ArticleThe Plant cell2013
A genomic-scale artificial microRNA library as a tool to investigate the functionally redundant gene space in Arabidopsis.
Article in The Plant cell, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 44 papers, 2 of them syntheses that pooled it.
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Who cites it
44 citing papers in PubMed, 2 syntheses or guidelines pooled it, 83 citations in OpenAlex.
- Interplay among ZF-HD and GRF transcription factors during Arabidopsis leaf development.Plant physiology · 2023Pooled it
- Analysis of the arabidopsis REM gene family predicts functions during flower development.Annals of botany · 2014Pooled it
- Guard cell signal transduction mechanisms controlling stomatal movements by light, abscisic acid, CO2, VPD and heat.Plant physiology · 2026Review
- The transcription elongation factor IWS1 promotes thermomorphogenesis by integrating the brassinosteroid and gibberellin pathways in Arabidopsis.Plant communications · 2026Article
- Targeting redundant gene families: A multiplexed, tissue-specific CRISPR toolbox for Arabidopsis genetic screens.Cell reports · 2026Article
- Precision RNAi in Tomato Using Synthetic Trans-Acting Small Interfering RNAs Derived From Minimal Precursors.Plant biotechnology journal · 2026Article
- mTACT: A cell type-specific transportome-scale amiRNA toolbox to overcome functional redundancy in Arabidopsis.Plant physiology · 2026Article
- Enhanced microRNA accumulation and gene silencing efficiency through optimized precursor base pairing.The Plant journal : for cell and molecular biology · 2026Article
- Protocol for triggering plant gene silencing by viral delivery of short RNA.STAR protocols · 2025Article
- Cotyledon opening during seedling deetiolation is determined by ABA-mediated splicing regulation.EMBO reports · 2025Article
- Identification of F-box proteins in ABA- and GA-regulated seed germination: interaction of GASA1 signalling peptide and ABA-induced ubiquitination.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2025Article
- Large-Scale Rice Mutant Establishment and High-Throughput Mutant Manipulation Help Advance Rice Functional Genomics.Plants (Basel, Switzerland) · 2025Review
- Construction of multi-targeted CRISPR libraries in tomato to overcome functional redundancy at genome-scale level.Nature communications · 2025Article
- Review
- Article
- Root Walker: an automated pipeline for large scale quantification of early root growth responses at high spatial and temporal resolution.The Plant journal : for cell and molecular biology · 2024Article
- Transgene-free, virus-based gene silencing in plants by artificial microRNAs derived from minimal precursors.Nucleic acids research · 2023Article
- Probing the physiological role of the plastid outer-envelope membrane using the oemiR plasmid collection.G3 (Bethesda, Md.) · 2023Article
- Multi-Knock-a multi-targeted genome-scale CRISPR toolbox to overcome functional redundancy in plants.Nature plants · 2023Article
- Plant hormone regulation of abiotic stress responses.Nature reviews. Molecular cell biology · 2022Review
Corrections and comments
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Authors and funding
8 authors at 4 institutions in 2 countries.
Funding
Abstract
Traditional forward genetic screens are limited in the identification of homologous genes with overlapping functions. Here, we report the analyses and assembly of genome-wide protein family definitions that comprise the largest estimate for the potentially redundant gene space in Arabidopsis thaliana. On this basis, a computational design of genome-wide family-specific artificial microRNAs (amiRNAs) was performed using high-performance computing resources. The amiRNA designs are searchable online (http://phantomdb.ucsd.edu). A computationally derived library of 22,000 amiRNAs was synthesized in 10 sublibraries of 1505 to 4082 amiRNAs, each targeting defined functional protein classes. For example, 2964 amiRNAs target annotated DNA and RNA binding protein families and 1777 target transporter proteins, and another sublibrary targets proteins of unknown function. To evaluate the potential of an amiRNA-based screen, we tested 122 amiRNAs targeting transcription factor, protein kinase, and protein phosphatase families. Several amiRNA lines showed morphological phenotypes, either comparable to known phenotypes of single and double/triple mutants or caused by overexpression of microRNAs. Moreover, novel morphological and abscisic acid-insensitive seed germination mutants were identified for amiRNAs targeting zinc finger homeodomain transcription factors and mitogen-activated protein kinase kinase kinases, respectively. These resources provide an approach for genome-wide genetic screens of the functionally redundant gene space in Arabidopsis.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.