ArticleBMC research notes2015
Genome-wide analysis of overlapping genes regulated by iron deficiency and phosphate starvation reveals new interactions in Arabidopsis roots.
Article in BMC research notes, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
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Who cites it
29 citing papers in PubMed, 58 citations in OpenAlex.
- The Phosphorus-Iron Nexus: Decoding the Nutrients Interaction in Soil and Plant.International journal of molecular sciences · 2024Review
- Ferric reduction by a CYBDOM protein counteracts increased iron availability in root meristems induced by phosphorus deficiency.Nature communications · 2024Article
- Black sheep, dark horses, and colorful dogs: a review on the current state of the Gene Ontology with respect to iron homeostasis inFrontiers in plant science · 2023Review
- A tale of two players: the role of phosphate in iron and zinc homeostatic interactions.Planta · 2022Review
- Sulfur signaling and starvation response in Arabidopsis.iScience · 2022Review
- Genome-wide association analysis discovered new loci and candidate genes associated with low-phosphorus tolerance based on shoot mineral elements concentrations in soybean.Molecular genetics and genomics : MGG · 2022Article
- Identification of Quantitative Trait Loci Associated With Iron Deficiency Tolerance in Maize.Frontiers in plant science · 2022Article
- Genome-Wide Identification, Characterization and Expression Analysis of SoybeanInternational journal of molecular sciences · 2021Article
- Long-term acclimation to cadmium exposure reveals extensive phenotypic plasticity in Chlamydomonas.Plant physiology · 2021Article
- Mining Fiskeby III and Mandarin (Ottawa) Expression Profiles to Understand Iron Stress Tolerant Responses in Soybean.International journal of molecular sciences · 2021Article
- Modulation of Phosphate Deficiency-Induced Metabolic Changes by Iron Availability inInternational journal of molecular sciences · 2021Article
- Comparative transcriptome analysis reveals novel insights into transcriptional responses to phosphorus starvation in oil palm (Elaeis guineensis) root.BMC genomic data · 2021Article
- Cross-Talks Between Macro- and Micronutrient Uptake and Signaling in Plants.Frontiers in plant science · 2021Review
- Interaction Between Macro- and Micro-Nutrients in Plants.Frontiers in plant science · 2021Review
- Transcriptional and Morpho-Physiological Responses ofInternational journal of molecular sciences · 2020Article
- A combined physiological and biophysical approach to understand the ligand-dependent efficiency of 3-hydroxy-4-pyridinone Fe-chelates.Plant direct · 2020Article
- Dynamic gene expression changes in response to micronutrient, macronutrient, and multiple stress exposures in soybean.Functional & integrative genomics · 2020Article
- Systems genomics approaches provide new insights into Arabidopsis thaliana root growth regulation under combinatorial mineral nutrient limitation.PLoS genetics · 2019Article
- Identification of Molecular Integrators Shows that Nitrogen Actively Controls the Phosphate Starvation Response in Plants.The Plant cell · 2019Article
- Iron and Phosphate Deficiency Regulators Concertedly Control Coumarin Profiles inFrontiers in plant science · 2019Article
Corrections and comments
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Authors and funding
2 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundIron (Fe) and phosphorus (P) are essential mineral nutrients in plants. Knowledge regarding global changes in the abundance of Fe-responsive genes under Pi deficiency as well as the processes these genes are involved in remains largely unavailable at the genome level. In the current study, we comparatively analyzed RNA sequencing data sets relative to Fe deficiency (NCBI: SRP044814) and Pi starvation (NCBI: SRA050356.1).
resultsAnalysis showed a total of 579 overlapping genes that are responsible for both Fe deficiency and Pi starvation in Arabidopsis roots. A subset of 137 genes had greater than twofold changes in transcript abundant as a result of the treatments. Gene ontology (GO) analysis showed that the stress-related processes 'response to salt stress', 'response to oxidative stress', and 'response to zinc ion' were enriched in the 579 genes, while Fe response-related processes, including 'cellular response to nitric oxide', 'cellular response to iron ion', and 'cellular iron ion homeostasis', were also enriched in the subset of 137 genes. Co-expression analysis of the 579 genes using the MACCU toolbox yielded a network consisting of 292 nodes (genes). Further analysis revealed that a subset of 90 genes were up-regulated under Fe shortage, but down-regulated under Pi starvation. GO analysis in this group of genes revealed an increased cellular response to iron ion/nitric oxide/ethylene stimuli. Promoter analysis was performed in 35 of the 90 genes with a 1.5-fold or greater change in abundance, showing that 12 genes contained the PHOSPHATE STARVATION RESPONSE1-binding GNATATNC cis-element within their promoter regions. Quantitative real-time PCR showed that the decreased abundance of Fe acquisition genes under Pi deficiency exclusively relied on Fe concentration in Pi-deficient media.
conclusionsComprehensive analysis of the overlapping genes derived from Fe deficiency and Pi starvation provides more information to understand the link between Pi and Fe homeostasis. Gene clustering and root-specific co-expression analysis revealed several potentially important genes which likely function as putative novel players in response to Fe and Pi deficiency or in cross-talk between Fe-deficient responses and Pi-deficient signaling.
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