Izmir University of Economics, Faculty of Engineering, Department of Biomedical Engineering, Izmir, Turkey.
Kocaeli University, Faculty of Medicine, Clinical Laboratory, PCR Unit, Kocaeli, Turkey; Turkish Republic of Northern Cyprus.
J Virol Methods. 2021 Jul;293:114146. doi: 10.1016/j.jviromet.2021.114146. Epub 2021 Apr 1.
While the whole genomic sequence of SARS-CoV-2 had been revealed, it was also demonstrated that the genome of SARS-CoV-2 exhibits identity with the genome of SARS-CoV and MERS-CoV with ratios of 80 % and 50 % respectively. In the light of SARS-CoV-2 infection and mortality data, diagnosis and treatment of COVID-19 came into prominence around the world. As such many RT-PCR kits have been developed by biotechnology scientists. However viruses are fast mutating organisms and in order to increase accuracy, feasibility in long term and avoid the off target results of RT-PCR assays, regions of viral genome with low mutation rate and designing of primers targeting these regions are quite important. In this scope, we are presenting a novel algorithm that could be used for finding low mutation rate regions of SARS-CoV-2 and primers that were designed according to findings from our algorithm in this study.
虽然 SARS-CoV-2 的全基因组序列已经被揭示，但也表明 SARS-CoV-2 的基因组与 SARS-CoV 和 MERS-CoV 的基因组分别具有 80%和 50%的同源性。鉴于 SARS-CoV-2 的感染和死亡率数据，COVID-19 的诊断和治疗在全球范围内变得突出。因此，许多生物技术科学家已经开发出了 RT-PCR 试剂盒。然而，病毒是快速变异的生物体，为了提高准确性、长期可行性并避免 RT-PCR 检测的非特异性结果，具有低突变率的病毒基因组区域和针对这些区域的引物设计非常重要。在这方面，我们提出了一种新的算法，可用于寻找 SARS-CoV-2 的低突变率区域，并根据我们在这项研究中的算法发现设计引物。
