Solution-Phase Study of the Deprotection and Depurination Rates of Protected Nucleotides

Over the past decade, DNA chip technology has gained increased importance, particularly in medical research. Phosphoramidite chemistry is one method that is used to synthesize oligonucleotide probes on DNA chips. While this method allows for high coupling efficiency, the growing oligonucleotide is subject to depurination during the acidic synthesis steps. We studied the effect of different acid/solvent combinations on the rates of deprotection and depurination in solution. We used the difference between the amounts of deprotection and depurination to determine the best combination. Combinations resulting in lower amounts of available hydrogen ions were found to give the best results.

By: Melanie McNeil; Anjali Srivastava; Phillip Brock; Gregory M. Wallraff; Leanna E. Kinsey; Sally Swanson

Published in: RJ10366 in 2005


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