Key Features to Improve CRISPR sgRNA Efficacy
Mr. Mounesh K Arkachari1,Sannidhi Deepak Shetty2 , Sathwik Prabhu2,Shankar C Akashore2 ,Shivaraj2
1Professor, ISE, Alva’s Institute of Engineering & Technology, Moodbidri ,India
2Student, ISE, Alva’s Institute of Engineering & Technology, Moodbidri ,India
Abstract:
The CRISPR-Cas9 system has revolutionized genome editing by enabling precise and efficient modification of genetic sequences. However, the efficacy and specificity of this system largely depend on the design and optimization of single guide RNA (sgRNA). Effective sgRNA design requires consideration of several factors, including sequence specificity, GC content, secondary structure formation, and proximity to the protospacer adjacent motif (PAM). These factors influence the binding stability of the sgRNA to the target DNA and the cleavage efficiency of the Cas9 protein. Additionally, minimizing off-target effects is crucial for ensuring the precision of genome editing. This can be achieved through the use of computational tools to predict potential off-target sites, optimization of sgRNA length, and employing engineered Cas9 variants such as high-fidelity Cas9 (HiFi-Cas9) and Cas9-HF1, which offer improved specificity. Experimental factors, including the delivery method of the CRISPR components and the choice of the Cas protein variant, also play a critical role in determining overall efficacy. Advances in understanding the biophysical and biochemical interactions of sgRNA, along with continuous improvements in computational prediction tools and Cas9 engineering, have significantly enhanced the reliability and scope of CRISPR applications. This review provides an in-depth discussion of the critical features influencing sgRNA efficacy and highlights emerging strategies to optimize CRISPR-Cas9-based genome editing for research and therapeutic purposes.
Keywords : CRISPR-Cas9, genome editing, single guide RNA (sgRNA), sequence specificity, GC content, secondary structure, protospacer adjacent motif (PAM), off-target effects, computational tools, sgRNA optimization, high-fidelity Cas9 (HiFi-Cas9), Cas9-HF1, Cas protein variants
