ArticleGenome biology2011
Defining potentially conserved RNA regulons of homologous zinc-finger RNA-binding proteins.
Article in Genome biology, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed, 35 citations in OpenAlex.
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- The yeast phosphofructokinase β-subunit has RNA unwinding activity and modulates cell cycle progression.Nucleic acids research · 2026Article
- diPaRIS: Dynamic and Interpretable Protein-RNA Interactions Prediction With U-Shaped Network and Novel Structure Encoding.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025Article
- Zinc finger knuckle genes are associated with tolerance to drought and dehydration in chickpea (Frontiers in plant science · 2024Article
- Synthetic negative genome screen of the GPN-loop GTPase NPA3 in Saccharomyces cerevisiae.Current genetics · 2022Article
- mRBPome capture identifies the RNA-binding protein TRIM71, an essential regulator of spermatogonial differentiation.Development (Cambridge, England) · 2020Article
- Article
- CNBP controls transcription by unfolding DNA G-quadruplex structures.Nucleic acids research · 2019Article
- Post-transcriptional regulatory patterns revealed by protein-RNA interactions.Scientific reports · 2019Article
- The GIS2 Gene Is Repressed by a Zinc-Regulated Bicistronic RNA in Saccharomyces cerevisiae.Genes · 2018Article
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- Reduction of Cellular Nucleic Acid Binding Protein Encoded by a Myotonic Dystrophy Type 2 Gene Causes Muscle Atrophy.Molecular and cellular biology · 2018Article
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- Screening of potential genes contributing to the macrocycle drug resistance of C. albicans via microarray analysis.Molecular medicine reports · 2017Article
- S phase block following MEC1ATR inactivation occurs without severe dNTP depletion.Biology open · 2015Article
- BORIS/CTCFL is an RNA-binding protein that associates with polysomes.BMC cell biology · 2013Article
- Molecular mechanisms of muscle atrophy in myotonic dystrophies.The international journal of biochemistry & cell biology · 2013Review
- Quantitative proteomic analysis reveals concurrent RNA-protein interactions and identifies new RNA-binding proteins in Saccharomyces cerevisiae.Genome research · 2013Article
- A genetic screen for high copy number suppressors of the synthetic lethality between elg1Δ and srs2Δ in yeast.G3 (Bethesda, Md.) · 2013Article
- Beyond the binding site: in vivo identification of tbx2, smarca5 and wnt5b as molecular targets of CNBP during embryonic development.PloS one · 2013Article
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Authors and funding
5 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundGlucose inhibition of gluconeogenic growth suppressor 2 protein (Gis2p) and zinc-finger protein 9 (ZNF9) are conserved yeast and human zinc-finger proteins. The function of yeast Gis2p is unknown, but human ZNF9 has been reported to bind nucleic acids, and mutations in the ZNF9 gene cause the neuromuscular disease myotonic dystrophy type 2. To explore the impact of these proteins on RNA regulation, we undertook a systematic analysis of the RNA targets and of the global implications for gene expression.
resultsHundreds of mRNAs were associated with Gis2p, mainly coding for RNA processing factors, chromatin modifiers and GTPases. Target mRNAs contained stretches of G(A/U)(A/U) trinucleotide repeats located in coding sequences, which are sufficient for binding to both Gis2p and ZNF9, thus implying strong structural conservation. Predicted ZNF9 targets belong to the same functional categories as seen in yeast, indicating functional conservation, which is further supported by complementation of the large cell-size phenotype of gis2 mutants with ZNF9. We further applied a matched-sample proteome-transcriptome analysis suggesting that Gis2p differentially coordinates expression of RNA regulons, primarily by reducing mRNA and protein levels of genes required for ribosome assembly and by selectively up-regulating protein levels of myosins.
conclusionsThis integrated systematic exploration of RNA targets for homologous RNA-binding proteins indicates an unexpectedly high conservation of the RNA-binding properties and of potential targets, thus predicting conserved RNA regulons. We also predict regulation of muscle-specific genes by ZNF9, adding a potential link to the myotonic dystrophy related phenotypes seen in ZNF9 mouse models.
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