As the first author and corresponding author, Qu Wubin, co-founder of iGeneTech, published an article entitled "PCR Primer Design for the Rapidly Evolving SARS-CoV-2 Genome" in the Methods in Molecular Biology series of books "PCR Primer Design (Third Edition)", which was officially launched on November 2021, Nov 14. This is Qu Wubin's next masterpiece after "Selecting Specific PCR Primers with MFEprimer" published in PCR Primer Design (Second Edition) in 2015.
PCR technology is the technical basis for many commonly used novel coronavirus tests, such as rapid detection by real-time quantitative PCR, full-length sequencing and variant tracking by multiplex PCR. Emerging variants brought about by the rapid evolution of the novel coronavirus pose risks to PCR-based detection methods. The key reason is that emerging variants that are located at primer binding sites are highly likely to cause PCR amplification failure. In order to adapt to the rapid evolution of the new coronavirus, ensure the reliability of the test. In this article, Qu Wubin took the new coronavirus as an example and proposed a set of primer design schemes for rapidly mutant species:
SNPs and InDel were identified by comparing and analyzing the sample genome sequence with the reference genome (traditional next-generation analysis idea).
Design primers that avoid mutation sites;
Use a daily updated coronavirus database to check primer coverage;
If new mutations are found at primer binding sites, primers need to be redesigned in time.
Note: This primer design is suitable for rapidly evolving species, but this proportion of variation needs to be limited to a certain proportion that is relevant to the analysis process for analyzing the variation.
Article Information:
Qu W., Li J., Cai H., Zhao D. (2022) PCR Primer Design for the Rapidly Evolving SARS-CoV-2 Genome. In: Basu C. (eds) PCR Primer Design. Methods in Molecular Biology, vol 2392. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-1799-1_14
Qu W., Zhang C. (2015) Selecting Specific PCR Primers with MFEprimer. In: Basu C. (eds) PCR Primer Design. Methods in Molecular Biology, vol 1275. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-2365-6_15
About Qu Wubin:
Qu Wubin, co-founder of iGeneTech, is an internationally renowned primer and probe design expert, who has long been committed to the theoretical modeling of oligonucleotide molecular hybridization characteristics, and the analysis and prediction of PCR primers and probe specificity and sensitivity. He has presided over the National Natural Science Foundation of China project "Computer Simulation of Multiplex PCR Systems", published a number of related SCI papers in this field, with a cumulative impact factor of more than 50, led the publication of the high-throughput primer design monograph "PCR Primer Design" (second and third editions), and the publicly published PCR primer design and evaluation software MFEprimer has been widely used in hundreds of institutions around the world.
iGeneTech has two different sets of new coronavirus full-length detection solutions for hybrid capture and multiplex PCR, which can perform virus sequence mutation analysis, covering all mutant strain species, and is suitable for new crown full-length sequencing, mutation detection, virus traceability and other fields. The relevant kits have obtained the EU IVDD CE certification, and obtained the in vitro diagnostic reagent registration license issued by the Dutch CIBG authority, and obtained the EU access qualification.
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