ArticleFrontiers in plant science2018
Integrative Transcriptomic Analysis Uncovers Novel Gene Modules That Underlie the Sulfate Response in
Article in Frontiers in plant science, 2018. 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.
- Hidden players in plant response to sulfur deficit and beyond: insights into the function of the proteins Sulfur Deficiency Induced and Response to Low Sulfur.Journal of experimental botany · 2026Review
- Circadian clock-related transcription factors Reveille 1 and Reveille 8 regulate the O-acetylserine cluster genes and sulfur homeostasis.Plant physiology · 2026Article
- Sulfate Deficiency-Responsive MicroRNAs in Tomato Uncover an Expanded and Functionally Integrated Regulatory Network.International journal of molecular sciences · 2025Article
- Salicylic acid accumulation: emerging molecular players and novel perspectives on plant development and nutrition.Journal of experimental botany · 2025Review
- Analysis of the quadruple lsu mutant reveals molecular determinants of the role of LSU proteins in sulfur assimilation in Arabidopsis.The Plant journal : for cell and molecular biology · 2024Article
- Genetic mapping identified major main-effect and three co-localized quantitative trait loci controlling high iron and zinc content in groundnut.The plant genome · 2023Article
- Integrated Transcriptome Analysis Identified Key Expansin Genes Associated with Wheat Cell Wall, Grain Weight and Yield.Plants (Basel, Switzerland) · 2023Article
- A Revised View of theInternational journal of molecular sciences · 2023Review
- Evolutionary and Gene Expression Analyses Reveal New Insights into the Role ofPlants (Basel, Switzerland) · 2022Article
- Local and Systemic Response to Heterogeneous Sulfate Resupply after Sulfur Deficiency in Rice.International journal of molecular sciences · 2022Article
- Class III Peroxidases in Response to Multiple Abiotic Stresses inInternational journal of molecular sciences · 2022Article
- Coordinated bacterial and plant sulfur metabolism inProceedings of the National Academy of Sciences of the United States of America · 2021Article
- Sulfur Deprivation Modulates Salicylic Acid Responses via Nonexpressor of Pathogenesis-Related Gene 1 inPlants (Basel, Switzerland) · 2021Article
- Transcriptomic analysis at organ and time scale reveals gene regulatory networks controlling the sulfate starvation response of Solanum lycopersicum.BMC plant biology · 2020Article
- TeaCoN: a database of gene co-expression network for tea plant (Camellia sinensis).BMC genomics · 2020Article
- Overexpression of the Selective Autophagy Cargo Receptor NBR1 Modifies Plant Response to Sulfur Deficit.Cells · 2020Article
- Sulphur systems biology-making sense of omics data.Journal of experimental botany · 2019Review
- Evolutionary Analyses Reveal Diverged Patterns ofFrontiers in plant science · 2019Article
- Feeding the Walls: How Does Nutrient Availability Regulate Cell Wall Composition?International journal of molecular sciences · 2018Review
- Cytokinin at the Crossroads of Abiotic Stress Signalling Pathways.International journal of molecular sciences · 2018Review
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4 authors.
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Abstract
Sulfur is an essential nutrient for plant growth and development. Sulfur is a constituent of proteins, the plasma membrane and cell walls, among other important cellular components. To obtain new insights into the gene regulatory networks underlying the sulfate response, we performed an integrative meta-analysis of transcriptomic data from five different sulfate experiments available in public databases. This bioinformatic approach allowed us to identify a robust set of genes whose expression depends only on sulfate availability, indicating that those genes play an important role in the sulfate response. In relation to sulfate metabolism, the biological function of approximately 45% of these genes is currently unknown. Moreover, we found several consistent Gene Ontology terms related to biological processes that have not been extensively studied in the context of the sulfate response; these processes include cell wall organization, carbohydrate metabolism, nitrogen compound transport, and the regulation of proteolysis. Gene co-expression network analyses revealed relationships between the sulfate-responsive genes that were distributed among seven function-specific co-expression modules. The most connected genes in the sulfate co-expression network belong to a module related to the carbon response, suggesting that this biological function plays an important role in the control of the sulfate response. Temporal analyses of the network suggest that sulfate starvation generates a biphasic response, which involves that major changes in gene expression occur during both the early and late responses. Network analyses predicted that the sulfate response is regulated by a limited number of transcription factors, including MYBs, bZIPs, and NF-YAs. In conclusion, our analysis identified new candidate genes and provided new hypotheses to advance our understanding of the transcriptional regulation of sulfate metabolism in plants.
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