Thermodynamic Characterization of Nucleic Acid Nanoparticles Hybridization by UV Melting

Megan Teter; Ross Brumett; Abigail Coffman; Emil F Khisamutdinov

doi:10.1007/978-1-0716-3417-2_9

Thermodynamic Characterization of Nucleic Acid Nanoparticles Hybridization by UV Melting

Methods Mol Biol. 2023:2709:151-161. doi: 10.1007/978-1-0716-3417-2_9.

Authors

Megan Teter¹, Ross Brumett¹, Abigail Coffman¹, Emil F Khisamutdinov²

Affiliations

¹ Chemistry Department, Ball State University, Muncie, IN, USA.
² Chemistry Department, Ball State University, Muncie, IN, USA. kemil@bsu.edu.

PMID: 37572278
DOI: 10.1007/978-1-0716-3417-2_9

Abstract

The advances in nucleic acid nanotechnology have given rise to various elegantly designed structural complexes fabricated from DNA, RNA, chemically modified RNA strands, and their mixtures. The structural properties of NA nanoparticles (NANP) generally dictate and significantly impact biological function; and thus, it is critical to extract information regarding relative stabilities of the different structural forms. The adequate stability assessment requires knowledge of thermodynamic parameters that can be empirically derived using conventional UV-melting technique. The focus of this chapter is to describe methodology to evaluate thermodynamic data of NANPs complexation based on DNA 12 base-pair (bp) duplex formation as an example.

Keywords: DNA nanoparticles; Nucleic acid hybridization; Nucleic acid thermodynamics; RNA nanoparticles; UV melting.

Publication types

Research Support, N.I.H., Extramural

MeSH terms

DNA* / chemistry
Nucleic Acid Conformation
Nucleic Acid Denaturation
Nucleic Acid Hybridization / methods
Nucleic Acids*
RNA / chemistry
Thermodynamics

Substances

DNA
Nucleic Acids
RNA

Grants and funding

R15 EB031388/EB/NIBIB NIH HHS/United States