4.6 Article

Genomic and Temporal Analysis of Deletions Correlated to qRT-PCR Dropout in N Gene in Alpha, Delta and Omicron Variants

期刊

VIRUSES-BASEL
卷 15, 期 8, 页码 -

出版社

MDPI
DOI: 10.3390/v15081630

关键词

WG-NGS; SARS-CoV-2; deletions; gene dropout; N gene

类别

向作者/读者索取更多资源

Since the first SARS-CoV-2 outbreak, mutations have changed the viral genome sequence, structure, and protein folding, leading to the onset of new variants. These alterations challenge both the clinical field and diagnostic demand due to detection failures and incomplete PCR results. Analyzing understudied genes such as N and investigating regions prone to mutation through WG-NGS can help identify new or reacquired mutations for designing robust primers.
Since the first SARS-CoV-2 outbreak, mutations such as single nucleotide polymorphisms (SNPs) and insertion/deletions (INDELs) have changed and characterized the viral genome sequence, structure and protein folding leading to the onset of new variants. The presence of those alterations challenges not only the clinical field but also the diagnostic demand due to failures in gene detection or incompleteness of polymerase chain reaction (PCR) results. In particular, the analysis of understudied genes such as N and the investigation through whole-genome next generation sequencing (WG-NGS) of regions more prone to mutate can help in the identification of new or reacquired mutations, with the aim of designing robust and long-lasting primers. In 48 samples of SARS-CoV-2 (including Alpha, Delta and Omicron variants), a lack of N gene amplification was observed in the genomes analyzed through WG-NGS. Three gene regions were detected hosting the highest number of SNPs and INDELs. In several cases, the latter can interfere deeply with both the sensitivity of diagnostic methodologies and the final protein folding. The monitoring over time of the viral evolution and the reacquisition among different variants of the same mutations or different alterations within the same genomic positions can be relevant to avoid unnecessary consumption of resources.

作者

我是这篇论文的作者
点击您的名字以认领此论文并将其添加到您的个人资料中。

评论

主要评分

4.6
评分不足

次要评分

新颖性
-
重要性
-
科学严谨性
-
评价这篇论文

推荐

暂无数据
暂无数据