JBC Biosymposia, Inc.

HOME HELP FEEDBACK SUBSCRIPTIONS ARCHIVE SEARCH
QUICK SEARCH:   [advanced]


     

A more recent version of this article appeared on June 9, 2000
This Article
Right arrow Full Text (Accepted Manuscript)
Right arrow All Versions of this Article:
275/24/18382    most recent
M910272199v1
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Download to citation manager
Right arrow reprints & permissions
Citing Articles
Right arrow Citing Articles via HighWire
Right arrow Citing Articles via Google Scholar
Google Scholar
Right arrow Articles by Hartenstine, M. J
Right arrow Articles by Petruska, J.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Hartenstine, M. J
Right arrow Articles by Petruska, J.
Social Bookmarking
Add to CiteULike   Add to Complore   Add to Connotea   Add to Del.icio.us   Add to Digg   Add to Reddit   Add to Technorati  
What's this?

Papers In Press, published online ahead of print April 3, 2000
J. Biol. Chem, 10.1074/jbc.M910272199
Submitted on December 23, 1999
Revised on March 29, 2000
Accepted on April 2, 2000

Base Stacking and Even/Odd Behavior of Hairpin Loops in DNA Triplet Repeat Sequences Undergoing Slippage and Expansion with DNA Polymerase

Michael J Hartenstine, Myron F Goodman, and John Petruska

Biological Sciences and Chemistry, University of Southern California, Los Angeles, CA 90089-1340

Corresponding Author: mgoodman{at}mizar.usc.edu

Repetitions of CAG or CTG triplets in DNA can form intrastrand hairpin loops with combinations of normal and mismatched basepairs that easily rearrange. Such loops may promote primer/template slippage in DNA replication or repair to give triplet-repeat expansions like those associated with neurodegenerative diseases. Using self-priming sequences, e.g., (CAG)16(CTG)4, we resolve all hairpin loops formed and measure their slippage and expansion rates with DNA polymerase at 37 oC. Comparing CAG/CTG loop structures with GAC/GTC structures, having similar H-bonding but different base stacking, we find CAG, CTG and GTC triplets predominantly form even-membered loops that slip in steps of 2 triplets, whereas GAC triplets favor odd-numbered loops. Slippage rates decline as hairpin stability increases, supporting idea that slippage is easier in less stable regions. Loop stabilities (in low salt) increase in order GTCCAGªGAC>CTG. Loops of GTC compared to CTG melt 9 oC lower and slip 6-fold faster. We interpret results in terms of base stacking, by relating melting temperature to standard enthalpy changes for doublets of basepairs and mispairs, on basis of enthalpy-entropy compensation.


Add to CiteULike CiteULike   Add to Complore Complore   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us   Add to Digg Digg   Add to Reddit Reddit   Add to Technorati Technorati    What's this?


This article has been cited by other articles:


Home page
 Nucleic Acids ResHome page
S. Amrane, B. Sacca, M. Mills, M. Chauhan, H. H. Klump, and J.-L. Mergny
Length-dependent energetics of (CTG)n and (CAG)n trinucleotide repeats
Nucleic Acids Res., July 21, 2005; 33(13): 4065 - 4077.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
L. M. Chi and S. L. Lam
Structural roles of CTG repeats in slippage expansion during DNA replication
Nucleic Acids Res., March 14, 2005; 33(5): 1604 - 1617.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
L. H. Mochmann and R. D. Wells
Transcription influences the types of deletion and expansion products in an orientation-dependent manner from GAC*GTC repeats
Nucleic Acids Res., August 18, 2004; 32(15): 4469 - 4479.
[Abstract] [Full Text] [PDF]

Home page
 Genome ResHome page
M. S. Taylor, C. P. Ponting, and R. R. Copley
Occurrence and Consequences of Coding Sequence Insertions and Deletions in Mammalian Genomes
Genome Res., April 1, 2004; 14(4): 555 - 566.
[Abstract] [Full Text] [PDF]

Home page
 J. Biol. Chem.Home page
J. Veeraraghavan, M. L. Rossi, and R. A. Bambara
Analysis of DNA Replication Intermediates Suggests Mechanisms of Repeat Sequence Expansion
J. Biol. Chem., October 31, 2003; 278(44): 42854 - 42866.
[Abstract] [Full Text] [PDF]

Home page
 Clin. Chem.Home page
T. Bonk, A. Humeny, J. Gebert, C. Sutter, M. v. K. Doeberitz, and C.-M. Becker
Matrix-assisted Laser Desorption/Ionization Time-of-Flight Mass Spectrometry-based Detection of Microsatellite Instabilities in Coding DNA Sequences: A Novel Approach to Identify DNA-Mismatch Repair-deficient Cancer Cells
Clin. Chem., April 1, 2003; 49(4): 552 - 561.
[Abstract] [Full Text] [PDF]

Home page
 Proc. Natl. Acad. Sci. USAHome page
J. Volker, N. Makube, G. E. Plum, H. H. Klump, and K. J. Breslauer
Conformational energetics of stable and metastable states formed by DNA triplet repeat oligonucleotides: Implications for triplet expansion diseases
PNAS, November 12, 2002; 99(23): 14700 - 14705.
[Abstract] [Full Text] [PDF]

Home page
 J. Biol. Chem.Home page
M. J. Hartenstine, M. F. Goodman, and J. Petruska
Weak Strand Displacement Activity Enables Human DNA Polymerase beta to Expand CAG/CTG Triplet Repeats at Strand Breaks
J. Biol. Chem., October 25, 2002; 277(44): 41379 - 41389.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
C. E. Pearson, M. Tam, Y.-H. Wang, S. E. Montgomery, A. C. Dar, J. D. Cleary, and K. Nichol
Slipped-strand DNAs formed by long (CAG){middle dot}(CTG) repeats: slipped-out repeats and slip-out junctions
Nucleic Acids Res., October 15, 2002; 30(20): 4534 - 4547.
[Abstract] [Full Text] [PDF]


HOME HELP FEEDBACK SUBSCRIPTIONS ARCHIVE SEARCH
 All ASBMB Journals   Molecular and Cellular Proteomics 
 Journal of Lipid Research   ASBMB Today 
Copyright © 2000 by the American Society for Biochemistry and Molecular Biology.