ArticleNature communications2017
Kinetic CRAC uncovers a role for Nab3 in determining gene expression profiles during stress.
Article in Nature communications, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 38 papers.
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Who cites it
38 citing papers in PubMed.
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- Signal or noise? RNA-binding proteins and the challenges of binding site assignments.Nucleic acids research · 2026Review
- The hidden power of antisense long non-coding RNAs: a dive into a novel regulatory layer mediated by double-stranded RNA formation.RNA biology · 2025Review
- A transcription termination mechanism for maintaining homogeneous protein expression.Nucleic acids research · 2025Article
- Rapid remodeling of NTP levels enables immediate translational adaptation to energy stress in yeast.Molecular cell · 2025Article
- reCRAC: A Stringent Method for Precise Mapping of Protein-RNA Interactions in Yeast.Methods in molecular biology (Clifton, N.J.) · 2025Article
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- Post-transcriptional regulation shapes the transcriptome of quiescent budding yeast.Nucleic acids research · 2024Article
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- NCBI GEO: archive for gene expression and epigenomics data sets: 23-year update.Nucleic acids research · 2024Article
- Defining Bacterial RNA-RNA Interactomes Using CLASH.Methods in molecular biology (Clifton, N.J.) · 2024Article
- Advantages and limitations of UV cross-linking analysis of protein-RNA interactomes in microbes.Molecular microbiology · 2023Review
- Review
- Differential regulation of mRNA stability modulates transcriptional memory and facilitates environmental adaptation.Nature communications · 2023Article
- Variable penetrance of Nab3 granule accumulation quantified by a new tool for high-throughput single-cell granule analysis.Current genetics · 2022Article
- RNase III-CLASH of multi-drug resistant Staphylococcus aureus reveals a regulatory mRNA 3'UTR required for intermediate vancomycin resistance.Nature communications · 2022Article
- RNase III CLASH in MRSA uncovers sRNA regulatory networks coupling metabolism to toxin expression.Nature communications · 2022Article
- Ribonomics Approaches to Identify RBPome in Plants and Other Eukaryotes: Current Progress and Future Prospects.International journal of molecular sciences · 2022Review
- The RNA-bound proteome of MRSA reveals post-transcriptional roles for helix-turn-helix DNA-binding and Rossmann-fold proteins.Nature communications · 2022Article
- Yeast Ssd1 is a non-enzymatic member of the RNase II family with an alternative RNA recognition site.Nucleic acids research · 2022Article
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Authors and funding
10 authors.
Funding
Abstract
RNA-binding proteins play a key role in shaping gene expression profiles during stress, however, little is known about the dynamic nature of these interactions and how this influences the kinetics of gene expression. To address this, we developed kinetic cross-linking and analysis of cDNAs (χCRAC), an ultraviolet cross-linking method that enabled us to quantitatively measure the dynamics of protein-RNA interactions in vivo on a minute time-scale. Here, using χCRAC we measure the global RNA-binding dynamics of the yeast transcription termination factor Nab3 in response to glucose starvation. These measurements reveal rapid changes in protein-RNA interactions within 1 min following stress imposition. Changes in Nab3 binding are largely independent of alterations in transcription rate during the early stages of stress response, indicating orthogonal transcriptional control mechanisms. We also uncover a function for Nab3 in dampening expression of stress-responsive genes. χCRAC has the potential to greatly enhance our understanding of in vivo dynamics of protein-RNA interactions.Protein RNA interactions are dynamic and regulated in response to environmental changes. Here the authors describe 'kinetic CRAC', an approach that allows time resolved analyses of protein RNA interactions with minute time point resolution and apply it to gain insight into the function of the RNA-binding protein Nab3.
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