduced bacterium. Science 2009;326: 1268-71.
    • (2009) Science , vol.326 , pp. 1268-1271
    • Güell, M.1    van Noort, V.2    Yus, E.3
  • 111
    • 74949137952 scopus 로고    scopus 로고
    • A single-base resolution map of an archaeal transcriptome
    • Wurtzel O, Sapra R, Chen F, et al. A single-base resolution map of an archaeal transcriptome. Genome Res 2010;20: 133-41.
    • (2010) Genome Res , vol.20 , pp. 133-141
    • Wurtzel, O.1    Sapra, R.2    Chen, F.3
  • 112
    • 80053375441 scopus 로고    scopus 로고
    • Single-nucleotide resolution analysis of the transcriptome structure of Clostridium 452 Forde and O'Toole beijerinckii NCIMB 8052 using RNA-Seq
    • Wang Y, Li X, Mao Y, et al. Single-nucleotide resolution analysis of the transcriptome structure of Clostridium 452 Forde and O'Toole beijerinckii NCIMB 8052 using RNA-Seq. BMC Genomics 2011;12:479.
    • (2011) BMC Genomics , vol.12 , pp. 479
    • Wang, Y.1    Li, X.2    Mao, Y.3
  • 113
    • 84856065621 scopus 로고    scopus 로고
    • RNA-seq based transcriptional map of bovine respiratory disease pathogen ''Histophilus somni 2336''
    • Kumar R, Lawrence ML, Watt J, et al. RNA-seq based transcriptional map of bovine respiratory disease pathogen ''Histophilus somni 2336''. PLoS One 2012;7:e29435.
    • (2012) PLoS One , vol.7
    • Kumar, R.1    Lawrence, M.L.2    Watt, J.3
  • 114
    • 65549099632 scopus 로고    scopus 로고
    • Structure and complexity of a bacterial transcriptome
    • Passalacqua KD, Varadarajan A, Ondov BD, et al. Structure and complexity of a bacterial transcriptome. J Bacteriol 2009;191:3203-11.
    • (2009) J Bacteriol , vol.191 , pp. 3203-3211
    • Passalacqua, K.D.1    Varadarajan, A.2    Ondov, B.D.3
  • 115
    • 68249102779 scopus 로고    scopus 로고
    • A strandspecific RNA-Seq analysis of the transcriptome of the typhoid bacillus Salmonella typhi
    • Perkins TT, Kingsley RA, Fookes MC, et al. A strandspecific RNA-Seq analysis of the transcriptome of the typhoid bacillus Salmonella typhi. PLoS Genet 2009;5: e1000569.
    • (2009) PLoS Genet , vol.5
    • Perkins, T.T.1    Kingsley, R.A.2    Fookes, M.C.3
  • 116
    • 77949425194 scopus 로고    scopus 로고
    • The primary transcriptome of the major human pathogen Helicobacter pylori
    • Sharma CM, Hoffmann S, Darfeuille F, et al. The primary transcriptome of the major human pathogen Helicobacter pylori. Nature 2010;464:250-5.
    • (2010) Nature , vol.464 , pp. 250-255
    • Sharma, C.M.1    Hoffmann, S.2    Darfeuille, F.3
  • 118
    • 84864379915 scopus 로고    scopus 로고
    • Genomewide identification of novel small RNAs in Pseudomonas aeruginosa
    • Gómez-Lozano M, Marvig RL, Molin S, et al. Genomewide identification of novel small RNAs in Pseudomonas aeruginosa. EnvironMicrobiol 2012;14:2006-16.
    • (2012) EnvironMicrobiol , vol.14 , pp. 2006-2016
    • Gómez-Lozano, M.1    Marvig, R.L.2    Molin, S.3
  • 119
    • 80955168065 scopus 로고    scopus 로고
    • Application of RNA-seq to reveal the transcript profile in bacteria
    • Pinto AC, Melo-Barbosa HP, Miyoshi A, et al. Application of RNA-seq to reveal the transcript profile in bacteria. GenetMol Res 2011;10:1707-18.
    • (2011) GenetMol Res , vol.10 , pp. 1707-1718
    • Pinto, A.C.1    Melo-Barbosa, H.P.2    Miyoshi, A.3
  • 120
    • 62649160909 scopus 로고    scopus 로고
    • Mapping the Burkholderia cenocepacia niche response via high-throughput sequencing
    • Yoder-Himes DR, Chain PSG, Zhu Y, et al. Mapping the Burkholderia cenocepacia niche response via high-throughput sequencing. ProcNatl Acad SciUSA 2009;106:3976-81.
    • (2009) ProcNatl Acad SciUSA , vol.106 , pp. 3976-3981
    • Yoder-Himes, D.R.1    Chain, P.S.G.2    Zhu, Y.3
  • 121
    • 72849114230 scopus 로고    scopus 로고
    • Prokaryotic transcriptomics: a new view on regulation, physiology and pathogenicity
    • Sorek R, Cossart P. Prokaryotic transcriptomics: a new view on regulation, physiology and pathogenicity. Nat RevGenet 2010;11:9-16.
    • (2010) Nat RevGenet , vol.11 , pp. 9-16
    • Sorek, R.1    Cossart, P.2
  • 124
    • 78149421813 scopus 로고    scopus 로고
    • Bacterial antisense RNAs: how many are there, and what are they doing?
    • Thomason MK, Storz G. Bacterial antisense RNAs: how many are there, and what are they doing? Annu Rev Genet 2010;44:167-88.
    • (2010) Annu Rev Genet , vol.44 , pp. 167-188
    • Thomason, M.K.1    Storz, G.2
  • 125
    • 67649268395 scopus 로고    scopus 로고
    • The Listeria transcriptional landscape from saprophytism to virulence
    • Toledo-Arana A, Dussurget O, Nikitas G, etal. The Listeria transcriptional landscape from saprophytism to virulence. Nature 2009;459:950-6.
    • (2009) Nature , vol.459 , pp. 950-956
    • Toledo-Arana, A.1    Dussurget, O.2    Nikitas, G.3
  • 126
    • 57349189421 scopus 로고    scopus 로고
    • Small toxic proteins and the antisense RNAs that repress them
    • Fozo EM, Hemm MR, Storz G. Small toxic proteins and the antisense RNAs that repress them. Microbiol Mol Biol Rev 2008;72:579-89
    • (2008) Microbiol Mol Biol Rev , vol.72 , pp. 579-589
    • Fozo, E.M.1    Hemm, M.R.2    Storz, G.3
  • 127
    • 54249135920 scopus 로고    scopus 로고
    • GadX/GadWdependent regulation of the Escherichia coli acid fitness island: transcriptional control at the gadY-gadW divergent promoters and identification of four novel 42 bp GadX/ GadW-specific binding sites
    • Tramonti A, De Canio M, De Biase D. GadX/GadWdependent regulation of the Escherichia coli acid fitness island: transcriptional control at the gadY-gadW divergent promoters and identification of four novel 42 bp GadX/ GadW-specific binding sites. Mol Microbiol 2008;70: 965-82.
    • (2008) Mol Microbiol , vol.70 , pp. 965-982
    • Tramonti, A.1    De Canio, M.2    De Biase, D.3
  • 128
    • 77952128269 scopus 로고    scopus 로고
    • An antisense RNA that governs the expression kinetics of a multifunctional virulence gene
    • Lee E-J, Groisman EA. An antisense RNA that governs the expression kinetics of a multifunctional virulence gene. MolMicrobiol 2010;76:1020-33.
    • (2010) MolMicrobiol , vol.76 , pp. 1020-1033
    • Lee, E.-J.1    Groisman, E.A.2
  • 129
    • 84865205659 scopus 로고    scopus 로고
    • Diversity of antisense and other non-coding RNAs in Archaea revealed by comparative small RNA sequencing in four Pyrobaculum species
    • Bernick DL, Dennis PP, Lui LM, et al. Diversity of antisense and other non-coding RNAs in Archaea revealed by comparative small RNA sequencing in four Pyrobaculum species. FrontMicrobiol 2012;3:231.
    • (2012) FrontMicrobiol , vol.3 , pp. 231
    • Bernick, D.L.1    Dennis, P.P.2    Lui, L.M.3
  • 130
    • 77953548312 scopus 로고    scopus 로고
    • Prokaryotic wholetranscriptome analysis: deep sequencing and tiling arrays
    • Siezen RJ, Wilson G, Todt T. Prokaryotic wholetranscriptome analysis: deep sequencing and tiling arrays. Microb Biotechnol 2010;3:125-30.
    • (2010) Microb Biotechnol , vol.3 , pp. 125-130
    • Siezen, R.J.1    Wilson, G.2    Todt, T.3
  • 131
    • 34347355440 scopus 로고    scopus 로고
    • miRNAs control gene expression in the single-cell alga Chlamydomonas reinhardtii
    • Molnár A, Schwach F, Studholme DJ, et al. miRNAs control gene expression in the single-cell alga Chlamydomonas reinhardtii. Nature 2007;447:1126-9.
    • (2007) Nature , vol.447 , pp. 1126-1129
    • Molnár, A.1    Schwach, F.2    Studholme, D.J.3
  • 132
    • 67650815471 scopus 로고    scopus 로고
    • Prevalence of transcription promoters within archaeal operons and coding sequences
    • Koide T, Reiss DJ, Bare JC, et al. Prevalence of transcription promoters within archaeal operons and coding sequences. Mol Syst Biol 2009;5:285.
    • (2009) Mol Syst Biol , vol.5 , pp. 285
    • Koide, T.1    Reiss, D.J.2    Bare, J.C.3
  • 133
    • 50649089207 scopus 로고    scopus 로고
    • RNA-seq: an assessment of technical reproducibility and comparison with gene expression arrays
    • Marioni JC, Mason CE, Mane SM, et al. RNA-seq: an assessment of technical reproducibility and comparison with gene expression arrays. Genome Res 2008;18: 1509-17.
    • (2008) Genome Res , vol.18 , pp. 1509-1517
    • Marioni, J.C.1    Mason, C.E.2    Mane, S.M.3
  • 134
    • 52649157765 scopus 로고    scopus 로고
    • Substantial biases in ultra-short read data sets from high-throughput DNA sequencing
    • Dohm JC, Lottaz C, Borodina T, et al. Substantial biases in ultra-short read data sets from high-throughput DNA sequencing. Nucleic Acids Res 2008;36:e105.
    • (2008) Nucleic Acids Res , vol.36
    • Dohm, J.C.1    Lottaz, C.2    Borodina, T.3
  • 135
    • 79960270116 scopus 로고    scopus 로고
    • Outbreak of haemolytic uraemic syndrome and bloody diarrhoea due to Escherichia coli O104:H4, south-west France, June 2011
    • pii:19905
    • Gault G, Weill FX, Mariani-Kurkdjian P, etal. Outbreak of haemolytic uraemic syndrome and bloody diarrhoea due to Escherichia coli O104:H4, south-west France, June 2011. Euro Surveill 2011;16:pii:19905.
    • (2011) Euro Surveill , vol.16
    • Gault, G.1    Weill, F.X.2    Mariani-Kurkdjian, P.3
  • 136
    • 79960609901 scopus 로고    scopus 로고
    • Prospective genomic characterization of the german enterohemorrhagic Escherichia coli O104:H4 outbreak by rapid next generation sequencing technology
    • Mellmann A, Harmsen D, Cummings CA, et al. Prospective genomic characterization of the german enterohemorrhagic Escherichia coli O104:H4 outbreak by rapid next generation sequencing technology. PLoSOne 2011;6: e22751.
    • (2011) PLoSOne , vol.6
    • Mellmann, A.1    Harmsen, D.2    Cummings, C.A.3
  • 137
    • 84857411659 scopus 로고    scopus 로고
    • Genomic epidemiology of the Escherichia coli O104:H4 outbreaks in Europe, 2011
    • Grad YH, Lipsitch M, Feldgarden M, et al. Genomic epidemiology of the Escherichia coli O104:H4 outbreaks in Europe, 2011. Proc Natl Acad Sci U S A 2012;109: 3065-70.
    • (2012) Proc Natl Acad Sci U S A , vol.109 , pp. 3065-3070
    • Grad, Y.H.1    Lipsitch, M.2    Feldgarden, M.3
  • 138
    • 84862199752 scopus 로고    scopus 로고
    • Rapid whole-genome sequencing for investigation of a neonatal MRSA outbreak
    • Köser CU, Holden MTG, Ellington MJ, et al. Rapid whole-genome sequencing for investigation of a neonatal MRSA outbreak. NEnglJMed 2012;366:2267-75.
    • (2012) NEnglJMed , vol.366 , pp. 2267-2275
    • Köser, C.U.1    Holden, M.T.G.2    Ellington, M.J.3


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