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RDNA Array Length is a Major Determinant of Replicative Lifespan in Budding Yeast - ATACseq

ABSTRACT: rDNA Array Length is a Major Determinant of Replicative Lifespan in Budding Yeast - ATACseq

PROVIDER: PRJNA796838 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR17601108_1.fastq.gz	Fastqsanger.gz
	SRR17601108_2.fastq.gz	Fastqsanger.gz
	SRR17601109_1.fastq.gz	Fastqsanger.gz
	SRR17601109_2.fastq.gz	Fastqsanger.gz
	SRR17601110_1.fastq.gz	Fastqsanger.gz

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rDNA Array Length is a Major Determinant of Replicative Lifespan in Budding Yeast - ATACseq

Project description:In this study we perform ATAC-seq of budding yeast strains with variable copy number of the rRNA genes (rDNA CN). We aim to better understand the relationship between DNA accessibility and replicative lifespan in strains with variable rDNA CN.

2022-04-05 | GSE193598 | GEO

rDNA Array Length is a Major Determinant of Replicative Lifespan in Budding Yeast.

Project description:rDNA Array Length is a Major Determinant of Replicative Lifespan in Budding Yeast.

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rDNA Array Length is a Major Determinant of Replicative Lifespan in Budding Yeast - RNAseq

Project description:rDNA Array Length is a Major Determinant of Replicative Lifespan in Budding Yeast - RNAseq

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rDNA Array Length is a Major Determinant of Replicative Lifespan in Budding Yeast - RNAseq

Project description:In this study we perform RNA-seq of budding yeast strains with variable copy number of the rRNA genes (rDNA CN) to assess the relationship between rDNA CN and gene expression. RNA-seq was performed on samples both with and without polyA selection (for all transcripts and for rRNA transcripts, respectively).

2022-04-05 | GSE193599 | GEO

rDNA array length is a major determinant of replicative lifespan in budding yeast.

Project description:The complex processes and interactions that regulate aging and determine lifespan are not fully defined for any organism. Here, taking advantage of recent technological advances in studying aging in budding yeast, we discovered a previously unappreciated relationship between the number of copies of the ribosomal RNA gene present in its chromosomal array and replicative lifespan (RLS). Specifically, the chromosomal ribosomal DNA (rDNA) copy number (rDNA CN) positively correlated with RLS and this interaction explained over 70% of variability in RLS among a series of wild-type strains. In strains with low rDNA CN, SIR2 expression was attenuated and extrachromosomal rDNA circle (ERC) accumulation was increased, leading to shorter lifespan. Suppressing ERC formation by deletion of FOB1 eliminated the relationship between rDNA CN and RLS. These data suggest that previously identified rDNA CN regulatory mechanisms limit lifespan. Importantly, the RLSs of reported lifespan-enhancing mutations were significantly impacted by rDNA CN, suggesting that changes in rDNA CN might explain the magnitude of some of those reported effects. We propose that because rDNA CN is modulated by environmental, genetic, and stochastic factors, considering rDNA CN is a prerequisite for accurate interpretation of lifespan data.

| S-EPMC9169770 | biostudies-literature

rDNA Array Length is a Major Determinant of Replicative Lifespan in Budding Yeast.

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

2022-04-05 | GSE193600 | GEO

Pterocarpus marsupium extract extends replicative lifespan in budding yeast.

Project description:As the molecular mechanisms of biological aging become better understood, there is growing interest in identifying interventions that target those mechanisms to promote extended health and longevity. The budding yeast Saccharomyces cerevisiae has served as a premier model organism for identifying genetic and molecular factors that modulate cellular aging and is a powerful system in which to evaluate candidate longevity interventions. Here we screened a collection of natural products and natural product mixtures for effects on the growth rate, mTOR-mediated growth inhibition, and replicative lifespan. No mTOR inhibitory activity was detected, but several of the treatments affected growth rate and lifespan. The strongest lifespan shortening effects were observed for green tea extract and berberine. The most robust lifespan extension was detected from an extract of Pterocarpus marsupium and another mixture containing Pterocarpus marsupium extract. These findings illustrate the utility of the yeast system for longevity intervention discovery and identify Pterocarpus marsupium extract as a potentially fruitful longevity intervention for testing in higher eukaryotes.

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Yeast transcriptome profiling in replicative ageing

Project description:A crucial step towards understanding the mechanisms underlying aging is to obtain an integrated account of the molecular changes during aging. To address this, we mapped the yeast (S. cerevisiae) transcriptome during the replicative lifespan of budding yeast using novel culture and computational methods.

2015-10-06 | E-MTAB-3605 | biostudies-arrayexpress

Protein chaperones elicit a caloric restriction-like response to extend replicative lifespan

Project description:The involvement of protein chaperones in aging is intriguing and their potential contribution has, so far, been attributed solely to their central role in proteostasis. Here we show that four protein chaperones from different cellular compartments extend replicative lifespan (RLS) in budding yeast by a common mechanism akin to caloric restriction. The RLS extension relies on the increased direct activation of Snf1 kinase by Hsp90, thereby bypassing the signal on the environmental glucose level. The chaperone-related RLS extension is accompanied by the uncoupling of the respiratory chain. A genomic approach confirmed the repression of glycolysis and cytoplasmic translation, and contrary, activation of gluconeogenesis and fatty acid oxidation. Our results set a novel paradigm for the role of protein chaperones: by modulation of the chaperone expression level one can affect metabolic features such as glucose sensing, fatty acid consumption, respiration rate, and, consequently, modify lifespan. We expect the described mechanism to open new avenues for research in aging and age-related diseases.

2017-06-28 | GSE71711 | GEO

Moreno2019 - Stochastic model of G1 arrest due to proteostasis decline delimits replicative lifespan in yeast

Project description:This model is described within the paper: A G1 arrest due to proteostasis decline delimits replicative lifespan in yeast David F. Moreno, Kirsten Jenkins, Sandrine Morlot, Gilles Charvin, Attila Csikász-Nagy, Martí Aldea To be implemented in Copasi. Missing Event due to difficulties in SBML conversion to run model upon loading model in COPASI, create an event called Budding. Set the trigger expression to: {Whi5.ParticleNumber} lt 250*({Whi5i.ParticleNumber}+{Whi5.ParticleNumber})/({Whi5.InitialParticleNumber}+{Whi5i.InitialParticleNumber}) AND {Values[Budding]} lt 1. Uncheck boxes for fire at initial time if true and trigger must remain true. Leave priority box blank. Set delay to None. There are 3 targets: the value of budding which should be set to one; the time at budding which should be set to the time; and the unsynced generation which should be set to generation.

2019-11-29 | MODEL1901210001 | BioModels

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