Critical considerations and computational tools in plant genome editing
Recent advances in genome editing tools and CRISPR-Cas technologies have enabled plant genome engineering reach new heights. The current regulatory exemptions for certain categories of genome edited products, such as those derived from SDN-1 and SDN-2, which are free of any transgene, have significa...
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Elsevier
2025-01-01
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S2405844024171666 |
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| author | Dipnarayan Saha Alok Kumar Panda Subhojit Datta |
| author_facet | Dipnarayan Saha Alok Kumar Panda Subhojit Datta |
| author_sort | Dipnarayan Saha |
| collection | DOAJ |
| description | Recent advances in genome editing tools and CRISPR-Cas technologies have enabled plant genome engineering reach new heights. The current regulatory exemptions for certain categories of genome edited products, such as those derived from SDN-1 and SDN-2, which are free of any transgene, have significantly accelerated genome editing research in a number of agricultural crop plants in different countries. Although CRISPR-Cas technology is becoming increasingly popular, it is still important to carefully consider a number of factors before planning and carrying conducting CRISPR-Cas studies. To attempt genome editing in a plant, a high-quality genome sequence and a repeatable tissue culture protocol for in vitro regeneration are essential. One of the most important steps in plant genome editing is the designing of a CRISPR construct, which involves selecting the appropriate Cas protein, sgRNA sequence, and appropriate regulatory sequence to trigger expression. Computational tools and algorithms play a crucial role in construct design and gRNA selection to minimize off-target effects and also to optimize their delivery techniques. Researchers may need to select appropriate software tools capable of analyzing post-editing detection of mutation events and other DNA sequence abnormalities to identify off-target effects. To fully fulfill the potential of plant genome editing, continued advances in computational biology are essential to meet the challenges it faces today. |
| format | Article |
| id | doaj-art-cbcf6e39a3a14868a7b59d2ecc85bf96 |
| institution | Kabale University |
| issn | 2405-8440 |
| language | English |
| publishDate | 2025-01-01 |
| publisher | Elsevier |
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| series | Heliyon |
| spelling | doaj-art-cbcf6e39a3a14868a7b59d2ecc85bf962025-01-17T04:50:16ZengElsevierHeliyon2405-84402025-01-01111e41135Critical considerations and computational tools in plant genome editingDipnarayan Saha0Alok Kumar Panda1Subhojit Datta2Corresponding author.; Biotechnology Unit, ICAR-Central Research Institute for Jute and Allied Fibres, Barrackpore, Kolkata, West Bengal, 700121, IndiaBiotechnology Unit, ICAR-Central Research Institute for Jute and Allied Fibres, Barrackpore, Kolkata, West Bengal, 700121, IndiaCorresponding author.; Biotechnology Unit, ICAR-Central Research Institute for Jute and Allied Fibres, Barrackpore, Kolkata, West Bengal, 700121, IndiaRecent advances in genome editing tools and CRISPR-Cas technologies have enabled plant genome engineering reach new heights. The current regulatory exemptions for certain categories of genome edited products, such as those derived from SDN-1 and SDN-2, which are free of any transgene, have significantly accelerated genome editing research in a number of agricultural crop plants in different countries. Although CRISPR-Cas technology is becoming increasingly popular, it is still important to carefully consider a number of factors before planning and carrying conducting CRISPR-Cas studies. To attempt genome editing in a plant, a high-quality genome sequence and a repeatable tissue culture protocol for in vitro regeneration are essential. One of the most important steps in plant genome editing is the designing of a CRISPR construct, which involves selecting the appropriate Cas protein, sgRNA sequence, and appropriate regulatory sequence to trigger expression. Computational tools and algorithms play a crucial role in construct design and gRNA selection to minimize off-target effects and also to optimize their delivery techniques. Researchers may need to select appropriate software tools capable of analyzing post-editing detection of mutation events and other DNA sequence abnormalities to identify off-target effects. To fully fulfill the potential of plant genome editing, continued advances in computational biology are essential to meet the challenges it faces today.http://www.sciencedirect.com/science/article/pii/S2405844024171666Computational toolsCRISPR-CasGenome editingPlants |
| spellingShingle | Dipnarayan Saha Alok Kumar Panda Subhojit Datta Critical considerations and computational tools in plant genome editing Heliyon Computational tools CRISPR-Cas Genome editing Plants |
| title | Critical considerations and computational tools in plant genome editing |
| title_full | Critical considerations and computational tools in plant genome editing |
| title_fullStr | Critical considerations and computational tools in plant genome editing |
| title_full_unstemmed | Critical considerations and computational tools in plant genome editing |
| title_short | Critical considerations and computational tools in plant genome editing |
| title_sort | critical considerations and computational tools in plant genome editing |
| topic | Computational tools CRISPR-Cas Genome editing Plants |
| url | http://www.sciencedirect.com/science/article/pii/S2405844024171666 |
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