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Volumn 56, Issue 24, 2008, Pages 11969-11975

Extraction of DNA from soil for analysis of bacterial diversity in transgenic and nontransgenic papaya sites

Author keywords

Bacterial 16S rDNA; DGGE (Denaturing gradient gel electrophoresis); PCR inhibition; Soil DNA extraction

Indexed keywords

BACTERIA (MICROORGANISMS); CARICA PAPAYA;

EID: 58849143055     PISSN: 00218561     EISSN: None     Source Type: Journal    
DOI: 10.1021/jf8025666     Document Type: Article
Times cited : (9)

References (32)
  • 1
    • 0008201847 scopus 로고    scopus 로고
    • Effects of transgenic plants on soil and plant microorganisms
    • Pandalai, S.G, Ed, Research Signpost: Trivandrum, India, Part II, pp
    • Donegan, K. K.; Seidler, R. J. Effects of transgenic plants on soil and plant microorganisms. In Recent research development in microbiology; Pandalai, S.G., Ed.; Research Signpost: Trivandrum, India, 1999; Vol. 3, Part II, pp 415-424.
    • (1999) Recent research development in microbiology , vol.3 , pp. 415-424
    • Donegan, K.K.1    Seidler, R.J.2
  • 2
    • 0034948247 scopus 로고    scopus 로고
    • Saxena, D.; Stotzky, G. Bacillus thuringiensis (Bt) toxin released from root exudates and biomass of Bt corn has no apparent effect on earthworms, nematodes, protozoa, and fungi in soil. Soil Biol. Biochem. 2001, 33, 1225-1230.
    • Saxena, D.; Stotzky, G. Bacillus thuringiensis (Bt) toxin released from root exudates and biomass of Bt corn has no apparent effect on earthworms, nematodes, protozoa, and fungi in soil. Soil Biol. Biochem. 2001, 33, 1225-1230.
  • 3
    • 58149325616 scopus 로고
    • Changes in levels, species, and DNA fingerprints of soil microorganisms associated with cotton expressing the Bacillus thuringiensis var. kurstaki endotoxin
    • Donegan, K. K.; Plam, C. J.; Fieland, V. J.; Porteous, L. A.; Ganio, L. M.; Schaller, D. L.; Bucao, L. Q.; Seidler, R. J. Changes in levels, species, and DNA fingerprints of soil microorganisms associated with cotton expressing the Bacillus thuringiensis var. kurstaki endotoxin. Appl. Soil Ecol. 1995, 2, 111-124.
    • (1995) Appl. Soil Ecol , vol.2 , pp. 111-124
    • Donegan, K.K.1    Plam, C.J.2    Fieland, V.J.3    Porteous, L.A.4    Ganio, L.M.5    Schaller, D.L.6    Bucao, L.Q.7    Seidler, R.J.8
  • 4
    • 33748693123 scopus 로고    scopus 로고
    • Field released transgenic papaya affects microbial communities and enzyme activities in soil
    • Wei, X. D.; Zou, H. L.; Chu, L. M.; Liao, B.; Ye, C. M.; Lan, C. Y. Field released transgenic papaya affects microbial communities and enzyme activities in soil. Plant Soil 2006, 285, 347-358.
    • (2006) Plant Soil , vol.285 , pp. 347-358
    • Wei, X.D.1    Zou, H.L.2    Chu, L.M.3    Liao, B.4    Ye, C.M.5    Lan, C.Y.6
  • 5
    • 0030739128 scopus 로고    scopus 로고
    • Analysis of Actinomycete Communities by Specific Amplification of Genes Encoding 16S rRNA and Gel-Electrophoretic Separation in Denaturing Gradients
    • Heuer, H.; Krsek, M.; Baker, P.; Smalla, K.; Wellington, E. M. Analysis of Actinomycete Communities by Specific Amplification of Genes Encoding 16S rRNA and Gel-Electrophoretic Separation in Denaturing Gradients. Appl. Microbiol. 1997, 3233-3241.
    • (1997) Appl. Microbiol , pp. 3233-3241
    • Heuer, H.1    Krsek, M.2    Baker, P.3    Smalla, K.4    Wellington, E.M.5
  • 6
    • 0031768998 scopus 로고    scopus 로고
    • Changes in bacterial species composition in enrichment cultures with various dilutions of inoculum as monitored by denaturing gradient gel electrophoresis
    • Jackson, C. R.; Roden, E. E.; Churchill, P. F. Changes in bacterial species composition in enrichment cultures with various dilutions of inoculum as monitored by denaturing gradient gel electrophoresis. Appl. Environ. Microbiol. 1998, 64, 5046-5048.
    • (1998) Appl. Environ. Microbiol , vol.64 , pp. 5046-5048
    • Jackson, C.R.1    Roden, E.E.2    Churchill, P.F.3
  • 7
    • 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.; Dewaal, E. C.; Uitterlinden, A. G. Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA. Appl. Environ. Microbiol. 1993, 59, 695-700.
    • (1993) Appl. Environ. Microbiol , vol.59 , pp. 695-700
    • Muyzer, G.1    Dewaal, E.C.2    Uitterlinden, A.G.3
  • 8
    • 0036242855 scopus 로고    scopus 로고
    • Denaturing gradient gel electrophoresis (DGGE) approaches to study the diversity of ammonia-oxidizing bacteria
    • Nicolaisen, M. H.; Ramsing, N. B. Denaturing gradient gel electrophoresis (DGGE) approaches to study the diversity of ammonia-oxidizing bacteria. J. Microbiol. Methods 2002, 50, 189-203.
    • (2002) J. Microbiol. Methods , vol.50 , pp. 189-203
    • Nicolaisen, M.H.1    Ramsing, N.B.2
  • 9
    • 4644252383 scopus 로고    scopus 로고
    • Effect of fungicide iprodione on soil bacterial community
    • Wang, Y. S.; Wen, C. Y.; Chiu, T. C.; Yen, J. H. Effect of fungicide iprodione on soil bacterial community. Ecotoxicol. Environ. Saf. 2004, 59, 127-132.
    • (2004) Ecotoxicol. Environ. Saf , vol.59 , pp. 127-132
    • Wang, Y.S.1    Wen, C.Y.2    Chiu, T.C.3    Yen, J.H.4
  • 10
    • 0028087753 scopus 로고
    • Purification and molecular analysis of microbial DNA from compost
    • Malik, M.; Kain, J.; Pettigrew, C.; Ogram, A. Purification and molecular analysis of microbial DNA from compost. J. Microbiol. Methods 1994, 20, 183-196.
    • (1994) J. Microbiol. Methods , vol.20 , pp. 183-196
    • Malik, M.1    Kain, J.2    Pettigrew, C.3    Ogram, A.4
  • 11
  • 12
    • 0025740131 scopus 로고
    • Recovery of bulk DNA from soil by a rapid, small-scale extraction method
    • Proteous, L. A.; Armstrong, J. L. Recovery of bulk DNA from soil by a rapid, small-scale extraction method. Curr. Microbiol. 1991, 22, 345-348.
    • (1991) Curr. Microbiol , vol.22 , pp. 345-348
    • Proteous, L.A.1    Armstrong, J.L.2
  • 13
    • 12744281935 scopus 로고
    • The extraction and purification of microbial DNA from sediments
    • Ogram, A.; Sayler, G. S.; Barkay, T. The extraction and purification of microbial DNA from sediments. J. Microbiol. Methods 1987, 7, 57-66.
    • (1987) J. Microbiol. Methods , vol.7 , pp. 57-66
    • Ogram, A.1    Sayler, G.S.2    Barkay, T.3
  • 14
    • 0030466828 scopus 로고    scopus 로고
    • Sensitive detection of transgenic plant marker gene persistence in soil microcosms
    • Widmer, F.; Seidler, R. J.; Watrud, L. S. Sensitive detection of transgenic plant marker gene persistence in soil microcosms. Mol. Ecol. 1996, 5, 603-613.
    • (1996) Mol. Ecol , vol.5 , pp. 603-613
    • Widmer, F.1    Seidler, R.J.2    Watrud, L.S.3
  • 15
    • 0023866522 scopus 로고
    • DNA probe method for the detection of specific microorganisms in the soil bacterial community
    • Holben, W. E.; Jansson, J. K.; Chelm, B. K.; Tiedje, J. M. DNA probe method for the detection of specific microorganisms in the soil bacterial community. Appl. Environ. Microbiol. 1988, 54, 703-711.
    • (1988) Appl. Environ. Microbiol , vol.54 , pp. 703-711
    • Holben, W.E.1    Jansson, J.K.2    Chelm, B.K.3    Tiedje, J.M.4
  • 16
    • 0024077490 scopus 로고
    • DNA amplification to enhance detection of genetically engineered bacteria in environmental samples
    • Steffan, R. J.; Atlas, R. M. DNA amplification to enhance detection of genetically engineered bacteria in environmental samples. Appl. Environ. Microbiol. 1988, 54, 2185-2191.
    • (1988) Appl. Environ. Microbiol , vol.54 , pp. 2185-2191
    • Steffan, R.J.1    Atlas, R.M.2
  • 17
    • 0025893814 scopus 로고
    • Rapid method for direct extraction of mRNA from seeded soils
    • Tsai, Y. L.; Park, M. J.; Olson, B. H. Rapid method for direct extraction of mRNA from seeded soils. Appl. Environ. Microbiol. 1991, 57, 765-768.
    • (1991) Appl. Environ. Microbiol , vol.57 , pp. 765-768
    • Tsai, Y.L.1    Park, M.J.2    Olson, B.H.3
  • 18
    • 0030445598 scopus 로고    scopus 로고
    • Efficient transformation of papaya by coat protein gene of papaya ringspot virus mediated by Agrobacterium following liquid-phase wounding of embryogenic tissues with caborundum
    • Cheng, Y. H.; Yang, J. S.; Yeh, S. D. Efficient transformation of papaya by coat protein gene of papaya ringspot virus mediated by Agrobacterium following liquid-phase wounding of embryogenic tissues with caborundum. Plant Cell Rep. 1996, 16, 127-132.
    • (1996) Plant Cell Rep , vol.16 , pp. 127-132
    • Cheng, Y.H.1    Yang, J.S.2    Yeh, S.D.3
  • 19
    • 0033158899 scopus 로고    scopus 로고
    • IUPAC collaborative trial study of a method to detect genetically modified soybeans and maize in dried powder
    • Lipp, M.; Brodmann, P.; Pietsch, K.; Pauwels, J.; Anklam, E. IUPAC collaborative trial study of a method to detect genetically modified soybeans and maize in dried powder. J. AOAC Int. 1999, 82, 923-928.
    • (1999) J. AOAC Int , vol.82 , pp. 923-928
    • Lipp, M.1    Brodmann, P.2    Pietsch, K.3    Pauwels, J.4    Anklam, E.5
  • 20
    • 0032703237 scopus 로고    scopus 로고
    • Evaluation and optimization of DNA extraction and purification procedures for soil and sediment samples
    • Miller, D. N.; Bryant, J. E.; Madsen, E. L.; Ghiorse, W. C. Evaluation and optimization of DNA extraction and purification procedures for soil and sediment samples. Appl. Environ. Microbiol. 1999, 65, 4715-4724.
    • (1999) Appl. Environ. Microbiol , vol.65 , pp. 4715-4724
    • Miller, D.N.1    Bryant, J.E.2    Madsen, E.L.3    Ghiorse, W.C.4
  • 23
    • 33845603602 scopus 로고    scopus 로고
    • Comparative analysis of environmental DNA extraction and purification methods from different humic acid-rich soils
    • Lakay, F. M.; Botha, A.; Prior, B. A. Comparative analysis of environmental DNA extraction and purification methods from different humic acid-rich soils. J. Appl. Microbiol. 2007, 102, 265-273.
    • (2007) J. Appl. Microbiol , vol.102 , pp. 265-273
    • Lakay, F.M.1    Botha, A.2    Prior, B.A.3
  • 24
    • 84975823160 scopus 로고    scopus 로고
    • Evaluation of soil DNA from arable land in Japan using a modified direct-extraction method
    • Ikeda, S.; Watanabe, K. N.; Minamisawa, K.; Ytow, N. Evaluation of soil DNA from arable land in Japan using a modified direct-extraction method. Microbes Environ. 2004, 19, 301-309.
    • (2004) Microbes Environ , vol.19 , pp. 301-309
    • Ikeda, S.1    Watanabe, K.N.2    Minamisawa, K.3    Ytow, N.4
  • 25
    • 0029941934 scopus 로고    scopus 로고
    • Rapid, direct extraction of DNA from soils for PCR analysis using polyvinylpolypyrrolidone spin columns
    • Berthelet, M.; Whyte, L. G.; Greer, C. W. Rapid, direct extraction of DNA from soils for PCR analysis using polyvinylpolypyrrolidone spin columns. FEMS Microbiol. Lett. 1996, 138, 17-22.
    • (1996) FEMS Microbiol. Lett , vol.138 , pp. 17-22
    • Berthelet, M.1    Whyte, L.G.2    Greer, C.W.3
  • 26
    • 0031449524 scopus 로고    scopus 로고
    • Mechanism of retarded DNA degradation and prokaryotic origin of DNases in nonsterile soils
    • Blum, S. A. E.; Lorenz, M. G.; Wackernagel, W. Mechanism of retarded DNA degradation and prokaryotic origin of DNases in nonsterile soils. Syst. Appl. Microbiol. 1997, 20, 513-521.
    • (1997) Syst. Appl. Microbiol , vol.20 , pp. 513-521
    • Blum, S.A.E.1    Lorenz, M.G.2    Wackernagel, W.3
  • 27
    • 0025740131 scopus 로고
    • Recovery of bulk DNA from soil by a rapid, small-scale extraction method
    • Arlene, L. P.; Armstrong, J. L. Recovery of bulk DNA from soil by a rapid, small-scale extraction method. Curr. Microbiol. 1991, 22, 345-348.
    • (1991) Curr. Microbiol , vol.22 , pp. 345-348
    • Arlene, L.P.1    Armstrong, J.L.2
  • 30
    • 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, 2292-2295.
    • (1992) Appl. Environ. Microbiol , vol.58 , pp. 2292-2295
    • Tsai, Y.L.1    Olson, B.H.2
  • 31
    • 28744453396 scopus 로고    scopus 로고
    • Pre-lysis washing improves DNA extraction from a forest soil
    • He, J.; Xu, Z.; Hughes, J. Pre-lysis washing improves DNA extraction from a forest soil. Soil Biol. Biochem. 2005, 37, 2337-2341.
    • (2005) Soil Biol. Biochem , vol.37 , pp. 2337-2341
    • He, J.1    Xu, Z.2    Hughes, J.3
  • 32
    • 31044438310 scopus 로고    scopus 로고
    • Influence of planting papaya ringspot virus resistant transgenic papaya on soil microbial biodiversity
    • Hsieh, Y. T.; Pan, T. M. Influence of planting papaya ringspot virus resistant transgenic papaya on soil microbial biodiversity. J. Agric. Food Chem. 2006, 54, 130-137.
    • (2006) J. Agric. Food Chem , vol.54 , pp. 130-137
    • Hsieh, Y.T.1    Pan, T.M.2


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