ArticleScientific reports2017
Auxin regulates functional gene groups in a fold-change-specific manner in Arabidopsis thaliana roots.
Article in Scientific reports, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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17 citing papers in PubMed, 36 citations in OpenAlex.
- Genetically Encoded, Noise-Tolerant, Auxin Biosensors in Yeast.ACS synthetic biology · 2024Article
- Do DEEPER ROOTING 1 Homologs Regulate the Lateral Root Slope Angle in Cucumber (International journal of molecular sciences · 2024Article
- Lateral Root Initiation in Cucumber (International journal of molecular sciences · 2023Article
- Plant microbiota controls an alternative root branching regulatory mechanism in plants.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- HY5 and phytochrome activity modulate shoot-to-root coordination during thermomorphogenesis inDevelopment (Cambridge, England) · 2020Article
- It's Morphin' time: how multiple signals converge on ARF transcription factors to direct development.Current opinion in plant biology · 2020Review
- The SUMO E3 Ligase SIZ1 Negatively Regulates Shoot Regeneration.Plant physiology · 2020Article
- Article
- EAT-UpTF: Enrichment Analysis Tool for Upstream Transcription Factors of a Group of Plant Genes.Frontiers in genetics · 2020Article
- Stimulation of adventitious root formation by the oligosaccharin OSRG at the transcriptome level.Plant signaling & behavior · 2020Article
- Direct comparison of Arabidopsis gene expression reveals different responses to melatonin versus auxin.BMC plant biology · 2019Article
- Deep Conservation ofThe Plant cell · 2019Article
- Two Auxin Response Elements Fine-TuneBiomolecules · 2019Article
- Unusual Roles of Secretory SNARE SYP132 in Plasma Membrane HPlant physiology · 2019Article
- Lateral Root Initiation in the Parental Root Meristem of Cucurbits: Old Players in a New Position.Frontiers in plant science · 2019Article
- Co-expression and Transcriptome Analysis ofFrontiers in plant science · 2018Article
- Transcript Profiling Identifies Gene Cohorts Controlled by Each Signal RegulatingFrontiers in plant science · 2017Article
Corrections and comments
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Authors and funding
13 authors at 4 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Auxin plays a pivotal role in virtually every aspect of plant morphogenesis. It simultaneously orchestrates a diverse variety of processes such as cell wall biogenesis, transition through the cell cycle, or metabolism of a wide range of chemical substances. The coordination principles for such a complex orchestration are poorly understood at the systems level. Here, we perform an RNA-seq experiment to study the transcriptional response to auxin treatment within gene groups of different biological processes, molecular functions, or cell components in a quantitative fold-change-specific manner. We find for Arabidopsis thaliana roots treated with auxin for 6 h that (i) there are functional groups within which genes respond to auxin with a surprisingly similar fold changes and that (ii) these fold changes vary from one group to another. These findings make it tempting to conjecture the existence of some transcriptional logic orchestrating the coordinated expression of genes within functional groups in a fold-change-specific manner. To obtain some initial insight about this coordinated expression, we performed a motif enrichment analysis and found cis-regulatory elements TBX1-3, SBX, REG, and TCP/site2 as the candidates conferring fold-change-specific responses to auxin in Arabidopsis thaliana.
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