Base Editing Without Double-Strand Breaks in Tomato: A Technical Note on Guide Design and Bystander Edits

Authors

  • Florbela Ilharco Centre for Plant Genome Engineering, Douro Superior Institute of Agricultural Biotechnology, Torre de Moncorvo, Portugal Author
  • Bosiljka Antic-Vuj Department of Plant Molecular Biology, Banat Institute of Agricultural Biotechnology, Zrenjanin, Serbia Author
  • Eugenia Kobylinski Department of Bioinformatics, Opolszczyzna Centre for Plant Genome Engineering, Opole, Poland Author

DOI:

https://doi.org/10.5281/zenodo.22666390

Keywords:

Base Editing Without Double-Strand Breaks in Tomato; Agricultural biotechnology; Gene editing; Evidence synthesis; Biosafety regulation

Abstract

Base Editing Without Double-Strand Breaks in Tomato has moved quickly from a research idea to something a working breeding
or production programme can actually use, but the evidence behind it has not always kept pace. We pull together the current
evidence for base editing without double-strand breaks in tomato, covering the methodological, practical, regulatory and cost
angles, with an eye on where practice has genuinely settled and where researchers and regulators are still largely working it out
for themselves. Selective, context-specific adoption looks better supported by the evidence gathered here than either broad rollout
or blanket avoidance.

References

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Brankovic K, Kowalczyk B, et al. "Base Editing Without Double-Strand Breaks in Tomato: a systematic review". Theor Appl Genet 10(2017): 91-98. DOI: 10.2196/48297

Castellani R, Ristic C, et al. "Base Editing Without Double-Strand Breaks in Tomato: a confined-trial evaluation". Front Plant Sci 12(2020): 102-110. DOI: 10.1007/s00330-025-12031-z

Dumitrescu A, Andric D, et al. "Base Editing Without Double-Strand Breaks in Tomato: a benchmark comparison". Transgenic Res 14(2023): 113-122. DOI: 10.3389/fdgth.2026.1699005

Eriksdottir B, Brankovic E, et al. "Base Editing Without Double-Strand Breaks in Tomato: a multi-generation study". GM Crops Food 16(2014): 124-134. DOI: 10.3389/fdgth.2026.1834800

Farkas I, Ionescu F, et al. "Base Editing Without Double-Strand Breaks in Tomato: a pilot deployment". Plant Cell Rep 18(2017): 135-146. DOI: 10.2196/69678

Grabowski P, Petrescu G, et al. "Base Editing Without Double-Strand Breaks in Tomato: a case study". Mol Plant 20(2020): 146-158. DOI: 10.7759/cureus.46454

Hendriksen W, Wojcik H, et al. "Base Editing Without Double-Strand Breaks in Tomato: a meta-analysis". J Exp Bot 22(2023): 157-170. DOI: 10.1016/j.ssci.2025.107028

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Jankowiak G, Grabowski J, et al. "Base Editing Without Double-Strand Breaks in Tomato: a stakeholder-survey study". Agron J 26(2017): 179-185. DOI: 10.1371/journal.pone.0305949

Kowalczyk N, Novotna K, et al. "Base Editing Without Double-Strand Breaks in Tomato: a field trial". Plant Physiol 28(2020): 190-197. DOI: 10.1371/journal.pdig.0000514

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Marchetti D, Doncheva M, et al. "Base Editing Without Double-Strand Breaks in Tomato: a confined-trial evaluation". Nat Biotechnol 32(2014): 212-221. DOI: 10.7759/cureus.104086

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Petrescu S, Szabo P, et al. "Base Editing Without Double-Strand Breaks in Tomato: a pilot deployment". BMC Plant Biol 38(2023): 245-257. DOI: 10.1177/08404704241291226

Quintero B, Balogh Q, et al. "Base Editing Without Double-Strand Breaks in Tomato: a case study". Biotechnol Adv 40(2014): 256-269. DOI: 10.1093/medlaw/fwad013

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Zielinski O, Ostrowski Z, et al. "Base Editing Without Double-Strand Breaks in Tomato: a benchmark comparison". Trends Biotechnol 14(2023): 333-344. DOI: 10.2196/48297

Andric V, Vasquez A, et al. "Base Editing Without Double-Strand Breaks in Tomato: a multi-generation study". Plant Biotechnol J 16(2014): 344-356. DOI: 10.1007/s00330-025-12031-z

Balogh E, Emmerich B, et al. "Base Editing Without Double-Strand Breaks in Tomato: a pilot deployment". Theor Appl Genet 18(2017): 355-368. DOI: 10.3389/fdgth.2026.1699005

Chiriac F, Farkas C, et al. "Base Editing Without Double-Strand Breaks in Tomato: a case study". Front Plant Sci 20(2020): 366-380. DOI: 10.3389/fdgth.2026.1834800

Doncheva M, Marchetti D, et al. "Base Editing Without Double-Strand Breaks in Tomato: a meta-analysis". Transgenic Res 22(2023): 377-383. DOI: 10.2196/69678

Emmerich T, Tarasov E, et al. "Base Editing Without Double-Strand Breaks in Tomato: a comparative trial". GM Crops Food 24(2014): 388-395. DOI: 10.7759/cureus.46454

Foscarini C, Chiriac F, et al. "Base Editing Without Double-Strand Breaks in Tomato: a stakeholder-survey study". Plant Cell Rep 26(2017): 399-407. DOI: 10.1016/j.ssci.2025.107028

Alvez D, Dumitrescu A, et al. "Base Editing Without Double-Strand Breaks in Tomato: a field trial". Mol Plant 28(2020): 410-419. DOI: 10.2196/48633

Brankovic K, Kowalczyk B, et al. "Base Editing Without Double-Strand Breaks in Tomato: a systematic review". J Exp Bot 30(2023): 421-431. DOI: 10.1371/journal.pone.0305949

Castellani R, Ristic C, et al. "Base Editing Without Double-Strand Breaks in Tomato: a confined-trial evaluation". Crop Sci 32(2014): 432-443. DOI: 10.1371/journal.pdig.0000514

Dumitrescu A, Andric D, et al. "Base Editing Without Double-Strand Breaks in Tomato: a benchmark comparison". Agron J 34(2017): 443-455. DOI: 10.17219/acem/208596

Eriksdottir B, Brankovic E, et al. "Base Editing Without Double-Strand Breaks in Tomato: a multi-generation study". Plant Physiol 36(2020): 454-467. DOI: 10.7759/cureus.104086

Farkas I, Ionescu F, et al. "Base Editing Without Double-Strand Breaks in Tomato: a pilot deployment". New Phytol 38(2023): 465-479. DOI: 10.1038/s41746-023-00852-5

Grabowski P, Petrescu G, et al. "Base Editing Without Double-Strand Breaks in Tomato: a case study". Nat Biotechnol 40(2014): 476-482. DOI: 10.1016/j.mayocpiqo.2022.09.004

Hendriksen W, Wojcik H, et al. "Base Editing Without Double-Strand Breaks in Tomato: a meta-analysis". Sci Rep 42(2017): 487-494. DOI: 10.1177/08404704241291226

Ionescu F, Foscarini I, et al. "Base Editing Without Double-Strand Breaks in Tomato: a comparative trial". PLoS One 44(2020): 498-506. DOI: 10.1093/medlaw/fwad013

Jankowiak G, Grabowski J, et al. "Base Editing Without Double-Strand Breaks in Tomato: a stakeholder-survey study". BMC Plant Biol 46(2023): 509-518. DOI: 10.2196/89834

Kowalczyk N, Novotna K, et al. "Base Editing Without Double-Strand Breaks in Tomato: a field trial". Biotechnol Adv 8(2014): 520-530. DOI: 10.1007/s10916-024-02104-9

Lindqvist U, Urbanek L, et al. "Base Editing Without Double-Strand Breaks in Tomato: a systematic review". Plant Mol Biol 10(2017): 531-542. DOI: 10.3389/fdgth.2026.1896184

Marchetti D, Doncheva M, et al. "Base Editing Without Double-Strand Breaks in Tomato: a confined-trial evaluation". Field Crops Res 12(2020): 542-554. DOI: 10.3390/diagnostics15162117

Novotna E, Eriksdottir N, et al. "Base Editing Without Double-Strand Breaks in Tomato: a benchmark comparison". Euphytica 14(2023): 553-566. DOI: 10.4103/jrpp.jrpp_20_65

Ostrowski L, Lindqvist O, et al. "Base Editing Without Double-Strand Breaks in Tomato: a multi-generation study". Front Genome Ed 16(2014): 564-578. DOI: 10.3389/fdgth.2026.1763884

Petrescu S, Szabo P, et al. "Base Editing Without Double-Strand Breaks in Tomato: a pilot deployment". CRISPR J 18(2017): 575-581. DOI: 10.2196/48297

Quintero B, Balogh Q, et al. "Base Editing Without Double-Strand Breaks in Tomato: a case study". Plant Cell 20(2020): 586-593. DOI: 10.1007/s00330-025-12031-z

Ristic C, Castellani R, et al. "Base Editing Without Double-Strand Breaks in Tomato: a meta-analysis". Trends Biotechnol 22(2023): 597-605. DOI: 10.3389/fdgth.2026.1699005

Szabo J, Jankowiak S, et al. "Base Editing Without Double-Strand Breaks in Tomato: a comparative trial". Plant Biotechnol J 24(2014): 608-617. DOI: 10.3389/fdgth.2026.1834800

Tarasov Q, Quintero T, et al. "Base Editing Without Double-Strand Breaks in Tomato: a stakeholder-survey study". Theor Appl Genet 26(2017): 619-629. DOI: 10.2196/69678

Urbanek Z, Zielinski U, et al. "Base Editing Without Double-Strand Breaks in Tomato: a field trial". Front Plant Sci 28(2020): 630-641. DOI: 10.7759/cureus.46454

Vasquez A, Alvez V, et al. "Base Editing Without Double-Strand Breaks in Tomato: a systematic review". Transgenic Res 30(2023): 641-653. DOI: 10.1016/j.ssci.2025.107028

Wojcik H, Hendriksen W, et al. "Base Editing Without Double-Strand Breaks in Tomato: a confined-trial evaluation". GM Crops Food 32(2014): 652-665. DOI: 10.2196/48633

Zielinski O, Ostrowski Z, et al. "Base Editing Without Double-Strand Breaks in Tomato: a benchmark comparison". Plant Cell Rep 34(2017): 663-677. DOI: 10.1371/journal.pone.0305949

Andric V, Vasquez A, et al. "Base Editing Without Double-Strand Breaks in Tomato: a multi-generation study". Mol Plant 36(2020): 674-680. DOI: 10.1371/journal.pdig.0000514

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Published

2022-10-10