ArticleNature protocols2021
An unbiased method for evaluating the genome-wide specificity of base editors in rice.
Article in Nature protocols, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.
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Who cites it
5 citing papers in PubMed, 21 citations in OpenAlex.
- CRISPR-Cas12a2-Based Multiplexed Diagnostic for Rapid and Highly Sensitive Detection of Respiratory Viruses.Analytical chemistry · 2026Article
- Miniature enOsCas12f1 Enables Targeted Genome Editing in Rice.Plants (Basel, Switzerland) · 2025Article
- Conditional knockdown of OsMLH1 to improve plant prime editing systems without disturbing fertility in rice.Genome biology · 2024Article
- Split complementation of base editors to minimize off-target edits.Nature plants · 2023Article
- Optimized prime editing in monocot plants using PlantPegDesigner and engineered plant prime editors (ePPEs).Nature protocols · 2023Review
Corrections and comments
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Authors and funding
3 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Base editors can achieve targeted genomic base conversion. However, the off-target issue is one of the major concerns in their application. Whole-genome sequencing (WGS) at the individual level can provide direct information on genome-wide specificity, but it is difficult to distinguish true off-target single-nucleotide variants (SNVs) induced by base editors from background variation. Here we describe an unbiased WGS method for evaluating the specificity of base editors in rice. In this protocol, we describe the experimental design and provide details of vector construction, rice transformation and tissue culture, as well as a comprehensive WGS data analysis pipeline for overcoming two related core problems in various plant species: high background mutation rates and the heterogeneity of examined populations. Using this protocol, researchers can straightforwardly and accurately assess the genome-wide specificity of base editors and other genome editing tools in 12-15 weeks.
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