ArticleBMC plant biology2016
Iron homeostasis in Arabidopsis thaliana: transcriptomic analyses reveal novel FIT-regulated genes, iron deficiency marker genes and functional gene networks.
Article in BMC plant biology, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 48 papers.
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Who cites it
48 citing papers in PubMed, 85 citations in OpenAlex.
- Mineral nutrients as regulators of plant flowering time: A molecular perspective.Journal of integrative plant biology · 2026Review
- Single-cell transcriptional decoding of iron deficiency responses in maize root tips.Plant cell reports · 2025Article
- Age-dependent differential iron deficiency responses of rosette leaves during reproductive stages in Arabidopsis thaliana.Journal of experimental botany · 2025Article
- Physiological, Biochemical, and Transcriptomic Responses to Iron Deficiency in Two Potato Varieties.Plants (Basel, Switzerland) · 2025Article
- Four ZIPs contribute to Zn, Fe, Cu and Mn acquisition at the outer root domain.PLoS genetics · 2025Article
- Changing paradigms for the micronutrient zinc, a known protein cofactor, as a signal relaying also cellular redox state.Quantitative plant biology · 2025Review
- Article
- Ferredoxin C2 is required for chlorophyll biosynthesis and accumulation of photosynthetic antennae in Arabidopsis.Plant, cell & environment · 2023Article
- HapX-mediated H2B deub1 and SreA-mediated H2A.Z deposition coordinate in fungal iron resistance.Nucleic acids research · 2023Article
- BRUTUS-LIKE (BTSL) E3 ligase-mediated fine-tuning of Fe regulation negatively affects Zn tolerance of Arabidopsis.Journal of experimental botany · 2023Article
- Soybean Root Transcriptomics: Insights into Sucrose Signaling at the Crossroads of Nutrient Deficiency and Biotic Stress Responses.Plants (Basel, Switzerland) · 2023Article
- 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
- Advances in Iron Retrograde Signaling Mechanisms and Uptake Regulation in Photosynthetic Organisms.Methods in molecular biology (Clifton, N.J.) · 2023Article
- Strategies and Bottlenecks in Hexaploid Wheat to Mobilize Soil Iron to Grains.Frontiers in plant science · 2022Review
- Assessment of Biofortification Approaches Used to Improve Micronutrient-Dense Plants That Are a Sustainable Solution to Combat Hidden Hunger.Journal of soil science and plant nutrition · 2022Review
- QTLs Identification for Iron Chlorosis in a Segregating Peach-Almond Progeny Through Double-Digest Sequence-Based Genotyping (SBG).Frontiers in plant science · 2022Article
- The Ubiquitin Proteasome System and Nutrient Stress Response.Frontiers in plant science · 2022Review
- Genomically Hardwired Regulation of Gene Activity Orchestrates Cellular Iron Homeostasis in Arabidopsis.RNA biology · 2022Article
- RBP differentiation contributes to selective transmissibility of OPT3 mRNAs.Plant physiology · 2021Article
- Long-term acclimation to cadmium exposure reveals extensive phenotypic plasticity in Chlamydomonas.Plant physiology · 2021Article
Corrections and comments
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Authors and funding
3 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundFIT (FER-LIKE IRON DEFICIENCY-INDUCED TRANSCRIPTION FACTOR) is the central regulator of iron uptake in Arabidopsis thaliana roots. We performed transcriptome analyses of six day-old seedlings and roots of six week-old plants using wild type, a fit knock-out mutant and a FIT over-expression line grown under iron-sufficient or iron-deficient conditions. We compared genes regulated in a FIT-dependent manner depending on the developmental stage of the plants. We assembled a high likelihood dataset which we used to perform co-expression and functional analysis of the most stably iron deficiency-induced genes.
results448 genes were found FIT-regulated. Out of these, 34 genes were robustly FIT-regulated in root and seedling samples and included 13 novel FIT-dependent genes. Three hundred thirty-one genes showed differential regulation in response to the presence and absence of FIT only in the root samples, while this was the case for 83 genes in the seedling samples. We assembled a virtual dataset of iron-regulated genes based on a total of 14 transcriptomic analyses of iron-deficient and iron-sufficient wild-type plants to pinpoint the best marker genes for iron deficiency and analyzed this dataset in depth. Co-expression analysis of this dataset revealed 13 distinct regulons part of which predominantly contained functionally related genes.
conclusionsWe could enlarge the list of FIT-dependent genes and discriminate between genes that are robustly FIT-regulated in roots and seedlings or only in one of those. FIT-regulated genes were mostly induced, few of them were repressed by FIT. With the analysis of a virtual dataset we could filter out and pinpoint new candidates among the most reliable marker genes for iron deficiency. Moreover, co-expression and functional analysis of this virtual dataset revealed iron deficiency-induced and functionally distinct regulons.
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