ArticlePlant physiology2016
A Defect in DNA Ligase4 Enhances the Frequency of TALEN-Mediated Targeted Mutagenesis in Rice.
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Article in Plant physiology, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
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25 citing papers in PubMed, 53 citations in OpenAlex.
- A Gemini Virus-Derived Autonomously Replicating System for HDR-Mediated Genome Editing of thePlants (Basel, Switzerland) · 2025Article
- Agrobacterium-Mediated Transformation and Targeted Mutagenesis Using SpCas12f in Rice.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Genetic dissection of mutagenic repair and T-DNA capture at CRISPR-induced DNA breaks inPNAS nexus · 2024Article
- Enhancing the quality of staple food crops through CRISPR/Cas-mediated site-directed mutagenesis.Planta · 2023Review
- A MAPKKK gene from rice, RBG1res, confers resistance to Burkholderia glumae through negative regulation of ABA.Scientific reports · 2023Article
- Precise and heritable gene targeting in rice using a sequential transformation strategy.Cell reports methods · 2023Article
- Comparative analysis of seed and seedling irradiation with gamma rays and carbon ions for mutation induction in Arabidopsis.Frontiers in plant science · 2023Article
- Genome editing by introduction of Cas9/sgRNA into plant cells using temperature-controlled atmospheric pressure plasma.PloS one · 2023Article
- Genome Editing Technology and Its Application to Metabolic Engineering in Rice.Rice (New York, N.Y.) · 2022Review
- XRCC4 and MRE11 Roles and Transcriptional Response to Repair of TALEN-Induced Double-Strand DNA Breaks.International journal of molecular sciences · 2022Article
- Gene Editing Technologies for Sugarcane Improvement: Opportunities and Limitations.Sugar tech : an international journal of sugar crops & related industries · 2022Article
- Targeted DNA insertion in plants.Proceedings of the National Academy of Sciences of the United States of America · 2021Review
- Improvement of the LbCas12a-crRNA System for Efficient Gene Targeting in Tomato.Frontiers in plant science · 2021Article
- Simultaneous TALEN-mediated knockout of chrysanthemum DMC1 genes confers male and female sterility.Scientific reports · 2020Article
- Characterization of gamma irradiation-induced mutations in Arabidopsis mutants deficient in non-homologous end joining.Journal of radiation research · 2020Article
- Targeted deletion of rice retrotransposon Tos17 via CRISPR/Cas9.Plant cell reports · 2019Article
- Plant DNA Repair Pathways and Their Applications in Genome Engineering.Methods in molecular biology (Clifton, N.J.) · 2019Review
- Synthetic genetic circuits in crop plants.Current opinion in biotechnology · 2018Review
- Genome Editing in Rice: Recent Advances, Challenges, and Future Implications.Frontiers in plant science · 2018Review
- DNA Methylation Affects the Efficiency of Transcription Activator-Like Effector Nucleases-Mediated Genome Editing in Rice.Frontiers in plant science · 2017Article
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Authors and funding
12 authors at 3 institutions in 2 countries.
Ayako Nishizawa-YokoiPlant Genome Engineering Research Unit (A.N.-Y., H.S., A.M., S.T.), Rice Applied Genomics Research Unit (T.H., K.S.), and Advanced Genomics Laboratory (M.H., Y.K.), National Institute of Agrobiological Sciences, Tsukuba, Ibaraki 305-8602, Japan;Department of Genetics, Cell Biology, and Development and Center for Genome Engineering, University of Minnesota, Minneapolis, Minnesota 55455 (T.C., C.S., D.F.V.);Center for Collaboration among Agriculture, Industry, and Commerce, University of Tokushima, Tokushima 770-8503, Japan (K.O.); andKihara Institute for Biological Research, Yokohama City University, Yokohama 244-0813, Japan (S.T.).ORCID http://orcid.org/0000-0003-2781-1359
Tomas CermakPlant Genome Engineering Research Unit (A.N.-Y., H.S., A.M., S.T.), Rice Applied Genomics Research Unit (T.H., K.S.), and Advanced Genomics Laboratory (M.H., Y.K.), National Institute of Agrobiological Sciences, Tsukuba, Ibaraki 305-8602, Japan;Department of Genetics, Cell Biology, and Development and Center for Genome Engineering, University of Minnesota, Minneapolis, Minnesota 55455 (T.C., C.S., D.F.V.);Center for Collaboration among Agriculture, Industry, and Commerce, University of Tokushima, Tokushima 770-8503, Japan (K.O.); andKihara Institute for Biological Research, Yokohama City University, Yokohama 244-0813, Japan (S.T.).
Tomoki HoshinoPlant Genome Engineering Research Unit (A.N.-Y., H.S., A.M., S.T.), Rice Applied Genomics Research Unit (T.H., K.S.), and Advanced Genomics Laboratory (M.H., Y.K.), National Institute of Agrobiological Sciences, Tsukuba, Ibaraki 305-8602, Japan;Department of Genetics, Cell Biology, and Development and Center for Genome Engineering, University of Minnesota, Minneapolis, Minnesota 55455 (T.C., C.S., D.F.V.);Center for Collaboration among Agriculture, Industry, and Commerce, University of Tokushima, Tokushima 770-8503, Japan (K.O.); andKihara Institute for Biological Research, Yokohama City University, Yokohama 244-0813, Japan (S.T.).ORCID http://orcid.org/0000-0001-5630-4685
Kazuhiko SugimotoPlant Genome Engineering Research Unit (A.N.-Y., H.S., A.M., S.T.), Rice Applied Genomics Research Unit (T.H., K.S.), and Advanced Genomics Laboratory (M.H., Y.K.), National Institute of Agrobiological Sciences, Tsukuba, Ibaraki 305-8602, Japan;Department of Genetics, Cell Biology, and Development and Center for Genome Engineering, University of Minnesota, Minneapolis, Minnesota 55455 (T.C., C.S., D.F.V.);Center for Collaboration among Agriculture, Industry, and Commerce, University of Tokushima, Tokushima 770-8503, Japan (K.O.); andKihara Institute for Biological Research, Yokohama City University, Yokohama 244-0813, Japan (S.T.).
Hiroaki SaikaPlant Genome Engineering Research Unit (A.N.-Y., H.S., A.M., S.T.), Rice Applied Genomics Research Unit (T.H., K.S.), and Advanced Genomics Laboratory (M.H., Y.K.), National Institute of Agrobiological Sciences, Tsukuba, Ibaraki 305-8602, Japan;Department of Genetics, Cell Biology, and Development and Center for Genome Engineering, University of Minnesota, Minneapolis, Minnesota 55455 (T.C., C.S., D.F.V.);Center for Collaboration among Agriculture, Industry, and Commerce, University of Tokushima, Tokushima 770-8503, Japan (K.O.); andKihara Institute for Biological Research, Yokohama City University, Yokohama 244-0813, Japan (S.T.).
Akiko MoriPlant Genome Engineering Research Unit (A.N.-Y., H.S., A.M., S.T.), Rice Applied Genomics Research Unit (T.H., K.S.), and Advanced Genomics Laboratory (M.H., Y.K.), National Institute of Agrobiological Sciences, Tsukuba, Ibaraki 305-8602, Japan;Department of Genetics, Cell Biology, and Development and Center for Genome Engineering, University of Minnesota, Minneapolis, Minnesota 55455 (T.C., C.S., D.F.V.);Center for Collaboration among Agriculture, Industry, and Commerce, University of Tokushima, Tokushima 770-8503, Japan (K.O.); andKihara Institute for Biological Research, Yokohama City University, Yokohama 244-0813, Japan (S.T.).
Keishi OsakabePlant Genome Engineering Research Unit (A.N.-Y., H.S., A.M., S.T.), Rice Applied Genomics Research Unit (T.H., K.S.), and Advanced Genomics Laboratory (M.H., Y.K.), National Institute of Agrobiological Sciences, Tsukuba, Ibaraki 305-8602, Japan;Department of Genetics, Cell Biology, and Development and Center for Genome Engineering, University of Minnesota, Minneapolis, Minnesota 55455 (T.C., C.S., D.F.V.);Center for Collaboration among Agriculture, Industry, and Commerce, University of Tokushima, Tokushima 770-8503, Japan (K.O.); andKihara Institute for Biological Research, Yokohama City University, Yokohama 244-0813, Japan (S.T.).
Masao HamadaPlant Genome Engineering Research Unit (A.N.-Y., H.S., A.M., S.T.), Rice Applied Genomics Research Unit (T.H., K.S.), and Advanced Genomics Laboratory (M.H., Y.K.), National Institute of Agrobiological Sciences, Tsukuba, Ibaraki 305-8602, Japan;Department of Genetics, Cell Biology, and Development and Center for Genome Engineering, University of Minnesota, Minneapolis, Minnesota 55455 (T.C., C.S., D.F.V.);Center for Collaboration among Agriculture, Industry, and Commerce, University of Tokushima, Tokushima 770-8503, Japan (K.O.); andKihara Institute for Biological Research, Yokohama City University, Yokohama 244-0813, Japan (S.T.).
Yuichi KatayosePlant Genome Engineering Research Unit (A.N.-Y., H.S., A.M., S.T.), Rice Applied Genomics Research Unit (T.H., K.S.), and Advanced Genomics Laboratory (M.H., Y.K.), National Institute of Agrobiological Sciences, Tsukuba, Ibaraki 305-8602, Japan;Department of Genetics, Cell Biology, and Development and Center for Genome Engineering, University of Minnesota, Minneapolis, Minnesota 55455 (T.C., C.S., D.F.V.);Center for Collaboration among Agriculture, Industry, and Commerce, University of Tokushima, Tokushima 770-8503, Japan (K.O.); andKihara Institute for Biological Research, Yokohama City University, Yokohama 244-0813, Japan (S.T.).
Colby StarkerPlant Genome Engineering Research Unit (A.N.-Y., H.S., A.M., S.T.), Rice Applied Genomics Research Unit (T.H., K.S.), and Advanced Genomics Laboratory (M.H., Y.K.), National Institute of Agrobiological Sciences, Tsukuba, Ibaraki 305-8602, Japan;Department of Genetics, Cell Biology, and Development and Center for Genome Engineering, University of Minnesota, Minneapolis, Minnesota 55455 (T.C., C.S., D.F.V.);Center for Collaboration among Agriculture, Industry, and Commerce, University of Tokushima, Tokushima 770-8503, Japan (K.O.); andKihara Institute for Biological Research, Yokohama City University, Yokohama 244-0813, Japan (S.T.).ORCID http://orcid.org/0000-0002-6774-7227
Daniel F VoytasPlant Genome Engineering Research Unit (A.N.-Y., H.S., A.M., S.T.), Rice Applied Genomics Research Unit (T.H., K.S.), and Advanced Genomics Laboratory (M.H., Y.K.), National Institute of Agrobiological Sciences, Tsukuba, Ibaraki 305-8602, Japan;Department of Genetics, Cell Biology, and Development and Center for Genome Engineering, University of Minnesota, Minneapolis, Minnesota 55455 (T.C., C.S., D.F.V.);Center for Collaboration among Agriculture, Industry, and Commerce, University of Tokushima, Tokushima 770-8503, Japan (K.O.); andKihara Institute for Biological Research, Yokohama City University, Yokohama 244-0813, Japan (S.T.).
Seiichi TokiPlant Genome Engineering Research Unit (A.N.-Y., H.S., A.M., S.T.), Rice Applied Genomics Research Unit (T.H., K.S.), and Advanced Genomics Laboratory (M.H., Y.K.), National Institute of Agrobiological Sciences, Tsukuba, Ibaraki 305-8602, Japan;Department of Genetics, Cell Biology, and Development and Center for Genome Engineering, University of Minnesota, Minneapolis, Minnesota 55455 (T.C., C.S., D.F.V.);Center for Collaboration among Agriculture, Industry, and Commerce, University of Tokushima, Tokushima 770-8503, Japan (K.O.); andKihara Institute for Biological Research, Yokohama City University, Yokohama 244-0813, Japan (S.T.) stoki@affrc.go.jp.ORCID http://orcid.org/0000-0003-0066-6446
Institute of Agrobiological Sciences · JPUniversity of Minnesota · USKihara Institute for Biological Research · JP
Funding
No grant is acknowledged in the PubMed record.
Abstract
We have established methods for site-directed mutagenesis via transcription activator-like effector nucleases (TALENs) in the endogenous rice (Oryza sativa) waxy gene and demonstrated stable inheritance of TALEN-induced somatic mutations to the progeny. To analyze the role of classical nonhomologous end joining (cNHEJ) and alternative nonhomologous end joining (altNHEJ) pathways in TALEN-induced mutagenesis in plant cells, we investigated whether a lack of DNA Ligase4 (Lig4) affects the kinetics of TALEN-induced double-strand break repair in rice cells. Deep-sequencing analysis revealed that the frequency of all types of mutations, namely deletion, insertion, combination of insertion with deletion, and substitution, in lig4 null mutant calli was higher than that in a lig4 heterozygous mutant or the wild type. In addition, the ratio of large deletions (greater than 10 bp) and deletions repaired by microhomology-mediated end joining (MMEJ) to total deletion mutations in lig4 null mutant calli was higher than that in the lig4 heterozygous mutant or wild type. Furthermore, almost all insertions (2 bp or greater) were shown to be processed via copy and paste of one or more regions around the TALENs cleavage site and rejoined via MMEJ regardless of genetic background. Taken together, our findings indicate that the dysfunction of cNHEJ leads to a shift in the repair pathway from cNHEJ to altNHEJ or synthesis-dependent strand annealing.
Indexed as
DNA Breaks, Double-StrandedDNA End-Joining RepairDNA LigasesDNA, PlantMutagenesis, Site-DirectedMutationOryzaPlant ProteinsPlants, Genetically ModifiedTranscription Activator-Like Effector NucleasesDNA LigasesDNA, PlantPlant ProteinsTranscription Activator-Like Effector Nucleases
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