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CRISPR techniques and potential for the detection and discrimination of SARS-CoV-2 variants of concern.


ABSTRACT: The continuing evolution of the SARS-CoV-2 virus has led to the emergence of many variants, including variants of concern (VOCs). CRISPR-Cas systems have been used to develop techniques for the detection of variants. These techniques have focused on the detection of variant-specific mutations in the spike protein gene of SARS-CoV-2. These sequences mostly carry single-nucleotide mutations and are difficult to differentiate using a single CRISPR-based assay. Here we discuss the specificity of the Cas9, Cas12, and Cas13 systems, important considerations of mutation sites, design of guide RNA, and recent progress in CRISPR-based assays for SARS-CoV-2 variants. Strategies for discriminating single-nucleotide mutations include optimizing the position of mismatches, modifying nucleotides in the guide RNA, and using two guide RNAs to recognize the specific mutation sequence and a conservative sequence. Further research is needed to confront challenges in the detection and differentiation of variants and sublineages of SARS-CoV-2 in clinical diagnostic and point-of-care applications.

SUBMITTER: Xiao H 

PROVIDER: S-EPMC9977466 | biostudies-literature | 2023 Apr

REPOSITORIES: biostudies-literature

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CRISPR techniques and potential for the detection and discrimination of SARS-CoV-2 variants of concern.

Xiao Huyan H   Hu Jianyu J   Huang Camille C   Feng Wei W   Liu Yanming Y   Kumblathan Teresa T   Tao Jeffrey J   Xu Jingyang J   Le X Chris XC   Zhang Hongquan H  

Trends in analytical chemistry : TRAC 20230302


The continuing evolution of the SARS-CoV-2 virus has led to the emergence of many variants, including variants of concern (VOCs). CRISPR-Cas systems have been used to develop techniques for the detection of variants. These techniques have focused on the detection of variant-specific mutations in the spike protein gene of SARS-CoV-2. These sequences mostly carry single-nucleotide mutations and are difficult to differentiate using a single CRISPR-based assay. Here we discuss the specificity of the  ...[more]

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