ArticlePloS one2019
Variation of gene expression in plants is influenced by gene architecture and structural properties of promoters.
Article in PloS one, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
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Who cites it
22 citing papers in PubMed, 68 citations in OpenAlex.
- From Structure to Function of Promoters and 5'UTRs in Maize.International journal of molecular sciences · 2026Review
- Calm in the midst of the storm: inferring gene expression stability in flowering plants.Frontiers in plant science · 2026Article
- The genetic puzzle of multicopy genes: challenges and troubleshooting.Plant methods · 2025Article
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- Minimizing IP issues associated with gene constructs encoding the Bt toxin - a case study.BMC biotechnology · 2024Article
- Genotype-Dependent Response of Root Microbiota and Leaf Metabolism in Olive Seedlings Subjected to Drought Stress.Plants (Basel, Switzerland) · 2024Article
- Radiation Hormesis in Barley Manifests as Changes in Growth Dynamics Coordinated with the Expression ofInternational journal of molecular sciences · 2024Article
- A comparative analysis of stably expressed genes across diverse angiosperms exposes flexibility in underlying promoter architecture.G3 (Bethesda, Md.) · 2023Article
- Deciphering shared attributes of plant long non-coding RNAs through a comparative computational approach.Scientific reports · 2023Article
- A comparative analysis of stably expressed genes across diverse angiosperms exposes flexibility in underlying promoter architecture.bioRxiv : the preprint server for biology · 2023Article
- Review
- On the Role of TATA Boxes and TATA-Binding Protein inPlants (Basel, Switzerland) · 2023Review
- Plant Promoters and Terminators for High-Precision Bioengineering.Biodesign research · 2023Review
- Article
- Cis-regulatory sequences in plants: Their importance, discovery, and future challenges.The Plant cell · 2022Review
- Transcriptional Landscape of Cotton Fiber Development and Its Alliance With Fiber-Associated Traits.Frontiers in plant science · 2022Article
- Physiology and molecular biology of plants : an international journal of functional plant biology · 2021Article
- CRISPR-Act3.0 for highly efficient multiplexed gene activation in plants.Nature plants · 2021Article
- Physiology and molecular biology of plants : an international journal of functional plant biology · 2020Article
Corrections and comments
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In higher eukaryotes, gene architecture and structural properties of promoters have emerged as significant factors influencing variation in number of transcripts (expression level) and specificity of gene expression in a tissue (expression breadth), which eventually shape the phenotype. In this study, transcriptome data of different tissue types at various developmental stages of A. thaliana, O. sativa, S. bicolor and Z. mays have been used to understand the relationship between properties of gene components and its expression. Our findings indicate that in plants, among all gene architecture and structural properties of promoters, compactness of genes in terms of intron content is significantly linked to gene expression level and breadth, whereas in human an exactly opposite scenario is seen. In plants, for the first time we have carried out a quantitative estimation of effect of a particular trait on expression level and breadth, by using multiple regression analysis and it confirms that intron content of primary transcript (as %) is a powerful determinant of expression breadth. Similarly, further regression analysis revealed that among structural properties of the promoters, stability is negatively linked to expression breadth, while DNase1 sensitivity strongly governs gene expression breadth in monocots and gene expression level in dicots. In addition, promoter regions of tissue specific genes are found to be enriched with TATA box and Y-patch motifs. Finally, multi copy orthologous genes in plants are found to be longer, highly regulated and tissue specific.
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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.