Multiplex amplification of large sets of human exons

Authors:
  • KZKun Zhang
    Kun Zhang
  • JLJin Billy Li
    Jin Billy Li
  • BXBin Xie
    Bin Xie
  • DADerek Austin
    Derek Austin
  • SVSara L Vassallo
    Sara L Vassallo
  • ELEmily M LeProust
    Emily M LeProust
  • BPBill J Peck
    Bill J Peck
  • CEChristopher J Emig
    Christopher J Emig
  • FDFredrik Dahl
    Fredrik Dahl
  • YGYuan Gao
    Yuan Gao
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Abstract
A new generation of technologies is poised to reduce DNA sequencing costs by several orders of magnitude. But our ability to fully leverage the power of these technologies is crippled by the absence of suitable 'front-end' methods for isolating complex subsets of a mammalian genome at a scale that matches the throughput at which these platforms will routinely operate. We show that targeting oligonucleotides released from programmable microarrays can be used to capture and amplify approximately 10,000 human exons in a single multiplex reaction. Additionally, we show integration of this protocol with ultra-high-throughput sequencing for targeted variation discovery. Although the multiplex capture reaction is highly specific, we found that nonuniform capture is a key issue that will need to be resolved by additional optimization. We anticipate that highly multiplexed methods for targeted amplification will enable the comprehensive resequencing of human exons at a fraction of the cost of whole-genome resequencing.

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