메뉴 건너뛰기




Volumn 47, Issue 19, 2013, Pages 11131-11138

Design and application of an internal amplification control to improve dehalococcoides mccartyi 16S rRNA gene enumeration by qPCR

Author keywords

[No Author keywords available]

Indexed keywords

COMPETITIVE INHIBITION; CONTAMINATED AQUIFER; DESIGN AND APPLICATION; ENVIRONMENTAL SAMPLE; INTERNAL AMPLIFICATION; QUANTITATIVE REAL TIME PCR; REDUCTIVE DECHLORINATION; SIMULATED GROUND WATER;

EID: 84885109075     PISSN: 0013936X     EISSN: 15205851     Source Type: Journal    
DOI: 10.1021/es4019817     Document Type: Article
Times cited : (22)

References (41)
  • 1
    • 33846027520 scopus 로고    scopus 로고
    • Chlorinated solvents in groundwater of the United States
    • Moran, M. J.; Zogorski, J. S.; Squillace, P. J. Chlorinated solvents in groundwater of the United States Environ. Sci. Technol. 2007, 41 (1) 74-81
    • (2007) Environ. Sci. Technol. , vol.41 , Issue.1 , pp. 74-81
    • Moran, M.J.1    Zogorski, J.S.2    Squillace, P.J.3
  • 2
    • 0031970012 scopus 로고    scopus 로고
    • Dehalobacter restrictus gen. nov. and sp. nov., a strictly anaerobic bacterium that reductively dechlorinates tetra-and trichloroethene in an anaerobic respiration
    • Holliger, C.; Hahn, D.; Harmsen, H.; Ludwig, W.; Schumacher, W.; Tindall, B.; Vazquez, F.; Weiss, N.; Zehnder, A. J. Dehalobacter restrictus gen. nov. and sp. nov., a strictly anaerobic bacterium that reductively dechlorinates tetra-and trichloroethene in an anaerobic respiration Arch. Microbiol. 1998, 169 (4) 313-21
    • (1998) Arch. Microbiol. , vol.169 , Issue.4 , pp. 313-321
    • Holliger, C.1    Hahn, D.2    Harmsen, H.3    Ludwig, W.4    Schumacher, W.5    Tindall, B.6    Vazquez, F.7    Weiss, N.8    Zehnder, A.J.9
  • 3
    • 0141919038 scopus 로고    scopus 로고
    • 16S rRNA gene-based detection of tetrachloroethene-dechlorinating Desulfuromonas and Dehalococcoides species
    • Löffler, F. E.; Sun, Q.; Li, J.; Tiedje, J. M. 16S rRNA gene-based detection of tetrachloroethene-dechlorinating Desulfuromonas and Dehalococcoides species Appl. Environ. Microbiol. 2000, 66 (4) 1369-74
    • (2000) Appl. Environ. Microbiol. , vol.66 , Issue.4 , pp. 1369-1374
    • Löffler, F.E.1    Sun, Q.2    Li, J.3    Tiedje, J.M.4
  • 4
    • 0030732002 scopus 로고    scopus 로고
    • Comparative studies on tetrachloroethene reductive dechlorination mediated by Desulfitobacterium sp. strain PCE-S
    • Miller, E.; Wohlfarth, G.; Diekert, G. Comparative studies on tetrachloroethene reductive dechlorination mediated by Desulfitobacterium sp. strain PCE-S Arch. Microbiol. 1997, 168 (6) 513-9
    • (1997) Arch. Microbiol. , vol.168 , Issue.6 , pp. 513-519
    • Miller, E.1    Wohlfarth, G.2    Diekert, G.3
  • 5
    • 0028073774 scopus 로고
    • Tetrachloroethene metabolism of Dehalospirillum multivorans
    • Neumann, A.; Scholz-Muramatsu, H.; Diekert, G. Tetrachloroethene metabolism of Dehalospirillum multivorans Arch. Microbiol. 1994, 162 (4) 295-301
    • (1994) Arch. Microbiol. , vol.162 , Issue.4 , pp. 295-301
    • Neumann, A.1    Scholz-Muramatsu, H.2    Diekert, G.3
  • 7
    • 0037317620 scopus 로고    scopus 로고
    • Complete detoxification of vinyl chloride by an anaerobic enrichment culture and identification of the reductively dechlorinating population as a Dehalococcoides species
    • He, J.; Ritalahti, K. M.; Aiello, M. R.; Löffler, F. E. Complete detoxification of vinyl chloride by an anaerobic enrichment culture and identification of the reductively dechlorinating population as a Dehalococcoides species Appl. Environ. Microbiol. 2003, 69 (2) 996-1003
    • (2003) Appl. Environ. Microbiol. , vol.69 , Issue.2 , pp. 996-1003
    • He, J.1    Ritalahti, K.M.2    Aiello, M.R.3    Löffler, F.E.4
  • 8
    • 84874041126 scopus 로고    scopus 로고
    • Dehalococcoides mccartyi gen. nov., sp. nov., obligate organohalide-respiring anaerobic bacteria, relevant to halogen cycling and bioremediation, belong to a novel bacterial class, Dehalococcoidetes classis nov., within the phylum Chloroflexi
    • Löffler, F. E.; Yan, J.; Ritalahti, K. M.; Adrian, L.; Edwards, E. A.; Konstantinidis, K. T.; Müller, J. A.; Fullerton, H.; Zinder, S. H.; Spormann, A. M. Dehalococcoides mccartyi gen. nov., sp. nov., obligate organohalide-respiring anaerobic bacteria, relevant to halogen cycling and bioremediation, belong to a novel bacterial class, Dehalococcoidetes classis nov., within the phylum Chloroflexi Int. J. Syst. Evol. Microbiol. 2013, 63, 625-635
    • (2013) Int. J. Syst. Evol. Microbiol. , vol.63 , pp. 625-635
    • Löffler, F.E.1    Yan, J.2    Ritalahti, K.M.3    Adrian, L.4    Edwards, E.A.5    Konstantinidis, K.T.6    Müller, J.A.7    Fullerton, H.8    Zinder, S.H.9    Spormann, A.M.10
  • 9
    • 0344622120 scopus 로고    scopus 로고
    • Isolation of a bacterium that reductively dechlorinates tetrachloroethene to ethene
    • Maymó-Gatell, X.; Chien, Y.; Gossett, J. M.; Zinder, S. H. Isolation of a bacterium that reductively dechlorinates tetrachloroethene to ethene Science 1997, 276 (5318) 1568-71
    • (1997) Science , vol.276 , Issue.5318 , pp. 1568-1571
    • Maymó-Gatell, X.1    Chien, Y.2    Gossett, J.M.3    Zinder, S.H.4
  • 10
    • 0037315711 scopus 로고    scopus 로고
    • Growth of a Dehalococcoides -like microorganism on vinyl chloride and cis-dichloroethene as electron acceptors as determined by competitive PCR
    • Cupples, A. M.; Spormann, A. M.; McCarty, P. L. Growth of a Dehalococcoides -like microorganism on vinyl chloride and cis-dichloroethene as electron acceptors as determined by competitive PCR Appl. Environ. Microbiol. 2003, 69 (2) 953-9
    • (2003) Appl. Environ. Microbiol. , vol.69 , Issue.2 , pp. 953-959
    • Cupples, A.M.1    Spormann, A.M.2    McCarty, P.L.3
  • 11
    • 33644954959 scopus 로고    scopus 로고
    • Quantitative PCR confirms purity of strain GT, a novel trichloroethene-to-ethene-respiring Dehalococcoides isolate
    • Sung, Y.; Ritalahti, K. M.; Apkarian, R. P.; Löffler, F. E. Quantitative PCR confirms purity of strain GT, a novel trichloroethene-to- ethene-respiring Dehalococcoides isolate Appl. Environ. Microbiol. 2006, 72 (3) 1980-7
    • (2006) Appl. Environ. Microbiol. , vol.72 , Issue.3 , pp. 1980-1987
    • Sung, Y.1    Ritalahti, K.M.2    Apkarian, R.P.3    Löffler, F.E.4
  • 16
    • 1642504919 scopus 로고    scopus 로고
    • Molecular and diagnostic clinical virology in real time
    • Niesters, H. G. Molecular and diagnostic clinical virology in real time Clin. Microbiol. Infect. 2004, 10 (1) 5-11
    • (2004) Clin. Microbiol. Infect. , vol.10 , Issue.1 , pp. 5-11
    • Niesters, H.G.1
  • 17
    • 37449031396 scopus 로고    scopus 로고
    • Real-time PCR quantification of Dehalococcoides populations: Methods and applications
    • Cupples, A. M. Real-time PCR quantification of Dehalococcoides populations: methods and applications J. Microbiol. Methods 2008, 72 (1) 1-11
    • (2008) J. Microbiol. Methods , vol.72 , Issue.1 , pp. 1-11
    • Cupples, A.M.1
  • 18
    • 43049130733 scopus 로고    scopus 로고
    • Quantifying genes and transcripts to assess the in situ physiology of ″ Dehalococcoides ″ spp. in a trichloroethene-contaminated groundwater site
    • Lee, P. K.; Macbeth, T. W.; Sorenson, K. S., Jr.; Deeb, R. A.; Alvarez-Cohen, L. Quantifying genes and transcripts to assess the in situ physiology of ″ Dehalococcoides ″ spp. in a trichloroethene- contaminated groundwater site Appl. Environ. Microbiol. 2008, 74 (9) 2728-39
    • (2008) Appl. Environ. Microbiol. , vol.74 , Issue.9 , pp. 2728-2739
    • Lee, P.K.1    Macbeth, T.W.2    Sorenson, Jr.K.S.3    Deeb, R.A.4    Alvarez-Cohen, L.5
  • 19
    • 33646099161 scopus 로고    scopus 로고
    • Quantitative PCR targeting 16S rRNA and reductive dehalogenase genes simultaneously monitors multiple Dehalococcoides strains
    • Ritalahti, K. M.; Amos, B. K.; Sung, Y.; Wu, Q.; Koenigsberg, S. S.; Löffler, F. E. Quantitative PCR targeting 16S rRNA and reductive dehalogenase genes simultaneously monitors multiple Dehalococcoides strains Appl. Environ. Microbiol. 2006, 72 (4) 2765-74
    • (2006) Appl. Environ. Microbiol. , vol.72 , Issue.4 , pp. 2765-2774
    • Ritalahti, K.M.1    Amos, B.K.2    Sung, Y.3    Wu, Q.4    Koenigsberg, S.S.5    Löffler, F.E.6
  • 21
    • 0030048084 scopus 로고    scopus 로고
    • Relief of amplification inhibition in PCR with bovine serum albumin or T4 gene 32 protein
    • Kreader, C. A. Relief of amplification inhibition in PCR with bovine serum albumin or T4 gene 32 protein Appl. Environ. Microbiol. 1996, 62 (3) 1102-6
    • (1996) Appl. Environ. Microbiol. , vol.62 , Issue.3 , pp. 1102-1106
    • Kreader, C.A.1
  • 22
    • 0026708461 scopus 로고
    • Rapid method for separation of bacterial DNA from humic substances in sediments for polymerase chain reaction
    • Tsai, Y. L.; Olson, B. H. Rapid method for separation of bacterial DNA from humic substances in sediments for polymerase chain reaction Appl. Environ. Microbiol. 1992, 58 (7) 2292-5
    • (1992) Appl. Environ. Microbiol. , vol.58 , Issue.7 , pp. 2292-2295
    • Tsai, Y.L.1    Olson, B.H.2
  • 23
    • 0026597527 scopus 로고
    • Detection of low numbers of bacterial cells in soils and sediments by polymerase chain reaction
    • Tsai, Y. L.; Olson, B. H. Detection of low numbers of bacterial cells in soils and sediments by polymerase chain reaction Appl. Environ. Microbiol. 1992, 58 (2) 754-7
    • (1992) Appl. Environ. Microbiol. , vol.58 , Issue.2 , pp. 754-757
    • Tsai, Y.L.1    Olson, B.H.2
  • 26
    • 22144451860 scopus 로고    scopus 로고
    • An internal reference technique for accurately quantifying specific mRNAs by real-time PCR with application to the tceA reductive dehalogenase gene
    • Johnson, D. R.; Lee, P. K.; Holmes, V. F.; Alvarez-Cohen, L. An internal reference technique for accurately quantifying specific mRNAs by real-time PCR with application to the tceA reductive dehalogenase gene Appl. Environ. Microbiol. 2005, 71 (7) 3866-71
    • (2005) Appl. Environ. Microbiol. , vol.71 , Issue.7 , pp. 3866-3871
    • Johnson, D.R.1    Lee, P.K.2    Holmes, V.F.3    Alvarez-Cohen, L.4
  • 27
    • 36648999604 scopus 로고    scopus 로고
    • Development of an internal control for evaluation and standardization of a quantitative PCR assay for detection of Helicobacter pylori in drinking water
    • Sen, K.; Schable, N. A.; Lye, D. J. Development of an internal control for evaluation and standardization of a quantitative PCR assay for detection of Helicobacter pylori in drinking water Appl. Environ. Microbiol. 2007, 73 (22) 7380-7
    • (2007) Appl. Environ. Microbiol. , vol.73 , Issue.22 , pp. 7380-7387
    • Sen, K.1    Schable, N.A.2    Lye, D.J.3
  • 28
    • 33845986357 scopus 로고    scopus 로고
    • Development and evaluation of a Taqman duplex real-time PCR quantification method for reliable enumeration of Legionella pneumophila in water samples
    • Behets, J.; Declerck, P.; Delaedt, Y.; Creemers, B.; Ollevier, F. Development and evaluation of a Taqman duplex real-time PCR quantification method for reliable enumeration of Legionella pneumophila in water samples J. Microbiol. Methods 2007, 68 (1) 137-44
    • (2007) J. Microbiol. Methods , vol.68 , Issue.1 , pp. 137-144
    • Behets, J.1    Declerck, P.2    Delaedt, Y.3    Creemers, B.4    Ollevier, F.5
  • 29
    • 84861199729 scopus 로고    scopus 로고
    • Sensitive detection of sample interference in environmental qPCR
    • Green, H. C.; Field, K. G. Sensitive detection of sample interference in environmental qPCR Water Res. 2012, 46 (10) 3251-60
    • (2012) Water Res. , vol.46 , Issue.10 , pp. 3251-3260
    • Green, H.C.1    Field, K.G.2
  • 30
    • 0038264087 scopus 로고    scopus 로고
    • Detoxification of vinyl chloride to ethene coupled to growth of an anaerobic bacterium
    • He, J.; Ritalahti, K. M.; Yang, K. L.; Koenigsberg, S. S.; Löffler, F. E. Detoxification of vinyl chloride to ethene coupled to growth of an anaerobic bacterium Nature 2003, 424 (6944) 62-5
    • (2003) Nature , vol.424 , Issue.6944 , pp. 62-65
    • He, J.1    Ritalahti, K.M.2    Yang, K.L.3    Koenigsberg, S.S.4    Löffler, F.E.5
  • 31
    • 50449147866 scopus 로고
    • Transduction of linked genetic characters of the host by bacteriophage P1
    • Lennox, E. S. Transduction of linked genetic characters of the host by bacteriophage P1 Virology 1955, 1 (2) 190-206
    • (1955) Virology , vol.1 , Issue.2 , pp. 190-206
    • Lennox, E.S.1
  • 32
    • 0030818634 scopus 로고    scopus 로고
    • Efficient priming of PCR with short oligonucleotides conjugated to a minor groove binder
    • Afonina, I.; Zivarts, M.; Kutyavin, I.; Lukhtanov, E.; Gamper, H.; Meyer, R. B. Efficient priming of PCR with short oligonucleotides conjugated to a minor groove binder Nucleic Acids Res. 1997, 25 (13) 2657-60
    • (1997) Nucleic Acids Res. , vol.25 , Issue.13 , pp. 2657-2660
    • Afonina, I.1    Zivarts, M.2    Kutyavin, I.3    Lukhtanov, E.4    Gamper, H.5    Meyer, R.B.6
  • 34
    • 33746745365 scopus 로고    scopus 로고
    • Absolute and relative QPCR quantification of plasmid copy number in Escherichia coli
    • Lee, C.; Kim, J.; Shin, S. G.; Hwang, S. Absolute and relative QPCR quantification of plasmid copy number in Escherichia coli J. Biotechnol. 2006, 123 (3) 273-80
    • (2006) J. Biotechnol. , vol.123 , Issue.3 , pp. 273-280
    • Lee, C.1    Kim, J.2    Shin, S.G.3    Hwang, S.4
  • 35
    • 77954253938 scopus 로고    scopus 로고
    • Comparing on-site to off-site biomass collection for Dehalococcoides biomarker gene quantification to predict in situ chlorinated ethene detoxification potential
    • Ritalahti, K. M.; Hatt, J. K.; Lugmayr, V.; Henn, K.; Petrovskis, E. A.; Ogles, D. M.; Davis, G. A.; Yeager, C. M.; Lebrón, C. A.; Löffler, F. E. Comparing on-site to off-site biomass collection for Dehalococcoides biomarker gene quantification to predict in situ chlorinated ethene detoxification potential Environ. Sci. Technol. 2010, 44 (13) 5127-33
    • (2010) Environ. Sci. Technol. , vol.44 , Issue.13 , pp. 5127-5133
    • Ritalahti, K.M.1    Hatt, J.K.2    Lugmayr, V.3    Henn, K.4    Petrovskis, E.A.5    Ogles, D.M.6    Davis, G.A.7    Yeager, C.M.8    Lebrón, C.A.9    Löffler, F.E.10
  • 37
    • 66249118677 scopus 로고    scopus 로고
    • Diversity and distribution of Anaeromyxobacter strains in a uranium-contaminated subsurface environment with a nonuniform groundwater flow
    • Thomas, S. H.; Padilla-Crespo, E.; Jardine, P. M.; Sanford, R. A.; Löffler, F. E. Diversity and distribution of Anaeromyxobacter strains in a uranium-contaminated subsurface environment with a nonuniform groundwater flow Appl. Environ. Microbiol. 2009, 75 (11) 3679-87
    • (2009) Appl. Environ. Microbiol. , vol.75 , Issue.11 , pp. 3679-3687
    • Thomas, S.H.1    Padilla-Crespo, E.2    Jardine, P.M.3    Sanford, R.A.4    Löffler, F.E.5
  • 38
    • 0031974426 scopus 로고    scopus 로고
    • An internal control for routine diagnostic PCR: Design, properties, and effect on clinical performance
    • Rosenstraus, M.; Wang, Z.; Chang, S. Y.; DeBonville, D.; Spadoro, J. P. An internal control for routine diagnostic PCR: design, properties, and effect on clinical performance J. Clin. Microbiol. 1998, 36 (1) 191-7
    • (1998) J. Clin. Microbiol. , vol.36 , Issue.1 , pp. 191-197
    • Rosenstraus, M.1    Wang, Z.2    Chang, S.Y.3    Debonville, D.4    Spadoro, J.P.5
  • 39
    • 33644776725 scopus 로고    scopus 로고
    • Applications of real-time polymerase chain reaction for quantification of microorganisms in environmental samples
    • Zhang, T.; Fang, H. H. Applications of real-time polymerase chain reaction for quantification of microorganisms in environmental samples Appl. Microbiol. Biotechnol. 2006, 70 (3) 281-9
    • (2006) Appl. Microbiol. Biotechnol. , vol.70 , Issue.3 , pp. 281-289
    • Zhang, T.1    Fang, H.H.2
  • 40
    • 0033754285 scopus 로고    scopus 로고
    • PCR bias in ecological analysis: A case study for quantitative Taq nuclease assays in analyses of microbial communities
    • Becker, S.; Böger, P.; Oehlmann, R.; Ernst, A. PCR bias in ecological analysis: a case study for quantitative Taq nuclease assays in analyses of microbial communities Appl. Environ. Microbiol. 2000, 66 (11) 4945-53
    • (2000) Appl. Environ. Microbiol. , vol.66 , Issue.11 , pp. 4945-4953
    • Becker, S.1    Böger, P.2    Oehlmann, R.3    Ernst, A.4
  • 41
    • 33747764493 scopus 로고    scopus 로고
    • Relationship between Dehalococcoides DNA in ground water and rates of reductive dechlorination at field scale
    • Lu, X.; Wilson, J. T.; Kampbell, D. H. Relationship between Dehalococcoides DNA in ground water and rates of reductive dechlorination at field scale Water Res. 2006, 40 (16) 3131-40
    • (2006) Water Res. , vol.40 , Issue.16 , pp. 3131-3140
    • Lu, X.1    Wilson, J.T.2    Kampbell, D.H.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.