Evidence map›Paper›PMID 22374396›Full record

ArticleThe Plant cell2012

Transcriptome sequencing identifies SPL7-regulated copper acquisition genes FRO4/FRO5 and the copper dependence of iron homeostasis in Arabidopsis.

María Bernal, David Casero, Vasantika Singh, Grandon T Wilson, Arne Grande, Huijun Yang, Sheel C Dodani, Matteo Pellegrini, Peter Huijser, Erin L Connolly and 2 more

Open access · bronzeAbstract read
In one paragraph

Article in The Plant cell, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 154 papers.

0numbers the graph read from it
0cells of the map it votes in
154citing papers in PubMed
31.0field-weighted citation impact, top 1% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

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.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

154 citing papers in PubMed, 331 citations in OpenAlex.

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  12. The Elements of Life, Photosynthesis and Genomics.Journal of molecular biology · 2025
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94 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

12 authors at 5 institutions in 2 countries.

María BernalDepartment of Plant Physiology, Ruhr University Bochum, D-44801 Bochum, Germany.
David Casero
Vasantika Singh
Grandon T Wilson
Arne Grande
Huijun Yang
Sheel C Dodani
Matteo Pellegrini
Peter Huijser
Erin L Connolly
Sabeeha S Merchant
Ute Krämer
Ruhr University Bochum · DEUniversity of California, Los Angeles · USUniversity of South Carolina · USMax Planck Institute for Plant Breeding Research · DEUniversity of California, Berkeley · US

Funding

Molecular Imaging Probes To Study Redox BiologyR01GM079465 · NIGMS · UNIVERSITY OF CALIFORNIA BERKELEY · PI Christopher J. Chang · 2006 to 2026
$7.8M
Nutritional Cu Signaling and HomeostasisR01GM042143 · NIGMS · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI SABEEHA MERCHANT · 1995 to 2026
$4.6M
Nutritional Copper Signaling and HomeostasisR37GM042143 · NIGMS · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI MERCHANT, SABEEHA · 2011 to 2020
$4.3M
CU-DEPENDENT TRANSCRIPTIONAL REGULATIONR29GM042143 · NIGMS · UNIVERSITY OF CALIFORNIA LOS ANGELES · PI MERCHANT, SABEEHA · 1989 to 1993
–
NIGMS NIH HHS GM42143NIGMS NIH HHS GM79465NIGMS NIH HHS R01 GM042143NIGMS NIH HHS R01 GM079465NIGMS NIH HHS R37 GM042143
6 · The paper itself

Abstract

The transition metal copper (Cu) is essential for all living organisms but is toxic when present in excess. To identify Cu deficiency responses comprehensively, we conducted genome-wide sequencing-based transcript profiling of Arabidopsis thaliana wild-type plants and of a mutant defective in the gene encoding SQUAMOSA PROMOTER BINDING PROTEIN-LIKE7 (SPL7), which acts as a transcriptional regulator of Cu deficiency responses. In response to Cu deficiency, FERRIC REDUCTASE OXIDASE5 (FRO5) and FRO4 transcript levels increased strongly, in an SPL7-dependent manner. Biochemical assays and confocal imaging of a Cu-specific fluorophore showed that high-affinity root Cu uptake requires prior FRO5/FRO4-dependent Cu(II)-specific reduction to Cu(I) and SPL7 function. Plant iron (Fe) deficiency markers were activated in Cu-deficient media, in which reduced growth of the spl7 mutant was partially rescued by Fe supplementation. Cultivation in Cu-deficient media caused a defect in root-to-shoot Fe translocation, which was exacerbated in spl7 and associated with a lack of ferroxidase activity. This is consistent with a possible role for a multicopper oxidase in Arabidopsis Fe homeostasis, as previously described in yeast, humans, and green algae. These insights into root Cu uptake and the interaction between Cu and Fe homeostasis will advance plant nutrition, crop breeding, and biogeochemical research.

Indexed as

ArabidopsisArabidopsis ProteinsCopperDNA-Binding ProteinsFMN ReductaseGene Expression Regulation, PlantGene Knockdown TechniquesHigh-Throughput Nucleotide SequencingHomeostasisIronPlant RootsPlants, Genetically ModifiedRNA, PlantTranscription FactorsTranscriptomeArabidopsis ProteinsCopperDNA-Binding Proteinsferric citrate iron reductaseFMN ReductaseIronRNA, PlantSPL7 protein, ArabidopsisTranscription Factors

Identifiers

PMID22374396
PMCPMC3315244
OpenAlexW2128171377

What OpenQuestion holds

Textmetadata
Read underepoch 390

Registered trials

None linked

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.