合成基因的计算优化DNA组装
Computationally Optimised DNA Assembly of synthetic genes.
作者信息
Larsen Liza S Z, Wassman Christopher D, Hatfield G Wesley, Lathrop Richard H
机构信息
CODA Genomics Inc., Laguna Hills, CA 92653, USA.
出版信息
Int J Bioinform Res Appl. 2008;4(3):324-36. doi: 10.1504/IJBRA.2008.019578.
Abstract
Gene synthesis is hampered by two obstacles: improper assembly of oligonucleotides; oligonucleotide defects incurred during chemical synthesis. To overcome the first problem, we describe the employment of a Computationally Optimised DNA Assembly (CODA) algorithm that uses the degeneracy of the genetic code to design overlapping oligonucleotides with thermodynamic properties for self-assembly into a single, linear, DNA product. To address the second problem, we describe a hierarchical assembly strategy that reduces the incorporation of defective oligonucleotides into full-length gene constructs. The CODA algorithm and these biological methods enable fast, simple and reliable assemblies of sequence-correct full-length genes.
摘要
基因合成受到两个障碍的阻碍
寡核苷酸组装不当；化学合成过程中产生的寡核苷酸缺陷。为了克服第一个问题，我们描述了一种计算优化的DNA组装（CODA）算法的应用，该算法利用遗传密码的简并性来设计具有热力学性质的重叠寡核苷酸，以便自组装成单一的线性DNA产物。为了解决第二个问题，我们描述了一种分层组装策略，该策略可减少有缺陷的寡核苷酸掺入全长基因构建体中。CODA算法和这些生物学方法能够实现序列正确的全长基因的快速、简单且可靠的组装。
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