Design, Modeling and Computational Analysis of crRNA Gene eLF4E1 Involved in Resistance to Potato Y Virus Using Various CRISPR Techniques

Etehadpour, Marzieh

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Etehadpour M. Design, Modeling and Computational Analysis of crRNA Gene eLF4E1 Involved in Resistance to Potato Y Virus Using Various CRISPR Techniques. MGj 2025; 20 (1) : 1
URL: http://mg.genetics.ir/article-1-1878-en.html

Design, Modeling and Computational Analysis of crRNA Gene eLF4E1 Involved in Resistance to Potato Y Virus Using Various CRISPR Techniques

Marzieh Etehadpour ^*

Abstract: (5 Views)

Viruses pose a significant threat to agricultural productivity, and molecular biotechnology offers effective tools for virus prevention and control. Computational tools, particularly those used for modeling and docking, can greatly enhance design precision. This research integrates bioinformatics and CRISPR technologies to design, model, and computationally evaluate crRNA targeting the eIF4E1 gene. Cas enzyme structures were obtained from the RCSB database, and the eIF4E1 gene sequence was retrieved from NCBI. crRNAs targeting the desired gene sequence were designed and assessed using the CHOPCHOP online tool. The three-dimensional structure of the designed crRNA was simulated with the Macromolecule Builder (MMB) server, and the binding mode and energy of crRNA to Cas enzymes were analyzed via the Hdock server. The best-designed crRNA sequence was GTATAGTTCTTGATGCAGTGTGG. The top docking models, selected based on binding energy, indicated that the most specific and effective complex was formed with Cas13b, followed by Cas13d, Cas13a, and Cas9. Thus, precise selection and expression of Cas proteins are crucial for modifying traits or countering RNA viruses in potatoes. The results suggest that Cas13b is the preferred enzyme for trait modification or interference with RNA viruses in potato plants.

Article number: 1

Keywords: Molecular docking, Bioinformatics, CHOPCHOP, CRISPR

Full-Text [PDF 696 kb] (4 Downloads)

Type of Study: Applicable | Subject: Subject 01
Received: 2025/02/25 | Accepted: 2025/09/20 | Published: 2025/10/7