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PELOTA and HBS1 suppress co-translational messenger RNA decay in Arabidopsis [GMUCT]

ABSTRACT: PELOTA and HBS1 suppress co-translational messenger RNA decay in Arabidopsis [GMUCT]

PROVIDER: PRJNA1037109 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR26742815.fastq.gz	Fastqsanger.gz
	SRR26742816.fastq.gz	Fastqsanger.gz
	SRR26742817.fastq.gz	Fastqsanger.gz
	SRR26742818.fastq.gz	Fastqsanger.gz
	SRR26742819.fastq.gz	Fastqsanger.gz

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PELOTA and HBS1 suppress co-translational messenger RNA decay in Arabidopsis

Project description:PELOTA and HBS1 suppress co-translational messenger RNA decay in Arabidopsis

| PRJNA1037102 | ENA

PELOTA and HBS1 suppress co-translational messenger RNA decay in Arabidopsis [GMUCT]

Project description:Various messenger RNA (mRNA) decay mechanisms play major roles in controlling mRNA quality and quantity in eukaryotic organisms under different conditions. While it is known that the recently discovered co-translational mRNA decay (CTRD), the mechanism that allows mRNAs to be degraded while still being actively translated, is prevalent in yeast, human, and various angiosperms, the regulation of this decay mechanism is less well studied. Moreover, it is still unclear whether this decay mechanism plays any roles in regulation of specific physiological processes in eukaryotes. Here, by re-analyzing the publicly available polysome profiling or ribosome footprinting and degradome sequencing datasets, we discovered that highly translated mRNAs tend to have lower co-translational decay levels. Based on this finding, we then identified Pelota and Hbs1, the translation-related ribosome rescue factors, as suppressors of co-translational mRNA decay in Arabidopsis. Furthermore, we found that Pelota and Hbs1 null mutants have lower germination rates compared to the wild type plants, implying that proper regulation of co-translational mRNA decay is essential for normal developmental processes. In total, our study provides further insights into the regulation of CTRD in Arabidopsis and demonstrates that this decay mechanism does play important roles in Arabidopsis physiological processes.

2023-12-31 | GSE247329 | GEO

PELOTA and HBS1 suppress co-translational messenger RNA decay in Arabidopsis [mRNA-Seq]

2023-12-31 | GSE247328 | GEO

PELOTA and HBS1 suppress co-translational messenger RNA decay in Arabidopsis [mRNA-Seq]

Project description:PELOTA and HBS1 suppress co-translational messenger RNA decay in Arabidopsis [mRNA-Seq]

| PRJNA1037110 | ENA

PELOTA and HBS1 suppress co-translational messenger RNA decay in Arabidopsis

Project description:This SuperSeries is composed of the SubSeries listed below.

2023-12-31 | GSE247330 | GEO

4EHP and GIGYF1/2 induce translation-coupled messenger RNA decay

Project description:4EHP and GIGYF1/2 induce translation-coupled messenger RNA decay

| PRJNA605114 | ENA

4EHP and GIGYF1/2 induce translation-coupled messenger RNA decay [Wildtype and ZNF598-null]

Project description:4EHP and GIGYF1/2 induce translation-coupled messenger RNA decay [Wildtype and ZNF598-null]

| PRJNA627881 | ENA

4EHP and GIGYF1/2 induce translation-coupled messenger RNA decay

Project description:Although canonical mRNA degradation is generally recognized to be translation dependent, our understanding of the molecular events that coordinate ribosome movement with the decay machinery is still limited. Here, we show that the 4EHP–GIGYF1/2 complex triggers co-translational mRNA decay as a result of altered ribosome activity during elongation. Human cells lacking 4EHP and GIGYF1 and 2 proteins accumulate transcripts known to be degraded in a translation dependent manner or with prominent ribosome pausing. These include mRNAs encoding secretory and membrane-bound proteins or specific tubulin isotypes, among others. 4EHP–GIGYF1/2 fails to reduce target mRNA levels in the absence of ribosome stalling or upon disruption of its interaction with the cap structure, DDX6 and a GYF domain-associated protein. Our studies reveal how a repressor complex linked to neurological disorders minimizes the protein output of a subset of mRNAs.

2020-10-23 | GSE144841 | GEO

Genome-wide mapping of uncapped and cleaved transcripts reveals a role for the nuclear messenger RNA cap-binding complex in plant co-translational RNA decay

Project description:RNA turnover is necessary for controlling proper mRNA levels post-transcriptionally. In general, RNA degradation is via exoribonucleases that degrade RNA either from the 5’ end to the 3’ end, such as XRN4, or in the opposite direction by the multi-subunit exosome complex. Here, we use genome-wide mapping of uncapped and cleaved transcripts to reveal the global landscape of co-translational mRNA decay in the Arabidopsis thaliana transcriptome. We found that this process leaves a clear three nucleotide periodicity in open reading frames. This pattern of co-translational degradation is especially evident near the ends of open reading frames, where we observe accumulation of cleavage events focused 16 to 17 nucleotides upstream of the stop codon because of ribosomal pausing during translation termination. Following treatment of Arabidopsis plants with the translation inhibitor cycloheximide, cleavage events accumulate 13 to 14 nucleotides upstream of the start codon where initiating ribosomes have been stalled with these sequences in their P site. Further analysis in xrn4 mutant plants indicates that co-translational RNA decay is XRN4-dependent. Additionally, studies in plants lacking CAP-BINDING PROTEIN80/ABA HYPERSENSITIVE1, the largest subunit of the nuclear mRNA cap-binding complex, reveal a role for this protein in co-translational decay. In total, our results demonstrate the global prevalence and features of co-translational RNA decay in a plant transcriptome.

2016-09-30 | GSE71913 | GEO

A Novel Route Controlling Begomovirus Resistance by the Messenger RNA Surveillance Factor Pelota.

Project description:Tomato yellow leaf curl virus (TYLCV) is a devastating disease of tomato (Solanum lycopersicum) that can be effectively controlled by the deployment of resistant cultivars. The TYLCV-resistant line TY172 carries a major recessive locus for TYLCV resistance, designated ty-5, on chromosome 4. In this study, the association between 27 polymorphic DNA markers, spanning the ty-5 locus, and the resistance characteristics of individual plants inoculated with TYLCV in 51 segregating recombinant populations were analyzed. These analyses localized ty-5 into a 425 bp region containing two transversions: one in the first exon of a gene encoding the tomato homolog of the messenger RNA surveillance factor Pelota (Pelo), and a second in its proximal promoter. Analyses of susceptible and resistant lines revealed that the relative transcript level of the gene remained unchanged, regardless of whether the plants were infected with TYLCV or not. This suggests that the polymorphism discovered in the coding region of the gene controls the resistance. Silencing of Pelo in a susceptible line rendered the transgenic plants highly resistant, while in the resistant line TY172 had no effect on symptom development. In addition, over-expression of the susceptible allele of the gene in the resistant TY172 line rendered it susceptible, while over-expression of the resistant allele in susceptible plants had no effect. These results confirm that Pelo is the gene controlling resistance at the ty-5 locus. Pelo, implicated in the ribosome recycling-phase of protein synthesis, offers an alternative route to promote resistance to TYLCV and other viruses.

| S-EPMC4598160 | biostudies-literature

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