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Development of an ultra-efficient prime editing system in tomato
Tien Van Vu1, Ngan Thi Nguyen2, Jihae Kim2
1Division of Applied Life Science (BK21 Four Program), Plant Molecular Biology and Biotechnology Research Center, Gyeongsang National University, Jinju, Republic of Korea. tienvu.agi@gmail.com.
Nature Communications
|January 12, 2026
Summary
We developed an ultra-efficient prime editing (UtPE) system for dicot plants, significantly boosting genome editing efficiency and enabling precise modifications. This breakthrough overcomes previous limitations, paving the way for advanced plant genetic engineering.
Area of Science:
- Plant biotechnology
- Genome editing technologies
- Molecular biology
Background:
- Prime editing (PE) offers precise genome modification without double-strand breaks.
- Previous PE applications in dicots were limited by low efficiency, locus dependence, and poor heritability.
Purpose of the Study:
- To develop an ultra-efficient prime editing (UtPE) system for enhanced genome editing in dicot plants.
- To overcome the limitations of existing prime editing tools in dicots.
Main Methods:
- Integration of evolved PE6 variants (PE6c, PE6ec), altered pegRNA (aepegRNA), RNA chaperone, and a geminiviral replicon.
- Application of the UtPE system in tomato plants for both simple and complex edits.
- Utilized UtPEv1 for unstructured RTTs and UtPEv3 for structured RTTs or multiple nucleotide changes.
Main Results:
- UtPE significantly enhanced editing efficiency (3.39-8.89 fold increase) compared to PE2max.
- Achieved 16.0% desired editing efficiency in calli and high-frequency edits in up to 87.5% of T0 plants.
- Enabled editing at previously inaccessible sites, multiplexed editing at three loci, and stable T1 inheritance, conferring traits like jointless pedicels and glyphosate resistance with minimized off-target effects.
Conclusions:
- The developed UtPE system represents a significant advancement for precise genome editing in dicot plants.
- UtPE overcomes key limitations, offering high efficiency, broad applicability, and stable inheritance for trait development.
- This technology holds great promise for accelerating genetic engineering and crop improvement in dicots.
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