CRISPR-iPAS: a novel dCAS13-based method for alternative polyadenylation interference
Tian Shuye, Zhang Bin, He Yuhao, Sun Zhiyuan, Li Jun, Li Yisheng, Yi Hongyang, Zhao Yan, Zou Xudong, Li Yunfei, Cui Huanhuan, Fang Liang, Gao Xin, Hu Yuhui, Chen Wei
Journal：NUCLEIC ACIDS RESEARCH
IF：19.16
DOI：10.1093/nar/gkac108
PMID：35191504
Published：2022-02-22
research field：
Abstract
Alternative polyadenylation (APA) plays an important role in gene regulation. With the recent application of novel sequencing technology in APA profiling, an ever-increasing number of APA genes/sites have been identified. However, the phenotypic relevance of most of these APA isoforms remains elusive, which is largely due to the lack of a convenient genetics tool for APA interference. To address this issue, herein, an efficient method is developed based on the CRISPR-dCas13 system, termed as CRISPR-iPAS. Out of eight different dCas13 proteins, Porphyromonas gulae (Pgu) dCas13b, is identified as the most effective one in blocking the usage of the polyadenylation site (PAS). With guide RNAs targeting at core regulatory elements, dPguCas13b enabled APA regulation of endogenous genes with different APA types, including tandem 3′UTR, alternative terminal exon, as well as intronic PAS. Finally, we demonstrated that the proposed APA perturbation tool could be used to investigate the functional relevance of APA isoforms.
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