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Analysis of Oligonucleotide Probe Affinities Using Surface Plasmon Resonance: A Means for Mutational Scanning

✍ Scribed by Björn Persson; Karin Stenhag; Peter Nilsson; Anita Larsson; Mathias Uhlén; Per-Åke Nygren


Publisher
Elsevier Science
Year
1997
Tongue
English
Weight
185 KB
Volume
246
Category
Article
ISSN
0003-2697

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✦ Synopsis


a critical step during nucleic acid amplification by poly-A novel strategy for real-time analysis of oligonuclemerase chain reaction. In recent years much interest otide probe hybridization based on detection by surhas been focused on the development of strategies for face plasmon resonance is described. The design of the gene therapy that basically rely on polynucleotide hyanalysis, exploiting the rapid dissociation kinetics of bridization. The antisense concept is one field of applishort oligonucleotides from their hybridization temcation where probes are used to block specific mRNA plates, allows monitoring in genuine sensor mode of expression (1). The anti-gene approach is a related idea equilibrium hybridization responses, circumventing based on the blocking of regulatory sites on a gene by the need for regeneration between sample cycles. Aptriple helix formation (2). Sequencing by hybridization plied to a model system comprising oligonucleotide (SBH) (3-6) is a strategy for the generation of nucleic probes and different immobilized hybridization taracid sequence information that exploits short synthetic gets the effects of temperature, probe length, and nuoligonucleotide probes that has evolved in response to cleotide substitutions in template were investigated. demands from the Human Genome Project. In SBH, The procedure described was observed to have an efthe information from the interrogation of a DNA target ficient discriminatory power with respect to end-miswith probes is used either for de novo gene sequencing match situations. Affinity determinations of octamer or for the resequencing of known genes for confirmation probes showed good correlation between calculated or detection of mutations. The strategy implies that T m -values and probe affinities. From affinity data collarge numbers of probes can be applied for a multiplex lected at different temperatures thermodynamic paanalysis based on the use of high-density two-dimenrameters were determined, which correlated well with sional oligonucleotide arrays (7,8). Several alternate data obtained from theoretical calculations. The techapproaches have been suggested to create DNA arrays nique, modified to a simplified form, allowed detection of single nucleotide substitutions in a target template, to improve the throughput of the analysis. A fundamensuggesting that procedures for confirmatory DNA se-tal problem of SBH is to achieve high sensitivity and quencing can be envisioned.


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