메뉴 건너뛰기




Volumn 74, Issue 3, 2008, Pages 889-893

Evaluations of different hypervariable regions of archaeal 16S rRNA genes in profiling of methanogens by Archaea-specific PCR and denaturing gradient gel electrophoresis

Author keywords

[No Author keywords available]

Indexed keywords

ANIMALS; ELECTROPHORESIS; METHANOGENS;

EID: 38949203871     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/AEM.00684-07     Document Type: Article
Times cited : (140)

References (42)
  • 3
    • 33646559046 scopus 로고    scopus 로고
    • Applications of the anaerobic digestion process
    • B. K. Ahring ed, Springer, Berlin, Germany
    • Angelidaki, I., L. Ellegaard, and B. K. Ahring. 2002. Applications of the anaerobic digestion process, p. 1-33. In B. K. Ahring (ed.), Biomethanation II. Springer, Berlin, Germany.
    • (2002) Biomethanation II , pp. 1-33
    • Angelidaki, I.1    Ellegaard, L.2    Ahring, B.K.3
  • 4
    • 0034431685 scopus 로고    scopus 로고
    • Degradation of organic contaminants found in organic waste
    • Angelidaki, I., A. S. Mogensen, and B. K. Ahring. 2000. Degradation of organic contaminants found in organic waste. Biodegradation 11:377-383.
    • (2000) Biodegradation , vol.11 , pp. 377-383
    • Angelidaki, I.1    Mogensen, A.S.2    Ahring, B.K.3
  • 5
    • 0242384034 scopus 로고    scopus 로고
    • Review and re-analysis of domain-specific 16S primers
    • Baker, G. C., J. J. Smith, and D. A. Cowan. 2003. Review and re-analysis 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
  • 6
    • 2342565752 scopus 로고    scopus 로고
    • Phylogenetic composition of Arctic Ocean archaeal assemblages and comparison with Antarctic assemblages
    • Bano, N., S. Ruffin, B. Ransom, and J. T. Hollibaugh. 2004. Phylogenetic composition of Arctic Ocean archaeal assemblages and comparison with Antarctic assemblages. Appl. Environ. Microbiol. 70:781-789.
    • (2004) Appl. Environ. Microbiol , vol.70 , pp. 781-789
    • Bano, N.1    Ruffin, S.2    Ransom, B.3    Hollibaugh, J.T.4
  • 7
    • 0028343555 scopus 로고
    • Remarkable archaeal diversity detected in a Yellowstone National Park hot spring environment
    • Barns, S., R. Fundyga, M. Jeffries, and N. Pace. 1994. Remarkable archaeal diversity detected in a Yellowstone National Park hot spring environment. Proc. Natl. Acad. Sci. USA 91:1609-1613.
    • (1994) Proc. Natl. Acad. Sci. USA , vol.91 , pp. 1609-1613
    • Barns, S.1    Fundyga, R.2    Jeffries, M.3    Pace, N.4
  • 8
    • 0025410004 scopus 로고
    • Incorporation of soya oil hydrolysate in the diet of defaunated or refaunated sheep: Effect on rumen fermentation in vitro
    • Broudiscou, L., C. J. van Nevel, and D. I. Demeyer. 1990. Incorporation of soya oil hydrolysate in the diet of defaunated or refaunated sheep: effect on rumen fermentation in vitro. Arch. Tierernaehr. 40:329-337.
    • (1990) Arch. Tierernaehr , vol.40 , pp. 329-337
    • Broudiscou, L.1    van Nevel, C.J.2    Demeyer, D.I.3
  • 9
    • 0035984122 scopus 로고    scopus 로고
    • Casamayor, E. O., R. Massana, S. Benlloch, L. Øvreås, B. Díez, V. J. Goddard, J. M. Gasol, I. Joint, F. Rodríguez-Valera, and C. Pedrós-Alió. 2002. Changes in archaeal, bacterial and eukaryal assemblages along a salinity gradient by comparison of genetic fingerprinting methods in a multipond solar saltern. Environ. Microbiol. 4:338-348.
    • Casamayor, E. O., R. Massana, S. Benlloch, L. Øvreås, B. Díez, V. J. Goddard, J. M. Gasol, I. Joint, F. Rodríguez-Valera, and C. Pedrós-Alió. 2002. Changes in archaeal, bacterial and eukaryal assemblages along a salinity gradient by comparison of genetic fingerprinting methods in a multipond solar saltern. Environ. Microbiol. 4:338-348.
  • 10
    • 33744483524 scopus 로고    scopus 로고
    • Archaeal habitats - from the extreme to the ordinary
    • Chaban, B. S. Y. Ng, and K. F. Jarrell. 2006. Archaeal habitats - from the extreme to the ordinary. Can. J. Microbiol. 51:73-116.
    • (2006) Can. J. Microbiol , vol.51 , pp. 73-116
    • Chaban, B.S.Y.N.1    Jarrell, K.F.2
  • 11
    • 6944229899 scopus 로고    scopus 로고
    • Examining diversity of free-living methanogens and those associated with protozoa in the rumen
    • Christophersen, C. T., A.-D. G. Wright, and P. E. Vercoe. 2004. Examining diversity of free-living methanogens and those associated with protozoa in the rumen. J. Anim. Feed Sci. 13:51-54.
    • (2004) J. Anim. Feed Sci , vol.13 , pp. 51-54
    • Christophersen, C.T.1    Wright, A.-D.G.2    Vercoe, P.E.3
  • 13
    • 15844427944 scopus 로고    scopus 로고
    • Influence of flavomycin on ruminal fermentation and microbial populations in sheep
    • Edwards, J. E., N. R. McEwan, N. McKain, N. Walker, and R. J. Wallace. 2005. Influence of flavomycin on ruminal fermentation and microbial populations in sheep. Microbiology 151:717-725.
    • (2005) Microbiology , vol.151 , pp. 717-725
    • Edwards, J.E.1    McEwan, N.R.2    McKain, N.3    Walker, N.4    Wallace, R.J.5
  • 14
    • 27844584367 scopus 로고    scopus 로고
    • Industrial relevance of thermophilic Archaea
    • Egorova, K., and G. Antranikian. 2005. Industrial relevance of thermophilic Archaea. Curr. Opin. Microbiol. 8:649-655.
    • (2005) Curr. Opin. Microbiol , vol.8 , pp. 649-655
    • Egorova, K.1    Antranikian, G.2
  • 15
    • 1842457611 scopus 로고    scopus 로고
    • A simple remedy against artifactual double bands in denaturing gradient gel electrophoresis
    • Janse, I., J. Bok, and G. Zwart. 2004. A simple remedy against artifactual double bands in denaturing gradient gel electrophoresis. J. Microbiol. Methods 57:279-281.
    • (2004) J. Microbiol. Methods , vol.57 , pp. 279-281
    • Janse, I.1    Bok, J.2    Zwart, G.3
  • 16
    • 0033771975 scopus 로고    scopus 로고
    • Identification of novel Archaea in bacterioplankton of a boreal forest lake by phylogenetic analysis and fluorescent in situ hybridization
    • Jurgens, G., F.-O. Glöckner, R. Amann, A. Saano, L. Montonen, M. Likolammi, and U. Münster. 2000. Identification of novel Archaea in bacterioplankton of a boreal forest lake by phylogenetic analysis and fluorescent in situ hybridization. FEMS Microbiol. Ecol. 34:45-56.
    • (2000) FEMS Microbiol. Ecol , vol.34 , pp. 45-56
    • Jurgens, G.1    Glöckner, F.-O.2    Amann, R.3    Saano, A.4    Montonen, L.5    Likolammi, M.6    Münster, U.7
  • 18
    • 0034803204 scopus 로고    scopus 로고
    • Analysis of the rumen bacterial diversity under two different diet conditions using denaturing gradient gel electrophoresis, random sequencing, and statistical ecology approaches
    • Kocherginskaya, S. A., R. I. Aminov, and B. A. White. 2001. Analysis of the rumen bacterial diversity under two different diet conditions using denaturing gradient gel electrophoresis, random sequencing, and statistical ecology approaches. Anaerobe 7:119-134.
    • (2001) Anaerobe , vol.7 , pp. 119-134
    • Kocherginskaya, S.A.1    Aminov, R.I.2    White, B.A.3
  • 19
    • 0035708607 scopus 로고    scopus 로고
    • Structure and functional analysis of the microbial community in an aerobic: Anaerobic sequencing batch reactor (SBR) with no phosphorus removal
    • Kong, Y. H., M. Beer, R. J. Seviour, K. C. Lindrea, and G. N. Rees. 2001. Structure and functional analysis of the microbial community in an aerobic: anaerobic sequencing batch reactor (SBR) with no phosphorus removal. Syst. Appl. Microbiol. 24:597-609.
    • (2001) Syst. Appl. Microbiol , vol.24 , pp. 597-609
    • Kong, Y.H.1    Beer, M.2    Seviour, R.J.3    Lindrea, K.C.4    Rees, G.N.5
  • 20
    • 0001857117 scopus 로고
    • 16S/23S rRNA sequencing
    • E. Stackebrandt and M. D. Goodfellow ed, John Wiley and Sons, New York, NY
    • Lane, D. J. 1991. 16S/23S rRNA sequencing, p. 115-175. In E. Stackebrandt and M. D. Goodfellow (ed.), Nucleic acid techniques in bacterial systematics. John Wiley and Sons, New York, NY.
    • (1991) Nucleic acid techniques in bacterial systematics , pp. 115-175
    • Lane, D.J.1
  • 21
    • 15944371548 scopus 로고    scopus 로고
    • Novel microbial diversity adherent to plant biomass in the herbivore gastrointestinal tract, as revealed by ribosomal intergenic spacer analysis and rrs gene sequencing
    • Larue, R., Z. Yu, V. A. Parisi, A. R. Egan, and M. Morrison. 2005. Novel microbial diversity adherent to plant biomass in the herbivore gastrointestinal tract, as revealed by ribosomal intergenic spacer analysis and rrs gene sequencing. Environ. Microbiol. 7:530-543.
    • (2005) Environ. Microbiol , vol.7 , pp. 530-543
    • Larue, R.1    Yu, Z.2    Parisi, V.A.3    Egan, A.R.4    Morrison, M.5
  • 22
    • 0036661667 scopus 로고    scopus 로고
    • Microbial community dynamics during start-up of acidogenic anaerobic reactors
    • Liu, W. T., O. C. Chan, and H. H. Fang. 2002. Microbial community dynamics during start-up of acidogenic anaerobic reactors. Water Res. 36:3203-3210.
    • (2002) Water Res , vol.36 , pp. 3203-3210
    • Liu, W.T.1    Chan, O.C.2    Fang, H.H.3
  • 23
    • 18244421111 scopus 로고    scopus 로고
    • Effect of coconut oil and defaunation treatment on methanogenesis in sheep
    • Machmuller, A., C. R. Soliva, and M. Kreuzer. 2003. Effect of coconut oil and defaunation treatment on methanogenesis in sheep. Reprod. Nutr. Dev. 43:41-55.
    • (2003) Reprod. Nutr. Dev , vol.43 , pp. 41-55
    • Machmuller, A.1    Soliva, C.R.2    Kreuzer, M.3
  • 24
    • 0028981814 scopus 로고
    • Evaluation of prokaryotic diversity by restrictase digestion of 16S rDNA directly amplified from hypersaline environments
    • Martínez-Murcia, A. J., S. G. Acinas, and F. Rodriguez-Valera. 1995. Evaluation of prokaryotic diversity by restrictase digestion of 16S rDNA directly amplified from hypersaline environments. FEMS Microbiol. Ecol. 17:247-255.
    • (1995) FEMS Microbiol. Ecol , vol.17 , pp. 247-255
    • Martínez-Murcia, A.J.1    Acinas, S.G.2    Rodriguez-Valera, F.3
  • 26
    • 0000408132 scopus 로고
    • Ecology of methane production and hydrogen sink in the rumen
    • W. V. Engelhardt, S. Leonhard-Marek, G. Breves, and D. Giesecke ed, Ferdinand Enke Verlag, Stuttgart, Germany
    • Miller, T. L. 1995. Ecology of methane production and hydrogen sink in the rumen, p. 317-331. In W. V. Engelhardt, S. Leonhard-Marek, G. Breves, and D. Giesecke (ed.), Ruminant physiology: digestion, metabolism, growth and reproduction. Ferdinand Enke Verlag, Stuttgart, Germany.
    • (1995) Ruminant physiology: Digestion, metabolism, growth and reproduction , pp. 317-331
    • Miller, T.L.1
  • 27
    • 0027460328 scopus 로고
    • Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA
    • Muyzer, G., E. C. de Waal, and A. G. Uitterlinden. 1993. Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA. Appl. Environ. Microbiol. 59:695-700.
    • (1993) Appl. Environ. Microbiol , vol.59 , pp. 695-700
    • Muyzer, G.1    de Waal, E.C.2    Uitterlinden, A.G.3
  • 28
    • 0036146824 scopus 로고    scopus 로고
    • Determination of bacterial load by real-time PCR using a broad-range (universal) probe and primers set
    • Nadkarni, M. A., F. E. Martin, N. A. Jacques, and N. Hunter. 2002. Determination of bacterial load by real-time PCR using a broad-range (universal) probe and primers set. Microbiology 148:257-266.
    • (2002) Microbiology , vol.148 , pp. 257-266
    • Nadkarni, M.A.1    Martin, F.E.2    Jacques, N.A.3    Hunter, N.4
  • 30
    • 0034869069 scopus 로고    scopus 로고
    • Archaeal communities in two disparate deteriorated ancient wall paintings: Detection, identification and temporal monitoring by denaturing gradient gel electrophoresis
    • Piñar, G., C. Saiz-Jimenez, C. Schabereiter-Gurtner, M. T. Blanco-Varela, W. Lubitz, and S. Rölleke. 2001. Archaeal communities in two disparate deteriorated ancient wall paintings: detection, identification and temporal monitoring by denaturing gradient gel electrophoresis. FEMS Microbiol. Ecol. 37:45-54.
    • (2001) FEMS Microbiol. Ecol , vol.37 , pp. 45-54
    • Piñar, G.1    Saiz-Jimenez, C.2    Schabereiter-Gurtner, C.3    Blanco-Varela, M.T.4    Lubitz, W.5    Rölleke, S.6
  • 31
    • 0034123066 scopus 로고    scopus 로고
    • Monitoring complex bacterial communities using culture-independent molecular techniques: Application to soil environment
    • Ranjard, L., F. Poly, and S. Nazaret. 2000. Monitoring complex bacterial communities using culture-independent molecular techniques: application to soil environment. Res. Microbiol. 151:167-177.
    • (2000) Res. Microbiol , vol.151 , pp. 167-177
    • Ranjard, L.1    Poly, F.2    Nazaret, S.3
  • 32
    • 0003625509 scopus 로고
    • F. T. Robb and A. R. Place ed, Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY
    • Reysenbach, A. L., and N. R. Pace. 1995. In F. T. Robb and A. R. Place (ed.), Archaea: a laboratory manual - thermophiles. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
    • (1995) Archaea: A laboratory manual - thermophiles
    • Reysenbach, A.L.1    Pace, N.R.2
  • 33
    • 2242477886 scopus 로고    scopus 로고
    • Perspectives on biotechnological applications of Archaea
    • Schiraldi, C., M. Giuliano, and M. De Rosa. 2002. Perspectives on biotechnological applications of Archaea. Archaea 1:75-86.
    • (2002) Archaea , vol.1 , pp. 75-86
    • Schiraldi, C.1    Giuliano, M.2    De Rosa, M.3
  • 34
    • 0032080814 scopus 로고    scopus 로고
    • Taxon-specific associations between protozoal and methanogen populations in the rumen and a model rumen system
    • Sharp, R., C. J. Ziemer, M. D. Stern, and D. A. Stahl. 1998. Taxon-specific associations between protozoal and methanogen populations in the rumen and a model rumen system. FEMS Microbiol. Ecol. 26:71-78.
    • (1998) FEMS Microbiol. Ecol , vol.26 , pp. 71-78
    • Sharp, R.1    Ziemer, C.J.2    Stern, M.D.3    Stahl, D.A.4
  • 35
    • 35148899268 scopus 로고    scopus 로고
    • Vieira, R. P., M. M. Clementino, A. M. Cardoso, D. N. Oliveira, R. M. Albano, A. M. Gonzalez, R. Paranhos, and O. B. Martins. 2007. Archaeal communities in a tropical estuarine ecosystem: Guanabara Bay, Brazil. Microb. Ecol. 54:460-468.
    • Vieira, R. P., M. M. Clementino, A. M. Cardoso, D. N. Oliveira, R. M. Albano, A. M. Gonzalez, R. Paranhos, and O. B. Martins. 2007. Archaeal communities in a tropical estuarine ecosystem: Guanabara Bay, Brazil. Microb. Ecol. 54:460-468.
  • 36
    • 1842576603 scopus 로고    scopus 로고
    • DGGE method for analyzing 16S rDNA of methanogenic archaeal community in paddy field soil
    • Watanabe, T., S. Asakawa, A. Nakamura, K. Nagaoka, and M. Kimura. 2004. DGGE method for analyzing 16S rDNA of methanogenic archaeal community in paddy field soil. FEMS Microbiol. Lett. 232:153-163.
    • (2004) FEMS Microbiol. Lett , vol.232 , pp. 153-163
    • Watanabe, T.1    Asakawa, S.2    Nakamura, A.3    Nagaoka, K.4    Kimura, M.5
  • 38
    • 32044438887 scopus 로고    scopus 로고
    • Development and application of real-time PCR assays for quantification of genes encoding tetracycline resistance
    • Yu, Z., J. Michel, C. Frederick, G. Hansen, T. Wittum, and M. Morrison. 2005. Development and application of real-time PCR assays for quantification of genes encoding tetracycline resistance. Appl. Environ. Microbiol. 71:6926-6933.
    • (2005) Appl. Environ. Microbiol , vol.71 , pp. 6926-6933
    • Yu, Z.1    Michel, J.2    Frederick, C.3    Hansen, G.4    Wittum, T.5    Morrison, M.6
  • 39
    • 4143101632 scopus 로고    scopus 로고
    • Comparisons of different hypervariable regions of rrs genes for use in fingerprinting of microbial communities by PCR-denaturing gradient gel electrophoresis
    • Yu, Z., and M. Morrison. 2004. Comparisons of different hypervariable regions of rrs genes for use in fingerprinting of microbial communities by PCR-denaturing gradient gel electrophoresis. Appl. Environ. Microbiol. 70: 4800-4806.
    • (2004) Appl. Environ. Microbiol , vol.70 , pp. 4800-4806
    • Yu, Z.1    Morrison, M.2
  • 40
    • 2442510059 scopus 로고    scopus 로고
    • Improved extraction of PCR-quality community DNA from digesta and fecal samples
    • Yu, Z., and M. Morrison. 2004. Improved extraction of PCR-quality community DNA from digesta and fecal samples. BioTechniques 36:808-812.
    • (2004) BioTechniques , vol.36 , pp. 808-812
    • Yu, Z.1    Morrison, M.2
  • 41
    • 24344506195 scopus 로고    scopus 로고
    • Study of microbial community structures in UASB sludge treating municipal wastewater by denaturing gradient gel electrophoresis of 16S rDNA
    • Zhang, Y., S. Aiyuk, H. Xu, G. Chen, and W. Verstraete. 2005. Study of microbial community structures in UASB sludge treating municipal wastewater by denaturing gradient gel electrophoresis of 16S rDNA. Sci. China Ser. C 48(Suppl. 1):128-135.
    • (2005) Sci. China Ser. C , vol.48 , Issue.SUPPL. 1 , pp. 128-135
    • Zhang, Y.1    Aiyuk, S.2    Xu, H.3    Chen, G.4    Verstraete, W.5
  • 42
    • 0030155971 scopus 로고    scopus 로고
    • Effects of forage level on the comparative feeding value of supplemental fat in growing-finishing diets for feedlot cattle
    • Zinn, R. A., and A. Plascencia. 1996. Effects of forage level on the comparative feeding value of supplemental fat in growing-finishing diets for feedlot cattle. J. Anim. Sci. 74:1194-1201.
    • (1996) J. Anim. Sci , vol.74 , pp. 1194-1201
    • Zinn, R.A.1    Plascencia, A.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.