Title

Synthesis of High-Quality Libraries of Long (150 mer) Oligonucleotides by a Novel Depurination Controlled Process

Editors

Synthesis of High-Quality Libraries of Long (150 mer) Oligonucleotides by a Novel Depurination Controlled Process

Document Type

Article

Publication Date

Spring 5-2010

Publication Title

Nucleic Acids Research

ISSN

0305-1048

Volume

38

Issue

8

First Page

2522

Last Page

2540

DOI

10.1093/nar/gkq163

Abstract

We have achieved the ability to synthesize thousands of unique, long oligonucleotides (150mers) in fmol amounts using parallel synthesis of DNA on microarrays. The sequence accuracy of the oligonucleotides in such large-scale syntheses has been limited by the yields and side reactions of the DNA synthesis process used. While there has been significant demand for libraries of long oligos (150mer and more), the yields in conventional DNA synthesis and the associated side reactions have previously limited the availability of oligonucleotide pools to lengthsassays, we show that the depurination side reaction is the limiting factor for the synthesis of libraries of long oligonucleotides on Agilent Technologies’ SurePrint® DNA microarray platform. We also demonstrate how depurination can be controlled and reduced by a novel detritylation process to enable the synthesis of high quality, long (150mer) oligonucleotide libraries and we report the characterization of synthesis efficiency for such libraries. Oligonucleotide libraries prepared with this method have changed the economics and availability of several existing applications (e.g. targeted resequencing, preparation of shRNA libraries, site-directed mutagenesis), and have the potential to enable even more novel applications (e.g. high-complexity synthetic biology).

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