메뉴 건너뛰기




Volumn 7, Issue 8, 2012, Pages

Exploring Bacterial Diversity in Hospital Environments by GS-FLX Titanium Pyrosequencing

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA; BACTERIAL RNA; RNA 16S; TITANIUM;

EID: 84865596091     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0044105     Document Type: Article
Times cited : (48)

References (45)
  • 1
    • 0023184331 scopus 로고
    • Bacterial evolution
    • Woese CR, (1987) Bacterial evolution. Microbiol Rev 51: 221-271.
    • (1987) Microbiol Rev , vol.51 , pp. 221-271
    • Woese, C.R.1
  • 2
    • 0001271789 scopus 로고
    • Phylogenetic structure of the prokaryotic domain: the primary kingdoms
    • Woese CR, Fox GE, (1977) Phylogenetic structure of the prokaryotic domain: the primary kingdoms. Proc Natl Acad Sci USA 74: 5088-5090.
    • (1977) Proc Natl Acad Sci USA , vol.74 , pp. 5088-5090
    • Woese, C.R.1    Fox, G.E.2
  • 3
    • 0025047647 scopus 로고
    • Architecture of ribosomal RNA: constraints on the sequence of "tetra-loops"
    • Woese CR, Winker S, Gutell RR, (1990) Architecture of ribosomal RNA: constraints on the sequence of "tetra-loops". Proc Natl Acad Sci USA 87: 8467-8471.
    • (1990) Proc Natl Acad Sci USA , vol.87 , pp. 8467-8471
    • Woese, C.R.1    Winker, S.2    Gutell, R.R.3
  • 4
    • 66349083859 scopus 로고    scopus 로고
    • Topographical and temporal diversity of the human skin microbiome
    • Grice EA, Kong HH, Conlan S, Deming CB, Davis J, et al. (2009) Topographical and temporal diversity of the human skin microbiome. Science 324: 1190-1192.
    • (2009) Science , vol.324 , pp. 1190-1192
    • Grice, E.A.1    Kong, H.H.2    Conlan, S.3    Deming, C.B.4    Davis, J.5
  • 5
    • 58349108870 scopus 로고    scopus 로고
    • Use of pyrosequencing and DNA barcodes to monitor variations in Firmicutes and Bacteroidetes communities in the gut microbiota of obese humans
    • Armougom F, Raoult D, (2008) Use of pyrosequencing and DNA barcodes to monitor variations in Firmicutes and Bacteroidetes communities in the gut microbiota of obese humans. BMC Genomics 9: 576.
    • (2008) BMC Genomics , vol.9 , pp. 576
    • Armougom, F.1    Raoult, D.2
  • 6
    • 79951926011 scopus 로고    scopus 로고
    • Pyrosequencing-based assessment of bacterial community structure along different management types in German forest and grassland soils
    • Nacke H, Thürmer A, Wollherr A, Will C, Hodac L, et al. (2011) Pyrosequencing-based assessment of bacterial community structure along different management types in German forest and grassland soils. PLoS One 6: e17000.
    • (2011) PLoS One , vol.6
    • Nacke, H.1    Thürmer, A.2    Wollherr, A.3    Will, C.4    Hodac, L.5
  • 7
  • 9
    • 16344395488 scopus 로고    scopus 로고
    • Molecular identification of potential pathogens in water and air of a hospital therapy pool. Proc Natl Acad Sci USA
    • Angenent LT, Kelley ST, St Amand A, Pace NR, Hernandez MT, (2005) Molecular identification of potential pathogens in water and air of a hospital therapy pool. Proc Natl Acad Sci USA. 102: 4860-4865.
    • (2005) , vol.102 , pp. 4860-4865
    • Angenent, L.T.1    Kelley, S.T.2    St Amand, A.3    Pace, N.R.4    Hernandez, M.T.5
  • 11
    • 52449114817 scopus 로고    scopus 로고
    • Detection of large numbers of novel sequences in the metatranscriptomes of complex marine microbial communities
    • Gilbert JA, Field D, Huang Y, Edwards R, Li W, et al. (2008) Detection of large numbers of novel sequences in the metatranscriptomes of complex marine microbial communities. PLoS One 3: e3042.
    • (2008) PLoS One , vol.3
    • Gilbert, J.A.1    Field, D.2    Huang, Y.3    Edwards, R.4    Li, W.5
  • 12
    • 84855271107 scopus 로고    scopus 로고
    • Comparative microbial diversity analyses of modern marine thrombolitic mats by barcoded pyrosequencing
    • Mobberley JM, Ortega MC, Foster JS, (2012) Comparative microbial diversity analyses of modern marine thrombolitic mats by barcoded pyrosequencing. Environ Microbiol 14: 82-100.
    • (2012) Environ Microbiol , vol.14 , pp. 82-100
    • Mobberley, J.M.1    Ortega, M.C.2    Foster, J.S.3
  • 13
    • 30944449613 scopus 로고    scopus 로고
    • A molecular revolution in the study of intestinal microflora
    • Furrie E, (2006) A molecular revolution in the study of intestinal microflora. Gut 55: 141-143.
    • (2006) Gut , vol.55 , pp. 141-143
    • Furrie, E.1
  • 14
  • 15
    • 54349126970 scopus 로고    scopus 로고
    • High-throughput diversity and functionality analysis of the gastrointestinal tract microbiota
    • Zoetendal EG, Rajilic-Stojanovic M, de Vos WM, (2008) High-throughput diversity and functionality analysis of the gastrointestinal tract microbiota. Gut 57: 1605-1615.
    • (2008) Gut , vol.57 , pp. 1605-1615
    • Zoetendal, E.G.1    Rajilic-Stojanovic, M.2    de Vos, W.M.3
  • 17
    • 70449530747 scopus 로고    scopus 로고
    • Metagenomic study of the oral microbiota by Illumina high-throughput sequencing
    • Lazarevic V, Whiteson K, Huse S, Hernandez D, Farinelli L, et al. (2009) Metagenomic study of the oral microbiota by Illumina high-throughput sequencing. J Microbiol Methods 79: 266-271.
    • (2009) J Microbiol Methods , vol.79 , pp. 266-271
    • Lazarevic, V.1    Whiteson, K.2    Huse, S.3    Hernandez, D.4    Farinelli, L.5
  • 18
    • 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
  • 19
    • 77957351250 scopus 로고    scopus 로고
    • Metagenomics of the intestinal microbiota: potential applications
    • MetaHIT consortium
    • Dusko Ehrlich S, MetaHIT consortium, (2010) Metagenomics of the intestinal microbiota: potential applications. Gastroenterol Clin Biol 34 (Suppl 1):: S23-8.
    • (2010) Gastroenterol Clin Biol , vol.34 , Issue.SUPPL. 1
    • Dusko Ehrlich, S.1
  • 20
    • 77952298917 scopus 로고    scopus 로고
    • Hospital-acquired infections due to gram-negative bacteria
    • Peleg AY, Hooper DC, (2010) Hospital-acquired infections due to gram-negative bacteria. N Engl J Med 362: 1804-1813.
    • (2010) N Engl J Med , vol.362 , pp. 1804-1813
    • Peleg, A.Y.1    Hooper, D.C.2
  • 21
    • 0032998188 scopus 로고    scopus 로고
    • Nosocomial Infections in the ICU. The growing importance of antibiotic-resistant pathogens
    • Weber DJ, Raasch R, Rutala WA, (1999) Nosocomial Infections in the ICU. The growing importance of antibiotic-resistant pathogens. Chest 115: 34S-41S.
    • (1999) Chest , vol.115
    • Weber, D.J.1    Raasch, R.2    Rutala, W.A.3
  • 22
    • 33748681343 scopus 로고    scopus 로고
    • How long do nosocomial pathogens persist on inanimate surfaces? A systematic review
    • Kramer A, Schwebke I, Kampf G, (2006) How long do nosocomial pathogens persist on inanimate surfaces? A systematic review. BMC Infect Dis 6: 130-138.
    • (2006) BMC Infect Dis , vol.6 , pp. 130-138
    • Kramer, A.1    Schwebke, I.2    Kampf, G.3
  • 23
    • 10344227692 scopus 로고    scopus 로고
    • Metagenomics: application of genomics to uncultured microorganisms
    • Handelsman J, (2004) Metagenomics: application of genomics to uncultured microorganisms. Microbiol Mol Biol Rev 68: 669-685.
    • (2004) Microbiol Mol Biol Rev , vol.68 , pp. 669-685
    • Handelsman, J.1
  • 24
    • 80051566879 scopus 로고    scopus 로고
    • High-throughput sequencing of core STR loci for forensic genetic investigations using the Roche Genome Sequencer FLX platform
    • Fordyce SL, Ávila-Arcos MC, Rockenbauer E, Børsting C, Frank-Hansen R, et al. (2011) High-throughput sequencing of core STR loci for forensic genetic investigations using the Roche Genome Sequencer FLX platform. BioTechniques 51: 127-133.
    • (2011) BioTechniques , vol.51 , pp. 127-133
    • Fordyce, S.L.1    Ávila-Arcos, M.C.2    Rockenbauer, E.3    Børsting, C.4    Frank-Hansen, R.5
  • 25
    • 79961183224 scopus 로고    scopus 로고
    • Methagenomic analysis of bacterial infections by means of high-throughput DNA sequencing
    • Nakamura S, Nakaya T, Iida T, (2011) Methagenomic analysis of bacterial infections by means of high-throughput DNA sequencing. Exp Biol Med 236: 968-971.
    • (2011) Exp Biol Med , vol.236 , pp. 968-971
    • Nakamura, S.1    Nakaya, T.2    Iida, T.3
  • 26
    • 34147182303 scopus 로고    scopus 로고
    • A detailed analysis of 16S ribosomal RNA gene segments for the diagnosis of pathogenic bacteria
    • Chakravortty S, Helb D, Burday M, Connell N, Alland D, (2007) A detailed analysis of 16S ribosomal RNA gene segments for the diagnosis of pathogenic bacteria. J Microbiol methods 69: 330-339.
    • (2007) J Microbiol Methods , vol.69 , pp. 330-339
    • Chakravortty, S.1    Helb, D.2    Burday, M.3    Connell, N.4    Alland, D.5
  • 27
    • 0242384034 scopus 로고    scopus 로고
    • Review and reanalysis of domain-specific 16S primers
    • Baker GC, Smith JJ, Cowan DA, (2003) Review and reanalysis of domain-specific 16S primers. J Microbiol Methods 55: 541-555.
    • (2003) J Microbiol Methods , vol.55 , pp. 541-555
    • Baker, G.C.1    Smith, J.J.2    Cowan, D.A.3
  • 28
    • 79959677258 scopus 로고    scopus 로고
    • Target region selection is a critical determinant of community fingerprints generated by 16S pyrosequencing
    • Kumar PS, Brooker MR, Dowd SE, Camerlengo T, (2011) Target region selection is a critical determinant of community fingerprints generated by 16S pyrosequencing. Plos One 6: e20956.
    • (2011) Plos One , vol.6
    • Kumar, P.S.1    Brooker, M.R.2    Dowd, S.E.3    Camerlengo, T.4
  • 29
    • 72949091232 scopus 로고    scopus 로고
    • Bacterial community variation in human body habitats across space and time
    • Costello EK, Lauber CL, Hamady M, Fierer N, Gordon JI, et al. (2009) Bacterial community variation in human body habitats across space and time. Science 326: 1694-1697.
    • (2009) Science , vol.326 , pp. 1694-1697
    • Costello, E.K.1    Lauber, C.L.2    Hamady, M.3    Fierer, N.4    Gordon, J.I.5
  • 30
    • 74949134895 scopus 로고    scopus 로고
    • Defining the healthy "core microbiome" of oral microbiol communities
    • Zaura E, Keijser BJF, Huse SM, Crielaard W, (2009) Defining the healthy "core microbiome" of oral microbiol communities. BMC Microbiol 9: 259-270.
    • (2009) BMC Microbiol , vol.9 , pp. 259-270
    • Zaura, E.1    Keijser, B.J.F.2    Huse, S.M.3    Crielaard, W.4
  • 31
    • 80052262626 scopus 로고    scopus 로고
    • Increased mortality associated with meticillin-resistant Staphylococcus aureus (MRSA) infection in the Intensive Care Unit: results from the EPIC II study
    • Hanberger H, Walther S, Leone M, Barie PS, Rello J, et al. (2011) Increased mortality associated with meticillin-resistant Staphylococcus aureus (MRSA) infection in the Intensive Care Unit: results from the EPIC II study. Int J Antimicrob Agents 38: 331-335.
    • (2011) Int J Antimicrob Agents , vol.38 , pp. 331-335
    • Hanberger, H.1    Walther, S.2    Leone, M.3    Barie, P.S.4    Rello, J.5
  • 33
    • 77956300524 scopus 로고    scopus 로고
    • The genes coding for the conversion of carbazole to catechol are flanked by IS6100 elements in Sphingomonas sp. strain XLDN2-5
    • Gai Z, Wang X, Liu X, Tai C, Tang H, et al. (2010) The genes coding for the conversion of carbazole to catechol are flanked by IS6100 elements in Sphingomonas sp. strain XLDN2-5. PLoS One 5: e10018.
    • (2010) PLoS One , vol.5
    • Gai, Z.1    Wang, X.2    Liu, X.3    Tai, C.4    Tang, H.5
  • 34
    • 70349650320 scopus 로고    scopus 로고
    • Association between contaminated faucets and colonization or infection by nonfermenting gram-negative bacteria in intensive care units in Taiwan
    • Wang JL, Chen ML, Lin YE, Chang SC, Chen YC, (2009) Association between contaminated faucets and colonization or infection by nonfermenting gram-negative bacteria in intensive care units in Taiwan. J Clin Microbiol 47: 3226-3230.
    • (2009) J Clin Microbiol , vol.47 , pp. 3226-3230
    • Wang, J.L.1    Chen, M.L.2    Lin, Y.E.3    Chang, S.C.4    Chen, Y.C.5
  • 36
    • 79959194735 scopus 로고    scopus 로고
    • Type distribution of serogroup 6 Streptococcus pneumoniae and molecular epidemiology of newly identified serotypes 6C and 6D in China
    • Yao KH, Liu ZJ, Yu JG, Yu SJ, Yuan L, et al. (2011) Type distribution of serogroup 6 Streptococcus pneumoniae and molecular epidemiology of newly identified serotypes 6C and 6D in China. Diagn Microbiol Infect Dis 70: 291-298.
    • (2011) Diagn Microbiol Infect Dis , vol.70 , pp. 291-298
    • Yao, K.H.1    Liu, Z.J.2    Yu, J.G.3    Yu, S.J.4    Yuan, L.5
  • 37
    • 80052896564 scopus 로고    scopus 로고
    • Antibiotic and antiseptic resistance genes are linked on a novel mobile genetic element: Tn6087
    • Ciric L, Mullany P, Roberts AP, (2011) Antibiotic and antiseptic resistance genes are linked on a novel mobile genetic element: Tn6087. J Antimicrob Chemother 66: 2235-2239.
    • (2011) J Antimicrob Chemother , vol.66 , pp. 2235-2239
    • Ciric, L.1    Mullany, P.2    Roberts, A.P.3
  • 38
    • 0034926705 scopus 로고    scopus 로고
    • Corynebacterium testudinoris sp. nov., from a tortoise, and Corynebacterium felinum sp. nov., from a Scottish wild cat
    • Collins MD, Hoyles L, Hutson RA, Foster G, Falsen E, (2001) Corynebacterium testudinoris sp. nov., from a tortoise, and Corynebacterium felinum sp. nov., from a Scottish wild cat. Int J Syst Evol Microbiol 51: 1349-1352.
    • (2001) Int J Syst Evol Microbiol , vol.51 , pp. 1349-1352
    • Collins, M.D.1    Hoyles, L.2    Hutson, R.A.3    Foster, G.4    Falsen, E.5
  • 39
    • 72949107142 scopus 로고    scopus 로고
    • Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities
    • Schloss PD, Westcott SL, Ryabin T, Hall JR, Hartmann M, et al. (2009) Introducing mothur: Open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl Environ Microbiol 75: 7537-7541.
    • (2009) Appl Environ Microbiol , vol.75 , pp. 7537-7541
    • Schloss, P.D.1    Westcott, S.L.2    Ryabin, T.3    Hall, J.R.4    Hartmann, M.5
  • 40
    • 83355173006 scopus 로고    scopus 로고
    • Reducing the effects of PCR amplification and sequencing artifacts on 16S rRNA-based studies
    • Schloss PD, Gevers D, Westcott SL, (2011) Reducing the effects of PCR amplification and sequencing artifacts on 16S rRNA-based studies. PLoS One 6: e27310.
    • (2011) PLoS One , vol.6
    • Schloss, P.D.1    Gevers, D.2    Westcott, S.L.3
  • 41
    • 33746061683 scopus 로고    scopus 로고
    • Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB
    • DeSantis TZ, Hugenholtz P, Larsen N, Rojas M, Brodie EL, et al. (2006) Greengenes, a chimera-checked 16S rRNA gene database and workbench compatible with ARB. Appl Environ Microbiol 72: 5069-5072.
    • (2006) Appl Environ Microbiol , vol.72 , pp. 5069-5072
    • DeSantis, T.Z.1    Hugenholtz, P.2    Larsen, N.3    Rojas, M.4    Brodie, E.L.5
  • 42
    • 77955251092 scopus 로고    scopus 로고
    • Ironing out the wrinkles in the rare biosphere through improved OTU clustering
    • Huse SM, Welch DM, Morrison HG, Sogin ML, (2010) Ironing out the wrinkles in the rare biosphere through improved OTU clustering. Environ Microbiol 12: 1889-1898.
    • (2010) Environ Microbiol , vol.12 , pp. 1889-1898
    • Huse, S.M.1    Welch, D.M.2    Morrison, H.G.3    Sogin, M.L.4
  • 43
    • 37549027613 scopus 로고    scopus 로고
    • SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB
    • Pruesse E, Quast C, Knittel K, Fuchs BM, Ludwig W, et al. (2007) SILVA: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB. Nucleic Acids Res 35: 7188-7196.
    • (2007) Nucleic Acids Res , vol.35 , pp. 7188-7196
    • Pruesse, E.1    Quast, C.2    Knittel, K.3    Fuchs, B.M.4    Ludwig, W.5
  • 45
    • 58149200948 scopus 로고    scopus 로고
    • The Ribosomal Database Project: improved alignments and new tools for rRNA analysis
    • Cole JR, Wang Q, Cardenas E, Fish J, Chai B, et al. (2009) The Ribosomal Database Project: improved alignments and new tools for rRNA analysis. Nucleic Acids Res 37: D141-D145.
    • (2009) Nucleic Acids Res , vol.37
    • Cole, J.R.1    Wang, Q.2    Cardenas, E.3    Fish, J.4    Chai, B.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.