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RGG motif-containing Scd6/LSM14A proteins regulate the translation of specific mRNAs in response to hydroxyurea-induced genotoxic stress

ABSTRACT: RGG motif-containing Scd6/LSM14A proteins regulate the translation of specific mRNAs in response to hydroxyurea-induced genotoxic stress

PROVIDER: PRJNA1145891 | ENA |

REPOSITORIES: ENA

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			Action	DRS
		Other
	SRR30172900_1.fastq.gz	Fastqsanger.gz
	SRR30172900_2.fastq.gz	Fastqsanger.gz
	SRR30172882_1.fastq.gz	Fastqsanger.gz
	SRR30172882_2.fastq.gz	Fastqsanger.gz

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Similar Datasets

RGG motif-containing Scd6/LSM14A proteins regulate the translation of specific mRNAs in response to hydroxyurea-induced genotoxic stress

Project description:RGG motif-containing proteins are the second largest group of RNA-binding proteins. Here, we identify a unique and conserved role of yeast Scd6 and its human ortholog LSM14A in hydroxyurea (HU)-mediated genotoxic stress response. Scd6/LSM14A, but not all tested RGG-containing proteins, localize to cytoplasmic puncta in an RGG-dependent manner upon HU treatment. The absence of Scd6 increases cellular HU tolerance under normal conditions but sensitizes the cells to HU upon overexpression of SRS2, which is known to dampen the response to DNA damage. Scd6 binds the SRS2 mRNA to repress its translation upon HU stress. This interaction occurs in cytoplasmic granules and is modulated by the arginine methylation status of Scd6 and the Scd6 LSm domain, which acts as a cis-regulator of Scd6 arginine methylation. Polysome profiling experiments indicate that LSM14A regulate the translation of mRNAs encoding non-homologous end joining (NHEJ) DNA damage repair factors such as DNL4 (DNA ligase 4) and RTEL1 (the Srs2 ortholog), as well as the NHEJ activity in response to HU. Overall, the work shows the contribution of arginine methylation and the RGG-containing proteins Scd6/LSM14A in the genotoxic stress response by determining the translation status of a subset of mRNAs.

2025-06-04 | GSE274294 | GEO

RGG-motif self-association regulates eIF4G-binding translation repressor protein Scd6.

Project description:Regulation of mRNA translation plays a key role in the control of gene expression. Scd6, a conserved RGG-motif containing protein represses translation by binding to translation initiation factor eIF4G1. Here we report that Scd6 binds itself in RGG-motif dependent manner and self-association regulates its repression activity. Scd6 self-interaction competes with eIF4G1 binding and methylation of Scd6 RGG-motif by Hmt1 negatively affects self-association. Results pertaining to Sbp1 indicate that self-association could be a general feature of RGG-motif containing translation repressor proteins. Taken together, our study reveals a mechanism of regulation of eIF4G-binding RGG-motif translation repressors.

| S-EPMC6693564 | biostudies-literature

Genome-wilde expression profiling analysis of yeast cells lacking the decapping activator Scd6

Project description:To assess the role of the decapping activator Scd6 in mRNA decay, we used RNA-Seq to analyze the expression profile of yeast cells harboring a deletion of the SCD6 gene. Consistent with our recent model for decapping regulation, we found that Scd6 targets a small number of specific mRNAs in yeast cells. Interestingly, degradation of Scd6-targeted transcripts also requires the functions of the decapping activators Pat1, Lsm1, and Dhh1, suggesting that Scd6 functions together with Pat1, Lsm1, and Dhh1 in promoting mRNA decapping.

2018-05-15 | GSE114428 | GEO

Comparison of the specificities of the RGG/RG-domains of FMR1, FXR1 and FXR2 for small RNA

Project description:In previous studies, we identified a sequence motif (GDCGG) in almost all microRNAs downregulated in the serum of patients with amyotrophic lateral sclerosis. We found that FMR1, FXR1 and FXR2 directly and specifically interact with microRNAs containing the GDCGG motif via their RGG/RG-domains. Here, we compare the specificities for microRNAs of the RGG/RG-domains of FMR1, FXR1 and FXR2 on a transcriptome-wide scale using the Affymetrix GeneChip™ miRNA 3.0 Arrays.

2021-04-21 | GSE101067 | GEO

Scd6 targets eIF4G to repress translation: RGG motif proteins as a class of eIF4G-binding proteins.

Project description:The formation of mRNPs controls the interaction of the translation and degradation machinery with individual mRNAs. The yeast Scd6 protein and its orthologs regulate translation and mRNA degradation in yeast, C. elegans, D. melanogaster, and humans by an unknown mechanism. We demonstrate that Scd6 represses translation by binding the eIF4G subunit of eIF4F in a manner dependent on its RGG domain, thereby forming an mRNP repressed for translation initiation. Strikingly, several other RGG domain-containing proteins in yeast copurify with eIF4E/G and we demonstrate that two such proteins, Npl3 and Sbp1, also directly bind eIF4G and repress translation in a manner dependent on their RGG motifs. These observations identify the mechanism of Scd6 function through its RGG motif and indicate that eIF4G plays an important role as a scaffolding protein for the recruitment of translation repressors.

| S-EPMC3277450 | biostudies-literature

Rgg-dependent transcriptional regulation in SF370 Streptococcus pyogenes strain

Project description:Rgg-dependent transcriptional regulation in SF370 Streptococcus pyogenes strain was analyzed during post-exponential phase of growth Keywords: rgg mutant Microarray analysis was performed using RNA samples isolated from both wild-type SF370 and SF370 rgg mutant strains during post-exponential phase of growth

2010-05-26 | E-GEOD-7335 | biostudies-arrayexpress

Rgg-dependent transcriptional regulation in Streptococcus pyogenes strains MGAS5005 and CS101

Project description:Rgg-dependent transcriptional regulation in Streptococcus pyogenes strains MGAS5005 and CS101 was analyzed during post-exponential phase of growth Keywords: strain comparion, post-exponential growth, rgg mutant Microarray analysis was performed using RNA samples isolated from wild-type MGAS5005 and CS101 strains as well as their rgg mutant strains during post-exponential phase of growth

2010-05-26 | E-GEOD-7341 | biostudies-arrayexpress

Rgg-dependent transcriptional regulation in SF370 Streptococcus pyogenes strain

Project description:Rgg-dependent transcriptional regulation in SF370 Streptococcus pyogenes strain was analyzed during post-exponential phase of growth Keywords: rgg mutant

2008-02-01 | GSE7335 | GEO

Microarray analysis of Rgg-dependent transcriptional regulation in Streptococcus suis serotype 2 strain 05ZYH33

Project description:Streptococcus suis 2 Rgg-dependent transcription was analyzed. Microarray analysis was performed using RNA samples isolated from Streptococcus suis 2 wild-type strain 05ZYH33 as well as RNA isolated from 05ZYH33 rgg isogenic mutant strain during postexponential phases of growth.

2010-06-20 | E-GEOD-21940 | biostudies-arrayexpress

Decapping activators Edc3 and Scd6 act redundantly with Dhh1 in nutrient-replete cells to post-transcriptionally repress starvation-induced pathways [ChIP-seq]

Project description:Degradation of many yeast mRNAs involves decapping by Dcp1:Dcp2. Previous studies on decapping activators Edc3 and Scd6 suggested limited roles in promoting mRNA decay in yeast cells. RNA-seq analysis of mutants lacking one or both proteins reveals that Scd6 and Edc3 have largely redundant activities in targeting numerous mRNAs for degradation, which are masked in the single mutants. These transcripts are frequently targeted by decapping activators Dhh1 and Pat1 and the evidence suggests that Scd6/Edc3 act interchangeably to recruit Dhh1 to Dcp2 independently of Pat1. Ribosome profiling shows that redundancy between Scd6 and Edc3 and their functional interactions with Dhh1 and Pat1 extends to translational repression of particular transcripts, including a cohort of poorly translated mRNAs displaying interdependent regulation by all four factors. Scd6/Edc3 also participate with Dhh1/Pat1 in post-transcriptional repression of proteins required for respiration and catabolism of non-optimal carbon sources, which are normally expressed only in limiting glucose. Simultaneously eliminating Scd6/Edc3 increases mitochondrial membrane potential and elevates metabolites of the tricarboxylic acid and glyoxylate cycles critical for growth at low glucose levels. Thus, Scd6/Edc3 act redundantly, in parallel with Dhh1 and in cooperation with Pat1, to adjust gene expression to nutrient availability by controlling mRNA decapping and decay.

2024-10-08 | GSE270789 | GEO

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