ArticlePlant physiology2014
Hairy root transformation using Agrobacterium rhizogenes as a tool for exploring cell type-specific gene expression and function using tomato as a model.
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Article in Plant physiology, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 161 papers.
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161citing papers in PubMed
11.5field-weighted citation impact, top 1% of its field
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161 citing papers in PubMed, 380 citations in OpenAlex.
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- A Rapid Hairy Root-Based Platform for CRISPR/Cas Optimization and Guide RNA Validation in Lettuce.Plants (Basel, Switzerland) · 2026Article
- A rapid Agrobacterium rhizogenes-mediated transient expression for assessing sgRNA efficiency in CRISPR-Act3.0 in tomato.Plant cell reports · 2026Article
- High-efficiency genome-editing, transgene evaluation, and antimicrobial efficacy testing using Citrus medica L. hairy roots.The Plant journal : for cell and molecular biology · 2026Article
- Rhizobium rhizogenes A4-derived strains mediate hyper-efficient transient gene expression in Nicotiana benthamiana and other solanaceous plants.Plant biotechnology journal · 2026Article
- CRISPR/Cas9-Targeted Gene Editing of Allergenic Profilin-EncodingPlants (Basel, Switzerland) · 2025Article
- Transcription factors SlMYB41, SlMYB92, and SlWRKY71 regulate gene expression in the tomato exodermis.Journal of experimental botany · 2025Article
- Allelic value in gene regulation-implications for gene editing.Annals of botany · 2025Article
- Production, Delivery, and Regulatory Aspects for Application of Plant-Based Anti-microbial Peptides: a Comprehensive Review.Probiotics and antimicrobial proteins · 2025Review
- Tissue-Specific Expression Analysis and Functional Validation ofPlants (Basel, Switzerland) · 2025Article
- Cross-Activity Analysis of CRISPR/Cas9 Editing in Gene Families ofCurrent issues in molecular biology · 2025Article
- Enzymatic twists evolved stereo-divergent alkaloids in the Solanaceae family.Nature communications · 2025Article
- Harnessing Transient Expression Systems with Plant Viral Vectors for the Production of Biopharmaceuticals inInternational journal of molecular sciences · 2025Review
101 more citing papers are in PubMed but not listed here.
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Authors and funding
15 authors at 5 institutions in 3 countries.
Mily RonDepartment of Plant Biology (M.R., K.K., K.Z., J.G., S.W., H.M., S.I., N.S., S.M.B.) and Genome Center (M.R., K.K., J.G., S.W., H.M., S.I., S.M.B.), University of California, Davis, California 95616;Center for Plant Cell Biology, Botany and Plant Sciences Department, University of California, Riverside, California 92521 (G.P., M.A.R., J.B.-S.);Department of Biology, Emory University, Atlanta, Georgia 30322 (D.W., R.B.D.);Department of Integrated Genetics, National Institute of Genetics, Mishima 411-8540, Japan (S.I.); andDepartment of Plant Sciences, University of Cambridge, Cambridge CB2 3EA, United Kingdom (F.F.).
Kaisa KajalaDepartment of Plant Biology (M.R., K.K., K.Z., J.G., S.W., H.M., S.I., N.S., S.M.B.) and Genome Center (M.R., K.K., J.G., S.W., H.M., S.I., S.M.B.), University of California, Davis, California 95616;Center for Plant Cell Biology, Botany and Plant Sciences Department, University of California, Riverside, California 92521 (G.P., M.A.R., J.B.-S.);Department of Biology, Emory University, Atlanta, Georgia 30322 (D.W., R.B.D.);Department of Integrated Genetics, National Institute of Genetics, Mishima 411-8540, Japan (S.I.); andDepartment of Plant Sciences, University of Cambridge, Cambridge CB2 3EA, United Kingdom (F.F.).
Germain PauluzziDepartment of Plant Biology (M.R., K.K., K.Z., J.G., S.W., H.M., S.I., N.S., S.M.B.) and Genome Center (M.R., K.K., J.G., S.W., H.M., S.I., S.M.B.), University of California, Davis, California 95616;Center for Plant Cell Biology, Botany and Plant Sciences Department, University of California, Riverside, California 92521 (G.P., M.A.R., J.B.-S.);Department of Biology, Emory University, Atlanta, Georgia 30322 (D.W., R.B.D.);Department of Integrated Genetics, National Institute of Genetics, Mishima 411-8540, Japan (S.I.); andDepartment of Plant Sciences, University of Cambridge, Cambridge CB2 3EA, United Kingdom (F.F.).
Dongxue WangDepartment of Plant Biology (M.R., K.K., K.Z., J.G., S.W., H.M., S.I., N.S., S.M.B.) and Genome Center (M.R., K.K., J.G., S.W., H.M., S.I., S.M.B.), University of California, Davis, California 95616;Center for Plant Cell Biology, Botany and Plant Sciences Department, University of California, Riverside, California 92521 (G.P., M.A.R., J.B.-S.);Department of Biology, Emory University, Atlanta, Georgia 30322 (D.W., R.B.D.);Department of Integrated Genetics, National Institute of Genetics, Mishima 411-8540, Japan (S.I.); andDepartment of Plant Sciences, University of Cambridge, Cambridge CB2 3EA, United Kingdom (F.F.).
Mauricio A ReynosoDepartment of Plant Biology (M.R., K.K., K.Z., J.G., S.W., H.M., S.I., N.S., S.M.B.) and Genome Center (M.R., K.K., J.G., S.W., H.M., S.I., S.M.B.), University of California, Davis, California 95616;Center for Plant Cell Biology, Botany and Plant Sciences Department, University of California, Riverside, California 92521 (G.P., M.A.R., J.B.-S.);Department of Biology, Emory University, Atlanta, Georgia 30322 (D.W., R.B.D.);Department of Integrated Genetics, National Institute of Genetics, Mishima 411-8540, Japan (S.I.); andDepartment of Plant Sciences, University of Cambridge, Cambridge CB2 3EA, United Kingdom (F.F.).
Kristina ZumsteinDepartment of Plant Biology (M.R., K.K., K.Z., J.G., S.W., H.M., S.I., N.S., S.M.B.) and Genome Center (M.R., K.K., J.G., S.W., H.M., S.I., S.M.B.), University of California, Davis, California 95616;Center for Plant Cell Biology, Botany and Plant Sciences Department, University of California, Riverside, California 92521 (G.P., M.A.R., J.B.-S.);Department of Biology, Emory University, Atlanta, Georgia 30322 (D.W., R.B.D.);Department of Integrated Genetics, National Institute of Genetics, Mishima 411-8540, Japan (S.I.); andDepartment of Plant Sciences, University of Cambridge, Cambridge CB2 3EA, United Kingdom (F.F.).
Jasmine GarchaDepartment of Plant Biology (M.R., K.K., K.Z., J.G., S.W., H.M., S.I., N.S., S.M.B.) and Genome Center (M.R., K.K., J.G., S.W., H.M., S.I., S.M.B.), University of California, Davis, California 95616;Center for Plant Cell Biology, Botany and Plant Sciences Department, University of California, Riverside, California 92521 (G.P., M.A.R., J.B.-S.);Department of Biology, Emory University, Atlanta, Georgia 30322 (D.W., R.B.D.);Department of Integrated Genetics, National Institute of Genetics, Mishima 411-8540, Japan (S.I.); andDepartment of Plant Sciences, University of Cambridge, Cambridge CB2 3EA, United Kingdom (F.F.).
Sonja WinteDepartment of Plant Biology (M.R., K.K., K.Z., J.G., S.W., H.M., S.I., N.S., S.M.B.) and Genome Center (M.R., K.K., J.G., S.W., H.M., S.I., S.M.B.), University of California, Davis, California 95616;Center for Plant Cell Biology, Botany and Plant Sciences Department, University of California, Riverside, California 92521 (G.P., M.A.R., J.B.-S.);Department of Biology, Emory University, Atlanta, Georgia 30322 (D.W., R.B.D.);Department of Integrated Genetics, National Institute of Genetics, Mishima 411-8540, Japan (S.I.); andDepartment of Plant Sciences, University of Cambridge, Cambridge CB2 3EA, United Kingdom (F.F.).
Helen MassonDepartment of Plant Biology (M.R., K.K., K.Z., J.G., S.W., H.M., S.I., N.S., S.M.B.) and Genome Center (M.R., K.K., J.G., S.W., H.M., S.I., S.M.B.), University of California, Davis, California 95616;Center for Plant Cell Biology, Botany and Plant Sciences Department, University of California, Riverside, California 92521 (G.P., M.A.R., J.B.-S.);Department of Biology, Emory University, Atlanta, Georgia 30322 (D.W., R.B.D.);Department of Integrated Genetics, National Institute of Genetics, Mishima 411-8540, Japan (S.I.); andDepartment of Plant Sciences, University of Cambridge, Cambridge CB2 3EA, United Kingdom (F.F.).
Soichi InagakiDepartment of Plant Biology (M.R., K.K., K.Z., J.G., S.W., H.M., S.I., N.S., S.M.B.) and Genome Center (M.R., K.K., J.G., S.W., H.M., S.I., S.M.B.), University of California, Davis, California 95616;Center for Plant Cell Biology, Botany and Plant Sciences Department, University of California, Riverside, California 92521 (G.P., M.A.R., J.B.-S.);Department of Biology, Emory University, Atlanta, Georgia 30322 (D.W., R.B.D.);Department of Integrated Genetics, National Institute of Genetics, Mishima 411-8540, Japan (S.I.); andDepartment of Plant Sciences, University of Cambridge, Cambridge CB2 3EA, United Kingdom (F.F.).
Fernán FedericiDepartment of Plant Biology (M.R., K.K., K.Z., J.G., S.W., H.M., S.I., N.S., S.M.B.) and Genome Center (M.R., K.K., J.G., S.W., H.M., S.I., S.M.B.), University of California, Davis, California 95616;Center for Plant Cell Biology, Botany and Plant Sciences Department, University of California, Riverside, California 92521 (G.P., M.A.R., J.B.-S.);Department of Biology, Emory University, Atlanta, Georgia 30322 (D.W., R.B.D.);Department of Integrated Genetics, National Institute of Genetics, Mishima 411-8540, Japan (S.I.); andDepartment of Plant Sciences, University of Cambridge, Cambridge CB2 3EA, United Kingdom (F.F.).
Neelima SinhaDepartment of Plant Biology (M.R., K.K., K.Z., J.G., S.W., H.M., S.I., N.S., S.M.B.) and Genome Center (M.R., K.K., J.G., S.W., H.M., S.I., S.M.B.), University of California, Davis, California 95616;Center for Plant Cell Biology, Botany and Plant Sciences Department, University of California, Riverside, California 92521 (G.P., M.A.R., J.B.-S.);Department of Biology, Emory University, Atlanta, Georgia 30322 (D.W., R.B.D.);Department of Integrated Genetics, National Institute of Genetics, Mishima 411-8540, Japan (S.I.); andDepartment of Plant Sciences, University of Cambridge, Cambridge CB2 3EA, United Kingdom (F.F.).
Roger B DealDepartment of Plant Biology (M.R., K.K., K.Z., J.G., S.W., H.M., S.I., N.S., S.M.B.) and Genome Center (M.R., K.K., J.G., S.W., H.M., S.I., S.M.B.), University of California, Davis, California 95616;Center for Plant Cell Biology, Botany and Plant Sciences Department, University of California, Riverside, California 92521 (G.P., M.A.R., J.B.-S.);Department of Biology, Emory University, Atlanta, Georgia 30322 (D.W., R.B.D.);Department of Integrated Genetics, National Institute of Genetics, Mishima 411-8540, Japan (S.I.); andDepartment of Plant Sciences, University of Cambridge, Cambridge CB2 3EA, United Kingdom (F.F.).
Julia Bailey-SerresDepartment of Plant Biology (M.R., K.K., K.Z., J.G., S.W., H.M., S.I., N.S., S.M.B.) and Genome Center (M.R., K.K., J.G., S.W., H.M., S.I., S.M.B.), University of California, Davis, California 95616;Center for Plant Cell Biology, Botany and Plant Sciences Department, University of California, Riverside, California 92521 (G.P., M.A.R., J.B.-S.);Department of Biology, Emory University, Atlanta, Georgia 30322 (D.W., R.B.D.);Department of Integrated Genetics, National Institute of Genetics, Mishima 411-8540, Japan (S.I.); andDepartment of Plant Sciences, University of Cambridge, Cambridge CB2 3EA, United Kingdom (F.F.).ORCID http://orcid.org/0000-0002-8568-7125
Siobhan M BradyDepartment of Plant Biology (M.R., K.K., K.Z., J.G., S.W., H.M., S.I., N.S., S.M.B.) and Genome Center (M.R., K.K., J.G., S.W., H.M., S.I., S.M.B.), University of California, Davis, California 95616;Center for Plant Cell Biology, Botany and Plant Sciences Department, University of California, Riverside, California 92521 (G.P., M.A.R., J.B.-S.);Department of Biology, Emory University, Atlanta, Georgia 30322 (D.W., R.B.D.);Department of Integrated Genetics, National Institute of Genetics, Mishima 411-8540, Japan (S.I.); andDepartment of Plant Sciences, University of Cambridge, Cambridge CB2 3EA, United Kingdom (F.F.) sbrady@ucdavis.edu.
University of California, Davis · USUniversity of California, Riverside · USEmory University · USNational Institute of Genetics · JPUniversity of Cambridge · GB
Funding
No grant is acknowledged in the PubMed record.
Abstract
Agrobacterium rhizogenes (or Rhizobium rhizogenes) is able to transform plant genomes and induce the production of hairy roots. We describe the use of A. rhizogenes in tomato (Solanum spp.) to rapidly assess gene expression and function. Gene expression of reporters is indistinguishable in plants transformed by Agrobacterium tumefaciens as compared with A. rhizogenes. A root cell type- and tissue-specific promoter resource has been generated for domesticated and wild tomato (Solanum lycopersicum and Solanum pennellii, respectively) using these approaches. Imaging of tomato roots using A. rhizogenes coupled with laser scanning confocal microscopy is facilitated by the use of a membrane-tagged protein fused to a red fluorescent protein marker present in binary vectors. Tomato-optimized isolation of nuclei tagged in specific cell types and translating ribosome affinity purification binary vectors were generated and used to monitor associated messenger RNA abundance or chromatin modification. Finally, transcriptional reporters, translational reporters, and clustered regularly interspaced short palindromic repeats-associated nuclease9 genome editing demonstrate that SHORT-ROOT and SCARECROW gene function is conserved between Arabidopsis (Arabidopsis thaliana) and tomato.
Indexed as
Gene Expression Regulation, PlantModels, BiologicalAgrobacteriumBase SequenceClustered Regularly Interspaced Short Palindromic RepeatsDNA, PlantMolecular Sequence DataPlant RootsPromoter Regions, GeneticSequence Homology, Nucleic AcidSolanum lycopersicumDNA, Plant
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