ArticlePLoS computational biology2009
A systems approach uncovers restrictions for signal interactions regulating genome-wide responses to nutritional cues in Arabidopsis.
Article in PLoS computational biology, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.
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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
28 citing papers in PubMed, 59 citations in OpenAlex.
- Nitrogen sensing and regulatory networks: it's about time and space.The Plant cell · 2024Review
- Genome-Scale Investigation ofInternational journal of molecular sciences · 2022Article
- Identification and expression analysis of GARP superfamily genes in response to nitrogen and phosphorus stress in Spirodela polyrhiza.BMC plant biology · 2022Article
- Multisite evaluation of phenotypic plasticity for specialized metabolites, some involved in carrot quality and disease resistance.PloS one · 2021Article
- WRKY1 Integrates Cellular Nitrogen and Light-Energy Resources inPlant physiology · 2019Article
- WRKY1 Mediates Transcriptional Regulation of Light and Nitrogen Signaling Pathways.Plant physiology · 2019Article
- LeNRT1.1 Improves Nitrate Uptake in Grafted Tomato Plants under High Nitrogen Demand.International journal of molecular sciences · 2018Article
- Integrative Transcriptomic Analysis Uncovers Novel Gene Modules That Underlie the Sulfate Response inFrontiers in plant science · 2018Article
- Fine-tuning of root elongation by ethylene: a tool to study dynamic structure-function relationships between root architecture and nitrate absorption.Annals of botany · 2016Article
- Maize maintains growth in response to decreased nitrate supply through a highly dynamic and developmental stage-specific transcriptional response.Plant biotechnology journal · 2016Article
- Large-Scale Public Transcriptomic Data Mining Reveals a Tight Connection between the Transport of Nitrogen and Other Transport Processes in Arabidopsis.Frontiers in plant science · 2016Article
- Transporters Involved in Root Nitrate Uptake and Sensing byFrontiers in plant science · 2016Review
- Biostimulants in Plant Science: A Global Perspective.Frontiers in plant science · 2016Review
- Cross-Species Network Analysis Uncovers Conserved Nitrogen-Regulated Network Modules in Rice.Plant physiology · 2015Article
- AtNIGT1/HRS1 integrates nitrate and phosphate signals at the Arabidopsis root tip.Nature communications · 2015Article
- Hit-and-run transcriptional control by bZIP1 mediates rapid nutrient signaling in Arabidopsis.Proceedings of the National Academy of Sciences of the United States of America · 2014Article
- Systems approaches map regulatory networks downstream of the auxin receptor AFB3 in the nitrate response of Arabidopsis thaliana roots.Proceedings of the National Academy of Sciences of the United States of America · 2013Article
- Integration of genome-scale modeling and transcript profiling reveals metabolic pathways underlying light and temperature acclimation in Arabidopsis.The Plant cell · 2013Article
- In low transpiring conditions, nitrate and water fluxes for growth of B. napus plantlets correlate with changes in BnNrt2.1 and BnNrt1.1 transporter expression.Plant signaling & behavior · 2013Article
- In low transpiring conditions, uncoupling the BnNrt2.1 and BnNrt1.1 NO 3(-) transporters by glutamate treatment reveals the essential role of BnNRT2.1 for nitrate uptake and the nitrate-signaling cascade during growth.Plant signaling & behavior · 2013Article
Corrections and comments
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Authors and funding
7 authors at 4 institutions in 3 countries.
Funding
Abstract
As sessile organisms, plants must cope with multiple and combined variations of signals in their environment. However, very few reports have studied the genome-wide effects of systematic signal combinations on gene expression. Here, we evaluate a high level of signal integration, by modeling genome-wide expression patterns under a factorial combination of carbon (C), light (L), and nitrogen (N) as binary factors in two organs (O), roots and leaves. Signal management is different between C, N, and L and in shoots and roots. For example, L is the major factor controlling gene expression in leaves. However, in roots there is no obvious prominent signal, and signal interaction is stronger. The major signal interaction events detected genome wide in Arabidopsis roots are deciphered and summarized in a comprehensive conceptual model. Surprisingly, global analysis of gene expression in response to C, N, L, and O revealed that the number of genes controlled by a signal is proportional to the magnitude of the gene expression changes elicited by the signal. These results uncovered a strong constraining structure in plant cell signaling pathways, which prompted us to propose the existence of a "code" of signal integration.
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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.