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Ribosome profiling of NEW1 knock-out of budding yeast Saccharomyces cerevisiae

ABSTRACT: Ribosome profiling of NEW1 knock-out of budding yeast Saccharomyces cerevisiae

PROVIDER: PRJEB27604 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR2681850.fastq.gz	Fastqsanger.gz
	ERR2681851.fastq.gz	Fastqsanger.gz
	ERR2681852.fastq.gz	Fastqsanger.gz
	ERR2681853.fastq.gz	Fastqsanger.gz
	ERR2681854.fastq.gz	Fastqsanger.gz

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Ribosome profiling of NEW1 knock-out of budding yeast Saccharomyces cerevisiae

Project description:New1 is not an essential gene but its deletion shows a cold-sensitive phenotype in yeast Saccharomyces cerevisiae. In this study, we compare the NEW1 knockout effect on translation using Ribo-Seq and RNA-Seq analyses.

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Ribosome profiling of NEW1 knock-out as well as the isogenic wild type strain of Saccharomyces cerevisiae. The cultures were grown either at 20°C or 30°C.

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Project description:New1 is a homolog of fungal translation elongation factor 3 (eEF3) inSaccharomyces cerevisiae. Its absence has previously been described to lead to cold sensitivity, ribosome biogenesis defects, and ribosomal queues upstream of Stop codons on selected mRNAs. Here, we find that, especially in cold conditions, lack of New1 induces no-go decay (NGD) on specificmRNAs, leading, as a consequence, to decreased mRNA and protein levels of such genes.The effect correlates with the presence of specific Lysine and Arginine codons just upstream of the Stop codon. In total, more than 10% of yeast coding sequences end with the affected codons. We have confirmed NGD and subsequent downregulation at the protein level for the metabolic enzymes Pgk1, Gpm1, and Adh1, translation elongation factors EF-1 alpha and EF-1 beta (gamma-subunit), ribosomal protein Rps5, as well as ribosome biogenesis factor Nop1 and adenosine kinase Ado1.

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Project description:Ribosome profiling of NEW1 knock-out of budding yeast Saccharomyces cerevisiae

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Project description:Ribosome profiling of budding yeast Saccharomyces cerevisiae in eEF3 depleted conditions

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