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PMID: 9465037 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

A unified view of polymer, dumbbell, and oligonucleotide DNA nearest-neighbor thermodynamics.

Proceedings of the National Academy of Sciences of the United States of America ·Vol. 95 ·No. 4 ·1998-02-17 ·Pages 1460-5

SantaLucia J

Abstract

A unified view of polymer, dumbbell, and oligonucleotide nearest-neighbor (NN) thermodynamics is presented. DNA NN DeltaG degrees 37 parameters from seven laboratories are presented in the same format so that careful comparisons can be made. The seven studies used data from natural polymers, synthetic polymers, oligonucleotide dumbbells, and oligonucleotide duplexes to derive NN parameters; used different methods of data analysis; used different salt concentrations; and presented the NN thermodynamics in different formats. As a result of these differences, there has been much confusion regarding the NN thermodynamics of DNA polymers and oligomers. Herein I show that six of the studies are actually in remarkable agreement with one another and explanations are provided in cases where discrepancies remain. Further, a single set of parameters, derived from 108 oligonucleotide duplexes, adequately describes polymer and oligomer thermodynamics. Empirical salt dependencies are also derived for oligonucleotides and polymers.

MeSH Terms
DNA/chemistry Entropy Models, Biological Nucleic Acid Conformation Nucleic Acid Denaturation Oligodeoxyribonucleotides/chemistry Polymers Thermodynamics
Chemicals
Oligodeoxyribonucleotides Polymers DNA
Authors & Affiliations
1 authors, click to expand affiliations / ORCID
SantaLucia J
Department of Chemistry, Wayne State University, Detroit, MI 48202, USA. [email protected]
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Article Info
Journal
Proceedings of the National Academy of Sciences of the United States of America
Abbr.
Proc Natl Acad Sci U S A
ISSN
0027-8424
DOI
10.1073/pnas.95.4.1460
Email
[email protected]
Published
1998-02-17
Pages
1460-5
Language
English
Region
United States
NLM ID
7505876
PMCID
PMC19045
Subset
IM
External Links
PubMed source DOI: 10.1073/pnas.95.4.1460 PMC Full Text View journal details
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