ArticleNature plants2021
Synthetic promoter designs enabled by a comprehensive analysis of plant core promoters.
Article in Nature plants, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 139 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
139 citing papers in PubMed, 199 citations in OpenAlex.
- Targeted anthocyanin biofortification in black rice: a review of spatial metabolic control, growth-defence trade-offs and genotype-environment-management design.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Review
- Translating functional molecular knowledge into crop-breeding success.Nature reviews. Genetics · 2026Review
- Generation and Characterization of Novel Low-Amylose Rice Germplasm via Prime Editing of theInternational journal of molecular sciences · 2026Article
- Deep Learning for Deciphering the Plant Cis-Regulatory Code.Plants (Basel, Switzerland) · 2026Review
- Synthetic transcriptional repression systems in plants.Plant cell reports · 2026Review
- Application of Proximity-Labeling Techniques in Plants: A Review of Successful Cases.International journal of molecular sciences · 2026Review
- Integrating single-cell omic techniques to resolve the spatio-temporal complexity of arbuscular mycorrhizal symbiosis.Journal of experimental botany · 2026Review
- A deep learning model captures position-specific effects of plant regulatory sequences and suggests genes under complex regulation.Plant physiology · 2026Article
- PlantGFM: A Genomic Foundation Model for Discovery and Creation of Plant Genes.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Fruit-Specific Promoters in Plants: Advances, Regulatory Mechanisms and Applications in Plant Biotechnology.Plants (Basel, Switzerland) · 2026Review
- A CRISPR interference system for tunable gene expression integrated with a promoter library forMicrobiology spectrum · 2026Article
- Chassis selection and metabolic fine-tuning enable efficient in planta betalain production.Plant physiology · 2026Article
- A natural variation in rice susceptibility factor Rsf1 confers resistance to root-knot nematode.Nature communications · 2026Article
- Genome-wide modelling of plant transcription factor binding captures regulatory variants associated with phenotypic traits.Nature communications · 2026Article
- A synthetic expression system for orthogonal gene expression in Nicotiana benthamiana.Plant molecular biology · 2026Article
- Functional divergence of cshalcone synthase genes RcCHS in regulating anthocyanin biosynthesis and stress responses in Rosa chinensis.Plant cell reports · 2026Article
- The gene-like promoter and transcription of LTR retrotransposons.bioRxiv : the preprint server for biology · 2026Article
- TargetGAN: A generative AI framework for the design of plant core promoters with targeted activity.Plant communications · 2026Article
- Artificial Intelligence Methods in Forest Biotechnology: Current Status and Future Prospects.International journal of molecular sciences · 2026Review
- A New Conditional Transcription Factor for Use in Toxoplasma Gondii.Biotechnology journal · 2026Article
79 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
7 authors at 3 institutions in 1 country.
Funding
Abstract
Targeted engineering of plant gene expression holds great promise for ensuring food security and for producing biopharmaceuticals in plants. However, this engineering requires thorough knowledge of cis-regulatory elements to precisely control either endogenous or introduced genes. To generate this knowledge, we used a massively parallel reporter assay to measure the activity of nearly complete sets of promoters from Arabidopsis, maize and sorghum. We demonstrate that core promoter elements-notably the TATA box-as well as promoter GC content and promoter-proximal transcription factor binding sites influence promoter strength. By performing the experiments in two assay systems, leaves of the dicot tobacco and protoplasts of the monocot maize, we detect species-specific differences in the contributions of GC content and transcription factors to promoter strength. Using these observations, we built computational models to predict promoter strength in both assay systems, allowing us to design highly active promoters comparable in activity to the viral 35S minimal promoter. Our results establish a promising experimental approach to optimize native promoter elements and generate synthetic ones with desirable features.
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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.