CRISPR-Cas9 Applications in Gene Therapy: Advances, Challenges, and Future Perspectives
DOI:
https://doi.org/10.64229/4r4mbv88Keywords:
CRISPR, CRISPR-Cas9, Gene therapy, Precision medicine, Base and prime editing, Genome editingAbstract
CRISPR-Cas9 has rapidly emerged as a gold standard for accurate genome editing, which boasts remarkable potential for human therapies. This brief review article summarizes the most up-to-date developments in CRISPR-Cas9 gene therapy with a focus on single-gene disorders such as sickle cell disease, β-thalassemia, and Leber congenital amaurosis. We explain how Cas9 generates a double-stranded break in DNA and how subsequent repair leads to gene correction. We describe base and prime editing methods that raise precision and drastically reduce off-target effects. Still, one of the most significant challenges in the therapeutic context is the delivery of the editing machinery to the desired cells. There are many approaches under investigation, such as the use of adeno-associated viral vectors, lipid nanoparticles or electroporation, which are being evaluated for their efficacy, safety, and their ability to home in on the right tissue. Immunogenicity, undesired mutations, and long-term genetic stability remain major concerns. Besides the technical concerns, we also go over the ethical and legal issues, such as the germline gene editing, equitable access, and informed consent, which emphasize the whole world perspective on responsible use. Eventually, the therapeutic scope of CRISPR-Cas9 may be expanded by joining forces with RNA-targeting technologies, epigenetic modulators, and AI-based design software. Despite the hurdles, CRISPR-Cas9 is expected to revolutionize the field of precision medicine, thereby providing extraordinary possibilities for safe and efficacious genome-based medical interventions.
References
[1]Uddin F, Rudin CM, Sen T. CRISPR gene therapy: Applications, limitations, and implications for the future. Frontiers in Oncology, 2020, 10, 1387. DOI: 10.3389/fonc.2020.01387
[2]Karimi MA, Paryan M, Behrouzian Fard G, Sadeghian H, Zarrinfar H, Hosseini Bafghi M. Challenges and opportunities in the application of CRISPR-Cas9: A review on genomic editing and therapeutic potentials. Medical Principles and Practice, 2025, 35(1):1-17. DOI: 10.1159/000547334
[3]Hryhorowicz M, Lipiński D, Zeyland J, Słomski R. CRISPR/Cas9 immune system as a tool for genome engineering. Archivum Immunologiae et Therapiae Experimentalis, 2017, 65(3), 233-240. DOI: 10.1007/s00005-016-0427-5
[4]Zischewski J, Fischer R, Bortesi L. Detection of on-target and off-target mutations generated by CRISPR/Cas9 and other sequence-specific nucleases. Biotechnology Advances, 2017, 35(1), 95-104. DOI: 10.1016/j.biotechadv.2016.12.003
[5]Ahmed R, Alghamdi WN, Alharbi FR, Alatawi HD, Alenezi KM, Alanazi TF, et al. CRISPR/Cas9 system as a promising therapy in thalassemia and sickle cell disease: A systematic review of clinical trials. Molecular Biotechnology, 2026, 68(1):23-32. DOI: 10.1007/s12033-025-01368-x
[6]Daniel-Moreno A, Lamsfus-Calle A, Raju J, Antony JS, Handgretinger R, Mezger M. CRISPR/Cas9-modified hematopoietic stem cells__present and future perspectives for stem cell transplantation. Bone Marrow Transplantation, 2019, 54(12), 1940-1950. DOI: 10.1038/s41409-019-0510-8
[7]Matre PR, Mu X, Wu J, Danila D, Hall MA, Kolonin MG, et al. CRISPR/Cas9-based dystrophin restoration reveals a novel role for dystrophin in bioenergetics and stress resistance of muscle progenitors. Stem Cells, 2019, 37(12), 1615-1628. DOI: 10.1002/stem.3094
[8]Ball J, Bradley A, Le A, Tisdale JF, Uchida N. Hematopoietic stem cell therapy with gene modification to treat sickle cell disease. Stem Cells Translational Medicine, 2025, 14(9), szaf042. DOI: 10.1093/stcltm/szaf042
[9]Kantor A, McClements ME, MacLaren RE. CRISPR-Cas9 DNA base-editing and prime-editing. International Journal of Molecular Sciences, 2020, 21(17), 6240. DOI: 10.3390/ijms21176240
[10]Kim J-S, Chen J. Base editing of organellar DNA with programmable deaminases. Nature Reviews Molecular Cell Biology, 2024, 25(1), 34-45. DOI: 10.1038/s41580-023-00663-2
[11]Chen PJ, Liu DR. Prime editing for precise and highly versatile genome manipulation. Nature Reviews Genetics, 2023, 24(3), 161-177. DOI: 10.1038/s41576-022-00541-1
[12]Molla KA, Sretenovic S, Bansal KC, Qi Y. Precise plant genome editing using base editors and prime editors. Nature Plants, 2021, 7(9), 1166-1187. DOI: 10.1038/s41477-021-00991-1
[13]Asmamaw Mengstie M, Teshome Azezew M, Asmamaw Dejenie T, Teshome AA, Tadele Admasu F, Behaile Teklemariam A, et al. Recent advancements in reducing the off-target effect of CRISPR-Cas9 genome editing. Biologics: Targets and Therapy, 2024, 21-28. DOI: 10.2147/BTT.S429411
[14]Kalter N, Fuster-García C, Silva A, Ronco-Díaz V, Roncelli S, Turchiano G, et al. Off-target effects in CRISPR-Cas genome editing for human therapeutics: Progress and challenges. Molecular Therapy Nucleic Acids, 2025, 36(3):102636. DOI: 10.1016/j.omtn.2025.102636
[15]Saber Sichani A, Ranjbar M, Baneshi M, Torabi Zadeh F, Fallahi J. A review on advanced CRISPR-based genome-editing tools: Base editing and prime editing. Molecular Biotechnology, 2023, 65(6), 849-860. DOI: 10.1007/s12033-022-00639-1
[16]Zhang Y, Nishiyama T, Olson EN, Bassel-Duby R. CRISPR/Cas correction of muscular dystrophies. Experimental Cell Research, 2021, 408(1), 112844. DOI: 10.1016/j.yexcr.2021.112844
[17]Khalid S. Crispr-cas9 applications in treating monogenic disorders: Promise and perils. Journal of Health, Medical Research and Innovations, 2024, 2(3), 157-165.
[18]Ou X, Ma Q, Yin W, Ma X, He Z. CRISPR/Cas9 gene-editing in cancer immunotherapy: Promoting the present revolution in cancer therapy and exploring more. Frontiers in Cell and Developmental Biology, 2021, 9, 674467. DOI: 10.3389/fcell.2021.674467
[19]Kaupbayeva B, Tsoy A, Safarova Y, Nurmagambetova A, Murata H, Matyjaszewski K, et al. Unlocking genome editing: Advances and obstacles in CRISPR/Cas delivery technologies. Journal of Functional Biomaterials, 2024, 15(11), 324. DOI: 10.3390/jfb15110324
[20]Wei T, Cheng Q, Farbiak L, Anderson DG, Langer R, Siegwart DJ. Delivery of tissue-targeted scalpels: Opportunities and challenges for in vivo CRISPR/Cas-based genome editing. ACS Nano, 2020, 14(8), 9243-9262. DOI: 10.1021/acsnano.0c04707
[21]D’SOUZA R, MathEw M, SuRapanEni KM. A scoping review on the ethical issues in the use of CRISPR-Cas9 in the creation of human disease models. Journal of Clinical & Diagnostic Research, 2023, 17(12), JE01-JE08. DOI: 10.7860/JCDR/2023/68275.18809
[22]Zou Y, Li Y, Tao Y. Regulatory framework of human germline and heritable genome editing in China: A comparison with the United States and the United Kingdom. Journal of Law and the Biosciences, 2025, 12(1), lsaf007. DOI: 10.1093/jlb/lsaf007
[23]Heinrich AC. Regulating CRISPR. The Promise and Peril of CRISPR, 2024.
[24]Musazzi UM, Rocco P, Manellari S, Azari S, Pompilio G, Minghetti P. Back to gene therapy: Bringing the EU regulation into the future. Drug Discovery Today, 2025, 104424. DOI: 10.1016/j.drudis.2025.104424
[25]Wang L, Shang L, Zhang W. Human genome editing after the “CRISPR babies”: The double-pacing problem and collaborative governance. Journal of Biosafety and Biosecurity, 2023, 5(1), 8-13. DOI: 10.1016/j.jobb.2022.12.003
[26]van der Meer H. Commercial implications of CRISPR technology: Opportunities and ethical challenges. Journal of Commercial Biotechnology, 2025, 30(3), 292-302. DOI: 10.5912/jcb2628
[27]Ghaffari S, Khalili N, Rezaei N. CRISPR/Cas9 revitalizes adoptive T-cell therapy for cancer immunotherapy. Journal of Experimental & Clinical Cancer Research, 2021, 40(1), 269. DOI: 10.1186/s13046-021-02076-5
[28]Rahimi A, Sameei P, Mousavi S, Ghaderi K, Hassani A, Hassani S, et al. Application of CRISPR/Cas9 system in the treatment of Alzheimer’s disease and neurodegenerative diseases. Molecular Neurobiology, 2024, 61(11), 9416-9431. DOI: 10.1007/s12035-024-04143-2
[29]Ebrahimi-Khezrabad S, Aghdasia M, Zare-Zardini H, Eslami H, Eskandari F. CRISPR-Cas9-loaded lipid nanoparticles: A promising strategy for targeted gene editing and therapy. BioNanoScience, 2025, 15(3), 476. DOI: 10.1007/s12668-025-02094-z
[30]Singh M, Bindal G, Misra CS, Rath D. The era of Cas12 and Cas13 CRISPR-based disease diagnosis. Critical Reviews in Microbiology, 2022, 48(6), 714-729. DOI: 10.1080/1040841X.2021.2025041
[31]Sherkatghanad Z, Abdar M, Charlier J, Makarenkov V. Using traditional machine learning and deep learning methods for on-and off-target prediction in CRISPR/Cas9: A review. Briefings in Bioinformatics, 2023, 24(3), bbad131. DOI: 10.1093/bib/bbad131
[32]Chen Y, Ping Y. Development of CRISPR/Cas delivery systems for in vivo precision genome editing. Accounts of Chemical Research, 2023, 56(16), 2185-2196. DOI: 10.1021/acs.accounts.3c00279
[33]Hong A. CRISPR in personalized medicine: Industry perspectives in gene editing. Seminars in perinatology. 2018, 42(8), 501-507. DOI: 10.1053/j.semperi.2018.09.008
[34]Chanchal DK, Chaudhary JS, Kumar P, Agnihotri N, Porwal P. CRISPR-based therapies: Revolutionizing drug development and precision medicine. Current Gene Therapy, 2024, 24(3), 193-207. DOI: 10.2174/0115665232275754231204072320
[35]Kumar AV, Garg VK, Buttar HS, Harnessing CRISPR/Cas systems for tailored therapeutic interventions in molecular medicine: Advancements in precision medicine and enhanced patient care. Molecular Medicine and Biomedical Research in the Era of Precision Medicine. 2025, 397-425. DOI: 10.1016/B978-0-443-22300-6.00044-9
[36]Nasir R. Developing CRISPR-based therapies for genetic diseases: Clinical trials and regulatory challenges. Indus Journal of Agriculture and Biology, 2025, 4(01), 13-26.
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