Cited by 529CRISPR and Genetic EngineeringGenetically Modified Organisms ResearchRNA regulation and disease

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CRISPR/Cas System: Recent Advances and Future Prospects for Genome Editing

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Manghwar, Hakim, Lindsey, Keith, Zhang, Xianlong, Jin, Shuangxia·2019·Trends in Plant Science

DOI 10.1016/j.tplants.2019.09.006

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Abstract

Genome editing (GE) has revolutionized biological research through the new ability to precisely edit the genomes of living organisms. In recent years, various GE tools have been explored for editing simple and complex genomes. The clustered regularly interspaced short palindromic repeats (CRISPR)/Cas9 system has widely been used in GE due to its high efficiency, ease of use, and accuracy. It can be used to add desirable and remove undesirable alleles simultaneously in a single event. Here, we discuss various applications of CRISPR/Cas9 in a range of important crops, compare it with other GE tools, and review its mechanism, limitations, and future possibilities. Various newly emerging CRISPR/Cas systems, including base editing (BE), xCas9, and Cas12a (Cpf1), are also considered.

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BackgroundMethodInfluential
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Method
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Background
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Background
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BackgroundInfluential
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Establishment of a Rapid and Efficient Method for the Detection of Avian Reovirus Based on RT-RAA-CRISPR/Cas12a Technology
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“Recent advances in CRISPR-Cas systems have revolutionized nucleic acid diagnostics by enabling sequence-specific recognition and collateral cleavage activity [24].”
Exploiting Salmonella typhimurium as a novel cancer therapeutic agent: from tumor colonization to metabolic engineering
Farmer, S., Francis, O., & Goyal, N. (2025) · World Journal of Microbiology and Biotechnology · doi:10.1007/s11274-025-04716-w · Cited by 2
“These metabolites may serve as either anticancer molecules or precursors for the synthesis CRISPR-Cpf1 (Cas12a), CRISPR-Cas13, and newer variants, are also gaining attention for their unique properties and potential applications (Manghwar et al. 2019).”
Establishment of a CRISPR/Cas9-Based Genome Editing System in Macrobrachium rosenbergii
Yan, J., Qian, S., Li, G., Liu, Y., Zhou, L., Ye, T., Liu, C., Meng, J., Jie, Y., & Gu, Z. (2025) · Animals · doi:10.3390/ani16010013 · Cited by 2
“By harnessing this naturally occurring defense mechanism, researchers have developed the CRISPR/Cas9 system into a powerful and versatile genome-editing platform capable of precise genetic modification across diverse organisms [16,17].”
Plant-Derived Proteins and Their Interactions with Microorganisms: Interactions, Applications, and Innovations
Tyagi, J., Mishra, A., Padhy, A., Bisht, R. R., Shukla, S., & Agnihotri, R. K. (2026) · Springer eBooks · doi:10.1007/978-981-95-3823-2_2 · Cited by 2
Advances in Mutation Breeding: Harnessing Induced Variability for Fruit Crop Improvement Through in Vitro Mutagenesis
Gaikwad, P. N., Chintale, Y. S., & Sidhu, G. S. (2026) · Journal of Plant Growth Regulation · doi:10.1007/s00344-025-12002-0 · Cited by 2
Advances in hydrogel-mediated gene therapy in ophthalmology: future directions and therapeutic potential
Zhang, Q., Yan, K., Lv, Y., Tao, T., Wu, S., Yang, Z., Ma, L., Huang, C., Liu, Q., Han, Y., et al. (2026) · Regenerative Biomaterials · doi:10.1093/rb/rbag041 · Cited by 2
Molecular mechanisms of seasonal adaptation in perennial trees: Implications for biotechnology-driven breeding
Ge, Y., Duan, R., Lin, J. F., & Li, R. A. (2026) · Industrial Crops and Products · doi:10.1016/j.indcrop.2026.123009 · Cited by 2
CRISPR/Cas9 ribonucleoprotein-mediated knockout of Gly m 4-L1 eliminates allergen accumulation in soybean
Chatani, S., Kuwabara, C., Hibara, M., Kazahaya, S., Tange, A., Tamamoto, Y., Hirata, T., Fukutomi, Y., Maruyama, N., & Yamada, T. (2026) · Frontiers in Plant Science · doi:10.3389/fpls.2026.1739979 · Cited by 2
Nanoparticle-based biosensor integrated with CRISPR/Cas12b platform for sensitive and visual identification of hepatitis B virus pregenomic RNA in chronic hepatitis B patients
Chen, X., Qin, Y., Dong, S., Jia, C., Li, Y., Liu, Y., Zhao, Q., & Zhou, Q. (2026) · BMC Microbiology · doi:10.1186/s12866-026-04900-4 · Cited by 2
“The Cas effector proteins are guided by a pre-CRISPR RNA (crRNA) or a gRNA to execute precise cleavage at the specified location [43].”
Machine Learning-Assisted Portable Ai BOX Based on RPA-CRISPR/Cas12a for Rapid On-Site Detection of Foodborne Pathogens
Song, R., Yin, C., Chen, B., Qu, B., Qiao, W., Li, R., Gao, Y., & Song, X. (2026) · Analytical Chemistry · doi:10.1021/acs.analchem.6c00303 · Cited by 2
From mechanism to medicine: CRISPR‒Cas9 delivery strategies, therapeutic applications and translation challenges
Makhijani, S., Alasiri, G. A., Quadri, M. S. A., & Ingle, R. G. (2026) · Discover Nano · doi:10.1186/s11671-026-04653-z · Cited by 4
Development of a multifunctional nucleic acid response platform utilizing the Cas12a and Cas13a integrated targeting system
Zhou, J., Liu, W. T., Nie, X., Wang, X., Hu, Y., Wan, C., Liao, Y., & Pan, S. (2026) · Nucleic Acids Research · doi:10.1093/nar/gkag567 · Cited by 2
Advances in CRISPR-based molecular biosensing: from pathogen detection to early tumor screening
Tang, Z., Yan, S., Xu, S., Gao, W., Mao, X., Liu, J., & Chen, Z. (2026) · Journal of Translational Genetics and Genomics · doi:10.20517/jtgg.2025.151 · Cited by 2
Nongenetic engineering nanozyme proximity labeling reveals subcellular in situ interactomes and trafficking pathways of nanoparticles
Jiang, C., Fu, Y., Jin, B., Gao, R., Li, W., Wang, Z., Huang, H., Zhuang, Z., Dai, Y., Ji, J., et al. (2026) · Proceedings of the National Academy of Sciences · doi:10.1073/pnas.2521555123 · Cited by 2
Cloning and Functional Verification of Endogenous U6 Promoters for the Establishment of Efficient CRISPR/Cas9-Based Genome Editing in Castor (Ricinus communis)
Kanai, M., Hikino, K., & Mano, S. (2023) · Genes · doi:10.3390/genes14071327 · Cited by 2
“Genome editing in plants differs from that in animals; since it is difficult to inject gRNA and Cas9 nuclease into egg cells in plants, unlike in animals, the CRISPR/Cas9 cassette is introduced into the plant genome [9,13,32].”
Background
Tracking footprints of CRISPR-based genome editing
Ahmad, A., Munir, A., Zafar, H., Zahoor, M. K., Hassan, S., & Khan, S. H. (2024) · Elsevier eBooks · doi:10.1016/b978-0-443-18444-4.00018-1 · Cited by 2
Genome-Editing Technologies in Crop Improvement
Das, R., Kumar, P., Agrawal, S., Singh, K., Singh, N., Singh, S., Singh, A. K., Rajput, V. D., Shukla, P. K., Minkina, T., et al. (2024) · Interdisciplinary biotechnological advances · doi:10.1007/978-981-99-9338-3_4 · Cited by 2
Application of an endogenous pGhαGloA promoter in the CRISPR/Cas12a system for efficient genome editing to create glandless cotton germplasm
Li, C., Tuerxun, Z., Yang, Y., Li, X., Hui, F., Li, J., Liu, Z., Chen, G., Cai, D., Zhang, H., et al. (2024) · Journal of Integrative Agriculture · doi:10.1016/j.jia.2024.09.011 · Cited by 2
Genome-Wide Profiling of Abiotic Stress-Responsive Non-coding RNAs
Misra, V., & Mall, A. K. (2025) · Concepts and strategies in plant sciences · doi:10.1007/978-981-96-9859-2_7 · Cited by 2
Enhancing efficiency and precision in CRISPR genome editing for plants using computational tools
SOGALAD, M. S., Ushakiran, B., & Kumar, V. D. (2024) · Journal of Oilseeds Research · doi:10.56739/baqa6j43 · Cited by 2
Using of Genome Editing Methods in Plant Breeding
Камбурова, В. С., Salakhutdinov, I. B., Shermatov, S. E., & Abdurakhmonov, I. Y. (2021) · IntechOpen eBooks · doi:10.5772/intechopen.96431 · Cited by 2
Role of CRISPR/Cas system in altering phenolic and carotenoid biosynthesis in plants defense activation
Saurabh, S., & Prasad, D. (2021) · Elsevier eBooks · doi:10.1016/b978-0-12-821910-2.00022-9 · Cited by 2
Genome Editing in Polyploid Brassica Crops
Varghese, M., Malhotra, B., & Bisht, N. C. (2022) · Compendium of plant genomes · doi:10.1007/978-3-030-91507-0_25 · Cited by 2
ACUMULACIÓN DE TRANSGENES EN EL MAÍZ NATIVO DE MÉXICO Y POSIBLES CONSECUENCIAS
Yamakake, T. A. K. (2021) · Revista Fitotecnia Mexicana · doi:10.35196/rfm.2021.3.293 · Cited by 4
Biohacking the Food Chain: Using CRISPR to Combat the Global Food Crisis
Straiton, J. (2022) · BioTechniques · doi:10.2144/btn-2022-0102 · Cited by 2
Potential of Molecular Plant Breeding for Sustaining the Global Food Security
Mahajan, R., & Kapoor, N. (2023) · Biosciences Biotechnology Research Asia · doi:10.13005/bbra/3072 · Cited by 2
Application of CRISPR/Cas system in optimizing nutrients and anti-nutrients content in fruits
Biswas, P., Ghorai, M., Nandy, S., Nongdam, P., Pandey, D. K., Dwivedi, P., Shekhawat, M. S., & Dey, A. (2023) · Vegetos · doi:10.1007/s42535-023-00652-y · Cited by 2
“The technique involves introducing DNA mutations into target sequences, such as insertions or deletions, or base substitutions, to alter their sequence (Manghwar et al. 2019).”
基因组编辑技术在水稻产量和品质改良中的应用及展望
Wenchen, T., Shuainan, L., Gu, X., Yi, C., Liang, G., Zhang, C., & Zhou, Y. (2024) · Chinese Science Bulletin (Chinese Version) · doi:10.1360/tb-2023-1124 · Cited by 2
Role of Nanotechnology in the Advancement in Genome Editing in Plants
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Nanochemistry: A Multidisplinary Approach towards Innovations in Agriculture Soils and Improved Yields
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Genetic Improvement of Mustard for Food and Health Security
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Can CRISPR/CAS Help Fight Multidrug Resistance (MDR) Bacterial Infections?
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Transgenic and Genome-Edited Maize: Status and Prospect
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PFOS-Induced Perturbations in Trophoblast Functions through the Oip5os1/miR-155/Rnd3 Axis in PE
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Current Status and Advances in Loquat Genomics: From Genome Mapping to Molecular Breeding
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‘Emerging cell-specific therapies in cardiovascular disease’
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A rapid and visual detection method for porcine deltacoronavirus with single-copy sensitivity based on the CRISPR/Cas12a assay
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Harnessing Nanotechnology for Enhanced CRISPR-Cas Plant Genome Editing
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Engineering a High-Fidelity MAD7 Variant with Enhanced Specificity for Precision Genome Editing via CcdB-Based Bacterial Screening
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Authors: Manghwar, H., Lindsey, K., Zhang, X., & Jin, S.
Affiliations: Huazhong Agricultural University (CN)
Durham University (GB)
Corresponding author: Zhang, Xianlong
Jin, Shuangxia
ORCID: Manghwar, Hakim
Lindsey, Keith
Zhang, Xianlong
Jin, Shuangxia
Venue: Trends in Plant Science
Publisher: Elsevier BV
Published: 2019-12
Volume: 24
Issue: 12
Pages: 1102-1125
ISSN: 1360-1385 (ISSN-L)
DOI: 10.1016/j.tplants.2019.09.006
OpenAlex: W2984281074
Cited by: 529
References: 140
Citations by year: 2026: 49 · 2025: 84 · 2024: 94 · 2023: 91 · 2022: 76 · 2021: 91 · 2020: 43
FWCI: 4.65
Type: journal article
Language: en
Open access: hybrid
doi.org
Licence: cc-by-nc-nd
www.elsevier.com/tdm/userlicense/1.0/ (tdm)
www.elsevier.com/legal/tdmrep-license (tdm)
creativecommons.org/licenses/by-nc-nd/4.0/ (vor)
Locations: Trends in Plant Science (publishedVersion, cc-by-nc-nd)
PubMed (publishedVersion)
Durham Research Online (Durham University) (publishedVersion, other-oa)
Durham Research Online (Durham University) (acceptedVersion, other-oa)
Durham Research Online (Durham University) (submittedVersion, cc-by-nc-nd)
Funders: Ministry of Science and Technology of the People's Republic of China
Topics: Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › CRISPR and Genetic Engineering
Life Sciences › Agricultural and Biological Sciences › Plant Science › Genetically Modified Organisms Research
Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA regulation and disease
Keywords: CRISPR/Cas9, genome editing, base editing, genome editing tools
MeSH terms: Gene Editing, Crops, Agricultural, Clustered Regularly Interspaced Short Palindromic Repeats, CRISPR-Cas Systems

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CRISPR/Cas System: Recent Advances and Future Prospects for Genome Editing

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