Rpb1 foot mutations demonstrate a major role of Rpb4 in mRNA stability during stress situations in yeast

Garrido-Godino, Ana I.; García-López, M. Carmen; Garcı́a-Martı́nez, José; Pelechano, Vicent; Medina, Daniel A.; Pérez-Ortín, José E.; Navarro, Francisco

doi:10.1016/j.bbagrm.2016.03.008

Cited by 26 publications

(71 citation statements)

References 59 publications

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“…In addition, the partial dissociation of Rpb4/Rpb7 dimmer leads to an increase in mRNA stability by loss of mRNA imprinting [65,66]. Notably, all these defects are overcome by RPB6 overexpression and agree with previous data pointing to an important role of Rpb6 in RNA pol II integrity/assembly [47,[63][64][65].…”

Section: The Yeast Role In Medical Applications 154supporting

confidence: 80%

Subunits Common to RNA Polymerases

Cuevas-Bermúdez¹,

Martínez-Fernández²,

Garrido-Godino³

et al. 2018

The Yeast Role in Medical Applications

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RNA polymerases are heteromultimeric complexes responsible of RNA synthesis. In yeast, as in the other eukaryotes, these complexes contain five common subunits (Rpb5, Rpb6, Rpb8, Rpb10 and Rpb12) that must have similar functions in the three RNA polymerases. However, some of these proteins have been shown to also have specific roles. In the last few decades, substantial progress has been made to understand the role of these common subunits in transcription, but their participation in the activity of each enzyme remains unclear. This review gives a comprehensive overview of current knowledge on the five common subunits of eukaryotic RNA pol, placing attention not only on their common roles in the activity of the RNA pols but also on describing specific roles for some of the complexes.

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Section: The Yeast Role In Medical Applications 154supporting

confidence: 80%

Subunits Common to RNA Polymerases

Cuevas-Bermúdez¹,

Martínez-Fernández²,

Garrido-Godino³

et al. 2018

The Yeast Role in Medical Applications

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show abstract

“…To determine the amount of RNA, cells were grown in rich media until the exponential phase (see above). Then total RNA was extracted by phenol:chloroform extraction, as described in [30] in three biological replicates and was quantified by an OD 260 estimation in a Nanodrop device (ThermoFisher Scientific) or using the Qubit RNA BR Assay kit (Thermo Fisher Scientific) measured in a Qubit fluorimeter for accurate quantification purposes.…”

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

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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“…Rpb4 has been proposed to interact with mRNA in an Rpb7 dependent manner 7,9,17,18 . The Rpb4/7 dimer participates in several transcription steps, such as transcription initiation 19 and elongation 20 , and dissociates from the RNA pol II core by interacting with mRNA during transcription 7,10,13 , although this statement is not unanimously accepted 7,9,17,18,21 . Furthermore Rpb4 participates in transcription termination and gene looping 22 .…”

Section: Introductionmentioning

confidence: 99%

“…Under optimal growth conditions, Rpb4 serves as a key protein to globally modulate mRNA stability and to coordinate transcription and decay 13 .…”

Section: Introductionmentioning

confidence: 99%

“…Furthermore, Rpb4-mediated post-transcriptional regulation also plays a major role in controlling the Environmental Stress Response (ESR) at both the transcription and mRNA decay levels 13 . A recent study has demonstrated that disturbing Rpb4 dissociation from RNA pol II compromises the posttranscriptional roles of Rpb4 and leads to translation and mRNA decay defects 17 .…”

Section: Introductionmentioning

confidence: 99%

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Rpb4 and Puf3 imprint and post-transcriptionally control the stability of a common set of mRNAs in yeast

Garrido-Godino

Gupta

Gutiérrez-Santiago

et al. 2020

Preprint

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Gene expression involving RNA polymerase II is regulated by the concerted interplay between mRNA synthesis and degradation, crosstalk in which mRNA decay machinery and transcription machinery respectively impact transcription and mRNA stability. Rpb4, and likely dimer Rpb4/7, seem the central components of the RNA pol II governing these processes. In this work we unravel the molecular mechanisms participated by Rpb4 that mediate the posttranscriptional events regulating mRNA imprinting and stability. By RIP-Seq, we analyzed genome-wide the association of Rpb4 with mRNAs and demonstrated that it targeted a large population of more than 1400 transcripts. A group of these mRNAs was also the target of the RNA binding protein, Puf3. We demonstrated that Rpb4 and Puf3 physically, genetically, and functionally interact and also affect mRNA stability, and likely the imprinting, of a common group of mRNAs. Furthermore, the Rpb4 and Puf3 association with mRNAs depends on one another. We also demonstrated, for the first time, that Puf3 associates with chromatin in an Rpb4-dependent manner. Our data also suggest that Rpb4 could be a key element of the RNA pol II that coordinates mRNA synthesis, imprinting and stability in cooperation with RBPs.

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Rpb1 foot mutations demonstrate a major role of Rpb4 in mRNA stability during stress situations in yeast

Cited by 26 publications

References 59 publications

Subunits Common to RNA Polymerases

Subunits Common to RNA Polymerases

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

Rpb4 and Puf3 imprint and post-transcriptionally control the stability of a common set of mRNAs in yeast

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