Exonucleases

Larry A. McReynolds1, Nicole M. Nichols1

1 New England Biolabs, Ipswich, Massachusetts
Publication Name:  Current Protocols in Molecular Biology
Unit Number:  Unit 3.11
DOI:  10.1002/0471142727.mb0311s96
Online Posting Date:  October, 2011
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Abstract

Reaction conditions for numerous exonucleases are detailed in this unit along with discussions of potential applications and preferred substrates. Single‐stranded and double‐stranded 5′ → 3′ and 3′ → 5′ exonucleases are included. Curr. Protoc. Mol. Biol. 96:3.11.1‐3.11.7. © 2011 by John Wiley & Sons, Inc.

Keywords: DNases; ssDNA exonucleases; dsDNA exonucleases

     
 
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Table of Contents

  • Introduction
  • Single‐Stranded 3′ → 5′ Exonucleases
  • Single‐Stranded 5′ → 3′ and 3′ → 5′ Exonucleases
  • Double‐Stranded 5′ → 3′ Exonucleases
  • Double‐Stranded 3′ → 5′ Exonuclease
  • Single‐ and Double‐Stranded 5′ → 3′ and 3′ → 5′ Exonuclease
  • Literature Cited
  • Figures
  • Tables
     
 
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Materials

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Figures

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Literature Cited

Literature Cited
   Berk, A.J. and Sharp, P.A. 1977. Sizing and mapping of early adenovirus mRNAs by gel electrophoresis of S1 endonuclease digested hybrids. Cell 12:721‐732.
   Demple, B., Johnson, A., and Fung, D. 1986. Exonuclease III and endonuclease IV remove 3′ blocks from DNA synthesis primers in H2 O2‐damaged Escherichia coli. Proc. Natl. Acad. Sci. U.S.A. 83:7731‐7735.
   Eichler, D.C. and Lehman, I.R. 1977. On the role of ATP in phosphodiester bond hydrolysis catalyzed by the recBC deoxyribonuclease of Esherichia coli. J. Biol. Chem. 252:499‐503.
   Goff, S. and Berg, P. 1978. Excision of DNA segments introduced into cloning vectors by the poly(dA‐dT) joining method. Proc. Natl. Acad. Sci. U.S.A. 75:1763‐1767.
   Henikoff, S. 1984. Unidirectional digestion with exonuclease III creates targeted breakpoints for DNA sequencing. Gene 28:351‐359.
   Karu, A., MacKay, V., Goldmark, P., and Linn, S. 1973. The recBC deoxyribonuclease of Escherichia coli K‐12. Substrate specificity and reaction intermediates. J. Biol. Chem. 248:4874‐4884.
   Kerr, C. and Sadowski, P.D. 1972. Gene 6 exonuclease of bacteriophage T7. I. Purification and properties of the enzyme. J. Biol. Chem. 247:305‐310.
   Krishnakumar, S., Zheng, J., Wilhelmy, J., Faham, M., Mindrinos, M., and Davis, R. 2008. A comprehensive assay for targeted multiplex amplification of human DNA sequences. Proc. Natl. Acad Sci. U.S.A. 105:9296‐9301.
   Lehman, I.R. and Nussbaum, A.L. 1964. The deoxyribonucleases of Escherichia coli V. on the specificity of exonuclease I (phosphodiesterase). J. Biol. Chem. 239:26‐28.
   Li, H., Cui, X. and Arnheim, N. 1991. Eliminating primers from completed polymerase chain reactions with exonuclease VII. Nucleic Acids Res. 19:3139‐3141.
   Little, J.W. 1981. Lambda exonuclease. In Gene Amplification and Analysis, Vol. 2: Structural analysis of nucleic acids ( J.G. Chirikjian and T.S. Papas, eds.) pp. 135‐145. Elsevier/North Holland, NY, Amsterdam, Oxford.
   Rogers, S.G. and Weiss, B. 1980. Exonuclease III of Escherichia coli K‐12, an AP exonuclease. Methods Enzymol. 65:201‐211.
   Sanger, F., Nicklen, S., and Coulson, A.R. 1977. DNA sequencing with chain‐terminating inhibitors. Proc. Natl. Acad. Sci. U.S.A. 74:5463‐5467.
   Thomas, K.R. and Olivera, B.M. 1978. Processivity of DNA exonucleases. J. Biol. Chem. 253:424‐429.
   Vales, L.D., Rabin, B.A., and Chase, J.W. 1982. Subunit structure of Escherichia coli exonuclease VII. J. Biol. Chem. 257:8799‐8805.
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