Coordinated Control of rRNA Processing by RNA Polymerase I

Scull, Catherine E.; Schneider, David A.

doi:10.1016/j.tig.2019.07.002

Cited by 40 publications

(40 citation statements)

References 93 publications

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“…Moreover, in this publication the authors further showed, that co-transcriptional processing of the pre-rRNA is disturbed in cells and tissues from a TTD mouse model with a mutation in TFIIH. The process of RNA polymerase I transcription elongation is coupled to processing and pre-ribosomal assembly (Bohnsack & Bohnsack, 2019, Scull & Schneider, 2019), thus disturbances in transcription elongation might impact on the subsequent maturation steps. In our study we demonstrate a previously unreported accumulation of processing intermediates and a reduced abundance of the 18S mature rRNA in TFIIEβ cells.…”

Section: Discussionmentioning

confidence: 99%

Nucleolar TFIIE plays a role in ribosomal biogenesis and performance

Phan

Maity

Ludwig³

et al. 2020

Preprint

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Ribosome biogenesis is a highly energy-demanding process in eukaryotes which requires the concerted action of all three RNA polymerases. In RNA polymerase II transcription, the general transcription factor TFIIH is recruited by TFIIE to the initiation site of protein-coding genes. Distinct mutations in TFIIH and TFIIE give rise to the degenerative disorder trichothiodystrophy (TTD). Here we uncovered an unexpected role of TFIIE in ribosomal RNA synthesis by RNA polymerase I. With high resolution microscopy we detected TFIIE in the nucleolus where TFIIE binds to actively transcribed rDNA. Mutations in TFIIE affects gene-occupancy of RNA polymerase I, rRNA maturation, ribosomal assembly and performance. In consequence, the elevated translational error rate with imbalanced protein synthesis and turnover results in an increase in heat-sensitive proteins. Collectively, mutations in TFIIE - due to impaired ribosomal biogenesis and translational accuracy - lead to a loss of protein homeostasis (proteostasis) which can partly explain the clinical phenotype in TTD.

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Section: Discussionmentioning

confidence: 99%

Nucleolar TFIIE plays a role in ribosomal biogenesis and performance

Phan

Maity

Ludwig³

et al. 2020

Preprint

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“…Additionally, transcription elongation rates likely play a role in riboswitch folding. Early studies in E. coli indicated that changes in transcription elongation rate disrupt gene expression and cell growth (Lewicki et al, 1993 ; Scull and Schneider, 2019 ). This phenomenon also exists in eukaryotes, where an alteration in the elongation rate of RNAP I disrupts ribosome biogenesis (Schneider et al, 2006 , 2007 ), and a change in RNAP II transcription speed disrupts mRNA splicing (Brzyzek and Swiezewski, 2015 ), suggesting the universality of such layers of gene expression control.…”

Section: Toward a Holistic Understanding Of Riboswitch Functionmentioning

confidence: 99%

Transcriptional Riboswitches Integrate Timescales for Bacterial Gene Expression Control

Scull

Dandpat

Romero

et al. 2021

Front. Mol. Biosci.

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Transcriptional riboswitches involve RNA aptamers that are typically found in the 5′ untranslated regions (UTRs) of bacterial mRNAs and form alternative secondary structures upon binding to cognate ligands. Alteration of the riboswitch's secondary structure results in perturbations of an adjacent expression platform that controls transcription elongation and termination, thus turning downstream gene expression “on” or “off.” Riboswitch ligands are typically small metabolites, divalent cations, anions, signaling molecules, or other RNAs, and can be part of larger signaling cascades. The interconnectedness of ligand binding, RNA folding, RNA transcription, and gene expression empowers riboswitches to integrate cellular processes and environmental conditions across multiple timescales. For a successful response to an environmental cue that may determine a bacterium's chance of survival, a coordinated coupling of timescales from microseconds to minutes must be achieved. This review focuses on recent advances in our understanding of how riboswitches affect such critical gene expression control across time.

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“…Specific primers were designed for this aim and are listed in Supplementary Table 2. The reverse transcription of mRNA was carried out using an oligo d(T) 15…”

Section: Rna Extraction Rt-qpcr For Mrna Levels and Mrna Half-life Dmentioning

confidence: 99%

“…rDNA loci are very dynamic genome regions whose copy number varies considerably in a single species between individuals, and even between cells in a single individual [5,[10][11][12][13]. Apart from regulating the rDNA copy number, it is also possible to regulate rRNA synthesis by acting on RNA pol I transcription initiation [14] or elongation (see [15] for a recent review), and by controlling the proportion of active rDNA repeats. This last option is possible because repeats can exist as silenced chromatin covered by regularly packaged nucleosomal arrays or as a transcriptionally active and nucleosome-depleted copy [7,16].…”

Section: Introductionmentioning

confidence: 99%

Cell volume homeostatically controls the rDNA repeat copy number and rRNA synthesis rate in yeast

Pérez‐Ortín

Mena

Barba‐Aliaga

et al. 2019

Preprint

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The adjustment of transcription and translation rates to variable needs is of utmost importance for the fitness and survival of living cells. We have previously shown that the global transcription rate for RNA polymerase II is regulated differently in cells presenting symmetrical or asymmetrical cell division. The budding yeast Saccharomyces cerevisiae adopts a particular strategy to avoid that the smaller daughter cells increase their total mRNA concentration with every generation. The global mRNA synthesis rate lowers with a growing cell volume, but global mRNA stability increases. In this paper, we address what the solution is to the same theoretical problem for the RNA polymerase I synthesis rate. We find that the RNA polymerase I synthesis rate strictly depends on the copy number of its 35S rRNA gene. For cells with larger cell sizes, such as a mutant cln3 strain, the rDNA repeat copy number is increased by a mechanism based on a feed-back mechanism in which Sir2 histone deacetylase homeostatically controls the amplification of the rRNA genes at the rDNA locus in a volume-dependent manner.

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Coordinated Control of rRNA Processing by RNA Polymerase I

Cited by 40 publications

References 93 publications

Nucleolar TFIIE plays a role in ribosomal biogenesis and performance

Nucleolar TFIIE plays a role in ribosomal biogenesis and performance

Transcriptional Riboswitches Integrate Timescales for Bacterial Gene Expression Control

Cell volume homeostatically controls the rDNA repeat copy number and rRNA synthesis rate in yeast

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