ArticleGenome biology2012
Widespread promoter-mediated coordination of transcription and mRNA degradation.
Article in Genome biology, 2012. 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, 44 citations in OpenAlex.
- An information content principle explains regulatory patterns of gene expression across human tissues.Nature communications · 2026Article
- Gene-specific transcript buffering revealed by perturbation of coactivator complexes.Science advances · 2025Article
- The circular logic of mRNA homeostasis.Transcription · 2023Review
- Dynamically regulated transcription factors are encoded by highly unstable mRNAs in theRNA (New York, N.Y.) · 2023Article
- Transcription feedback dynamics in the wake of cytoplasmic mRNA degradation shutdown.Nucleic acids research · 2022Article
- Protein Complexes Form a Basis for Complex Hybrid Incompatibility.Frontiers in genetics · 2021Review
- Increased nuclear but not cytoplasmic activities of CELF1 protein leads to muscle wasting.Human molecular genetics · 2020Article
- RNA decay during gammaherpesvirus infection reduces RNA polymerase II occupancy of host promoters but spares viral promoters.PLoS pathogens · 2020Article
- Feedback to the central dogma: cytoplasmic mRNA decay and transcription are interdependent processes.Critical reviews in biochemistry and molecular biology · 2019Review
- Pervasive allele-specific regulation on RNA decay in hybrid mice.Life science alliance · 2018Article
- Antisense transcription-dependent chromatin signature modulates sense transcript dynamics.Molecular systems biology · 2018Article
- Stochastic system identification without an a priori chosen kinetic model-exploring feasible cell regulation with piecewise linear functions.NPJ systems biology and applications · 2018Article
- The interplay between transcription and mRNA degradation inMicrobial cell (Graz, Austria) · 2017Review
- Article
- The CELF1 RNA-Binding Protein Regulates Decay of Signal Recognition Particle mRNAs and Limits Secretion in Mouse Myoblasts.PloS one · 2017Article
- Translational Capacity of a Cell Is Determined during Transcription Elongation via the Ccr4-Not Complex.Cell reports · 2016Article
- Snf1-Dependent Transcription Confers Glucose-Induced Decay upon the mRNA Product.Molecular and cellular biology · 2016Article
- Next-generation analysis of gene expression regulation--comparing the roles of synthesis and degradation.Molecular bioSystems · 2015Review
- Simultaneous measurement of genome-wide transcription elongation speeds and rates of RNA polymerase II transition into active elongation with 4sUDRB-seq.Nature protocols · 2015Article
- Coupling mRNA synthesis and decay.Molecular and cellular biology · 2014Review
Corrections and comments
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Authors and funding
5 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundPrevious work showed that mRNA degradation is coordinated with transcription in yeast, and in several genes the control of mRNA degradation was linked to promoter elements through two different mechanisms. Here we show at the genomic scale that the coordination of transcription and mRNA degradation is promoter-dependent in yeast and is also observed in humans.
resultsWe first demonstrate that swapping upstream cis-regulatory sequences between two yeast species affects both transcription and mRNA degradation and suggest that while some cis-regulatory elements control either transcription or degradation, multiple other elements enhance both processes. Second, we show that adjacent yeast genes that share a promoter (through divergent orientation) have increased similarity in their patterns of mRNA degradation, providing independent evidence for the promoter-mediated coupling of transcription to mRNA degradation. Finally, analysis of the differences in mRNA degradation rates between mammalian cell types or mammalian species suggests a similar coordination between transcription and mRNA degradation in humans.
conclusionsOur results extend previous studies and suggest a pervasive promoter-mediated coordination between transcription and mRNA degradation in yeast. The diverse genes and regulatory elements associated with this coordination suggest that it is generated by a global mechanism of gene regulation and modulated by gene-specific mechanisms. The observation of a similar coupling in mammals raises the possibility that coupling of transcription and mRNA degradation may reflect an evolutionarily conserved phenomenon in gene regulation.
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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.