Adsorption and binding of AmpliTaq® DNA polymerase on the clay minerals, montmorillonite and kaolinite

Soil Biology and Biochemistry

Volumn 31, Issue 4, 1999, Pages 587-593

  Vettori, C ^a   Calamai, L ^a   Yoder, M ^b   Stotzky, G ^b   Gallori, E ^a  

^a UNIVERSITY OF FLORENCE   (Italy)

^b NEW YORK UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ADSORPTION KINETICS; ALUMINUM SILICATE; BINDING KINETICS; DNA POLYMERASE; INFRARED SPECTROSCOPY; MONTMORILLONITE; SCANNING ELECTRON MICROSCOPY; SDS POLYACRYLAMIDE GEL ELECTROPHORESIS;

ADSORPTION; CLAY MINERAL; ENZYME;

EID: 0032990110     PISSN: 00380717     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0038-0717(98)00162-X     Document Type: Article

References (33)

1. Bystricky V., Stotzky G., Schiffenbauer M. Electron microscopy of T1-bacteriophage adsorbed to clay minerals: application of the critical point drying method. Canadian Journal of Microbiology. 21:1975;1278-1282.
2. Fani R., Damiani G., Di Serio C., Gallori E., Grifoni A., Bazzicalupo M. Use of random amplified polymorphic DNA (RAPD) for generating specific DNA probes for microorganisms. Molecular Ecology. 2:1993;243-250.
3. Fusi P., Ristori G., Calamai L., Stotzky G. Adsorption and binding of proteins on 'clean' (homoionic) and 'dirty' (coated with Fe oxyhydroxides) montmorillonite, illite and kaolinite. Soil Biology & Biochemistry. 21:1989;911-920.
4. Giles, C.H., McEwan, T.H., Nakhwa, S.N., Smith, D., 1960. Studies on adsorption XI. A system of classification of solution adsorption isotherms, and its use in diagnosis of adsorption mechanisms and in measurement of specific surface area of solids. Journal of the Chemical Society, Part III, 3973-3993.
5. Götz A., Pukall R., Smit E., Tietze E., Prager R., Tschäpe H., van Elsas J.D., Smalla K. Detection and characterization of broad-host-range plasmids in environmental bacteria by PCR. Applied and Environmental Microbiology. 62:1996;2621-2628.
6. Harter R.D., Stotzky G. Formation of clay-protein complexes. Soil Science Society of America Proceedings. 35:1971;383-389.
7. Harter R.D., Stotzky G. X-ray diffraction, electron microscopy, electrophoretic mobility, and pH of some stable smectite-protein complexes. Soil Science Society of America Proceedings. 37:1973;116-123.
8. Jaynes W.F., Boyd S.A. Hydrophobicity of siloxane surfaces in smectites as revealed by aromatic hydrocarbon adsorption from water. Clays and Clay Minerals. 39:1991;428-436.
9. Khanna M., Stotzky G. Transformation of Bacillus subtilis by DNA bound on montmorillonite and effect of DNase on the transforming ability of bound DNA. Applied and Environmental Microbiology. 58:1992;1930-1939.
10. Lawyer F.C., Stoffel S., Saiki R.K., Chang S.-Y., Landre P.A., Abramson R.D., Gelfand D.H. High-level expression, purification, and enzymatic characterization of full-length Thermus aquaticus DNA polymerase and a truncated form deficient in 5′ to 3′ exonuclease activity. PCR Methods and Applications. 2:1993;275-287.
11. Lawyer F.C., Stoffel S., Saiki R.K., Myambo K., Drummond R., Gelfand D.H. Isolation, characterization, and expression in Escherichia coli of the DNA polymerase gene from Thermus aquaticus. The Journal of Biological Chemistry. 264:1989;6427-6437.
12. Lugtenberg B., Meijers J., Peters R., Van der Hock P., Van Alphen L. Electrophoretic resolution of the major outer membrane protein of E. coli K12 into 4 bands. FEBS Letters. 58:1975;254-258.
13. Mullis K.B., Faloona F. Specific synthesis of DNA in vitro via a polymerase-catalyzed chain reaction. Methods in Enzymology. 155:1987;335-350.
14. Picard C., Ponsonnet C., Paget E., Nesme X., Simonet P. Detection and enumeration of bacteria in soil by direct DNA extraction and polymerase chain reaction. Applied and Environmental Microbiology. 58:1992;2717-2722.
15. Rhoades, J.D., 1982. Cation exchange capacity. In: Page, L., Miller, R.H., Keeney, D.R. (Eds.), Methods of Soil Analysis, Part II, Soil Science Society of America, Madison, pp. 149-157.
16. Rochette E.A., Koskinen W.-M.C. Supercritical carbon dioxide for determining atrazine sorption by field-moist soils. Soil Science Society of America Journal. 60:1996;453-460.
17. Romanowski G., Lorenz M.G., Wackernagel W. Use of polymerase chain reaction and electroporation of Escherichia coli to monitor the persistence of extracellular plasmid DNA introduced into natural soils. Applied and Environmental Microbiology. 59:1993;3438-3446.
18. Sarkar J.M., Leonowicz A., Bollag J.-M. Immobilization of enzymes on clays and soils. Soil Biology & Biochemistry. 21:1989;223-230.
19. Schulthess C.P., Dey D.K. Estimation of Langmuir constants using linear and nonlinear least square regression analyses. Soil Science Society of America Journal. 60:1996;433-442.
20. Skoog, D.A., West, D.M., 1986. Analytical Chemistry: an Introduction. W.B. Saunders, Philadelphia.
21. Sedmak J.J., Grossberg S.E. A rapid, sensitive and versatile assay for protein using Coomassie brilliant blue G250. Analytical Biochemistry. 79:1977;544-552.
22. Smalla K., Cresswell N., Mendonca-Hagler L.C., Wolters A., van Elsas J.D. Rapid DNA extraction protocol from soil for polymerase chain reaction-mediated amplification. Journal of Applied Bacteriology. 74:1993;78-85.
23. Socrates, G., 1980. Infrared Characteristic Group Frequencies. J. Wiley, New York, pp. 57-82.
24. Stotzky, G., 1986. Influence of soil mineral colloids on metabolic processes, growth, adhesion, and ecology of microbes and viruses. In: Huang, P.M., Schnitzer, M. (Eds.), Interactions of Soil Minerals with Natural Organics and Microbes. Soil Science Society of America, Madison, pp. 305-428.
25. Stotzky, G., Gallori, E. and Khanna, M. (1996) Transformation in soil. In: Akkermans, A.D.L., van Elsas, J.D., de Bruijn, F.J. (Eds.), Molecular Microbial Ecology, 5.1.2. Kluwer Academic Publishers, Dordrecht, pp. 1-28.
26. Straub T.M., Pepper I.L., Gerba C.P. Removal of PCR inhibiting substances in sewage amended soil. Water Science and Technology. 31:1995;311-315.
27. 2O solutions. Journal of Biological Chemistry. 242:1967;5460-5466.
28. Tanford, C., 1991. The Hydrophobic Effect, 2nd ed. Krieger, Melbourne, FL.
29. Timasheff S.N., Susi H., Stevens L. Infrared spectra and protein conformations in aqueous solutions. II. Survey of globular proteins. Journal of Biological Chemistry. 242:1967;5467-5473.
30. Tsai Y.-L., Olson B.H. Rapid method for separation of bacterial DNA from humic substance in sediments for polymerase chain reaction. Applied and Environmental Microbiology. 58:1992;2292-2295.
31. Vettori C., Paffetti D., Pietramellara G., Stotzky G., Gallori E. Amplification of bacterial DNA bound on clay minerals by the random amplified polymorphic DNA (RAPD) technique. FEMS Microbiology Ecology. 20:1996;251-260.
32. Weiland D.A., Molinoff P.B. Quantitative analysis of drug-receptor interaction: I. Determination of kinetic and equilibrium properties. Life Sciences. 29:1981;313-330.
33. Young C.Y., Burghoff R.L., Keim L.G., Minak-Bernero V., Lute J.R., Hinton S.M. Polyvinylpyrrolidone-agarose gel electrophoresis purification of polymerase chain reaction-amplifiable DNA from soils. Applied and Environmental Microbiology. 59:1993;1972-1974.