Xia Han, Zhang Zhe, Luo Chen, Wei Kangfei, Li Xuming, Mu Xiyu, Duan Meilin, Zhu Chuanlong, Jin Luyi, He Xiaoqing, Tang Lingjie, Hu Long, Guan Yuanlin, Lam David C C, Yang Junbo
School of Automation Science and Engineering, Faculty of Electronic and Information Engineering Xi'an Jiaotong University Xi'an China.
MOE Key Lab for Intelligent Networks & Networks Security, Faculty of Electronic and Information Engineering Xi'an Jiaotong University Xi'an China.
Imeta. 2023 Oct 19;2(4):e143. doi: 10.1002/imt2.143. eCollection 2023 Nov.
We present multiPrime, a novel tool that automatically designs minimal primer sets for targeted next-generation sequencing, tailored to specific microbiomes or genes. MultiPrime enhances primer coverage by designing primers with mismatch tolerance and ensures both high compatibility and specificity. We evaluated the performance of multiPrime using a data set of 43,016 sequences from eight viruses. Our results demonstrated that multiPrime outperformed conventional tools, and the primer set designed by multiPrime successfully amplified the target amplicons. Furthermore, we expanded the application of multiPrime to 30 types of viruses and validated the work efficacy of multiPrime-designed primers in 80 clinical specimens. The subsequent sequencing outcomes from these primers indicated a sensitivity of 94% and a specificity of 89%.
我们展示了multiPrime，这是一种新颖的工具，可针对特定微生物群或基因自动设计用于靶向新一代测序的最小引物集。MultiPrime通过设计具有错配耐受性的引物来提高引物覆盖率，并确保高兼容性和特异性。我们使用来自八种病毒的43,016个序列的数据集评估了multiPrime的性能。我们的结果表明，multiPrime优于传统工具，并且由multiPrime设计的引物集成功扩增了目标扩增子。此外，我们将multiPrime的应用扩展到30种病毒，并在80个临床标本中验证了multiPrime设计的引物的工作效率。这些引物随后的测序结果显示敏感性为94%，特异性为89%。
