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2000 | 09 | 5 |

Tytuł artykułu

Bacterial community DNA extracted from soils polluted with heavy metals

Warianty tytułu

Języki publikacji

EN

Abstrakty

EN
This paper describes the application of two direct and one indirect methods for the extraction of microbial community DNA from soils polluted with heavy metals. DNA was extracted directly from soil by a gentle method based on the soil incubation at 37°C with proteinase K and SDS or the method was modified by the addition of bead beating step. The indirect approach was based on the RNA/DNA extraction method. The level of soil contamination did not affect on the yields of DNA extracted and PCR amplification of the target DNA. The results indicated that the DNA obtained by the applied protocols was sufficiently pure for further molecular analyses.

Wydawca

-

Rocznik

Tom

09

Numer

5

Opis fizyczny

p.403-407,fig.,ref.

Twórcy

autor
  • University of Silesia, Jagiellonska 28, 40-032 Katowice, Poland

Bibliografia

  • 1. TREVORS J.T., VAN ELSAS J.D. Nucleic Acids in the Environment: Methods and Applications. Springer-Verlag, •Heidelberg, 1995.
  • 2. LIESACK W, JANSSEN PH., RAINEY F.A., WARD-RAINEY N.L., STACKEBRAND E. Microbial di versity in soil: the need for a combined approach using mol ecular and cultivation techniques. In: Modern Soil Microbi ology, eds. J.D VAN ELSAS., J.T. TREVORS, E.M.H. WELLINGTON, Marcel Dekker, Inc., New York, pp. 375-433, 1997.
  • 3. VAN ELSAS J.D, DUARTE G.F., ROSADO A.S, SMALLA K. Microbiological and molecular methods for monitoring microbial inoculants and their effects in the envi ronment. J. Microbiol. Meth., 32, 133, 1998.
  • 4. STEFFAN R.J., GOKSOYR J, BEJ A.K, ATLAS R.M. Recovery of DNA from soils and sediments. Appl. Environ. Microbiol, 54, 2908, 1988.
  • 5. TORSVIK V, DAAE F.L, GOKSOYR J. Extraction, puri fication, and analysis of DNA from soil bacteria. In: Nucleic Acids in the Environment: Methods and Applications, eds. J.T.TREVORS, J.D. VAN ELSAS, Springer-Verlag, Heidelberg, pp. 29-48, 1995.
  • 6. TEBBE C.C, VAHJEN W. Interference of humic acids and DNA extracted directly from soil in detection and transform ation of recombinant DNA from bacteria and yeast. Appl. Environ. Microbiol, 59, 2657, 1993.
  • 7. TSAI Y-L, OLSON B.H. Rapid method for separation of bacterial DNA from humic substances in sediments for poly merase chain reaction. Appl. Environ. Microbiol, 58, 2292, 1992.
  • 8. RICHAUME A, SMIT E, FAURIE G, VAN ELSAS J.D. Influence of soil type on transfer of plasmid RP4p from Pseudomonas fluorescens to introduced recipient and to in digenous bacteria. FEMS Microbiol. Ecol, 101, 281, 1992.
  • 9. SAANO A, LINDSTROM K. Small scale extraction of DNA from soil with spun column cleanup. In: Molecular Microbial Ecology Manual, eds. A.D.L. AKKERMANS, F.J. DE BRUIJN, J.D. VAN ELSAS, Kluwer, Dordrecht, pp. 1.3.4: 1-6, 1995.
  • 10. VAN ELSAS J.D, MANTYNEN V, WOLTERS A. Soil DNA extraction and assessment of the fate of Mycobac terium chlorophenolicum strain PCP-1 in different soils by 16S ribosomal RNA gene sequence based most-probable-number PCR and immunofluorescence. Biol. Fertil. Soils, 24, 188, 1997.
  • 11. DUARTE G.F, ROSADO A.S, SELDIN L, KEIJZER-WOLTERS A.C, VAN ELSAS J.D.. Extraction of ribosomal RNA and genomic DNA from soil for studying the diversity of the indigenous bacterial community. J. Microbiol. Meth., 32, 21, 1998.
  • 12. CRECCHIO C, STOTZKY G. Binding of DNA on humic acids: effect on transformation of Bacillus subtilis and resis tance to DNase. Soil Biol. Biochem, 30, 1061, 1998.
  • 13. SAMBROOK J., FRITSCH E.F., MANIATIS T. Molecular Cloning A Laboratory Manual, 2nd ed.; Cold Spring Harbor, New York: Cold Spring Harbor Laboratory Press, 1989.
  • 14. HEUER H., SMALLA K. Application of denaturing gradi ent gel electrophoresis and temperature gradient gel elec trophoresis for studying soil microbial communities. In: Modern Soil Microbiology, eds. J.D. VAN ELSAS, J.T. TREVORS, E.M.H. WELLINGTON, Marcel Dekker, Inc., New York, pp. 353-373, 1997.
  • 15. MUYZER G, DE WALL E.C., UITTERLINDEN A.G. Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain re action-amplified genes coding for 16S rRNA. Appl. Environ. Microbiol. 59, 695, 1993.
  • 16. KUSKE C, BANTON K.L., ADORADA D.L., STARK P.C., HILL K.K., JACKSON P.J. Small-scale DNA sample preparation method for field PCR detection of microbial cells and spores in soil. Appl. Environ. Microbiol., 64, 2463, 1998.
  • 17. CLEGG CD., RITZ K, GRIFFITHS B.S. Direct extraction of microbial community DNA from humified upland soils. Lett. Appl. Microbiol., 25, 30, 1997.
  • 18. YEATES C, GILLINGS MR., DAVIDSON A.D., AL- TAVILLA N., VEAL D.A. PCR amplification of crude microbial DNA extracted from soil. Lett. Appl. Microbiol., 25, 303, 1997.
  • 19. CULLEN D.W., HIRSCH P.R. Simple and rapid method for direct extraction of microbial DNA from soil for PCR. Soil Biol. Biochem., 30, 983, 1998.
  • 20. PORTEOUS L.A., SEIDLER R.J., WATRUD L.S. An im proved method for purifying DNA from soil for polymerase chain reaction amplification and molecular ecology applica tions. Molec. Ecol., 6, 787, 1997.
  • 21. ZHOU J., BRUNS M.A., TIEDJE J.M. DNA recovery from soils of diverse composition. Appl. Environ. Microbiol., 62, 316, 1996.
  • 22. OVREASL, TORSVIK V. Microbial diversity and commu nity structure in two different agricultural soil communities. Microb. Ecol, 36, 303, 1998.

Typ dokumentu

Bibliografia

Identyfikatory

Identyfikator YADDA

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