Genome-wide expression analyses of the stationary phase model of ageing in yeast

Wanichthanarak, Kwanjeera; Wongtosrad, Nutvadee; Petranović, Dina

doi:10.1016/j.mad.2015.05.008

Cited by 11 publications

(8 citation statements)

References 39 publications

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“…This adaptation coincides with a vast transcriptional reprogramming 333435 that includes up-regulation of genes involved in resistance mechanisms to a wide array of stresses. Currently, no transcriptome data are available in the literature on anaerobic SP cultures of S. cerevisiae .…”

Section: Resultsmentioning

confidence: 92%

Oxygen availability strongly affects chronological lifespan and thermotolerance in batch cultures of Saccharomyces cerevisiae

Bisschops¹,

Vos²,

Martínez-Moreno

et al. 2015

MIC

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Stationary-phase (SP) batch cultures of Saccharomyces cerevisiae, in which growth has been arrested by carbon-source depletion, are widely applied to study chronological lifespan, quiescence and SP-associated robustness. Based on this type of experiments, typically performed under aerobic conditions, several roles of oxygen in aging have been proposed. However, SP in anaerobic yeast cultures has not been investigated in detail. Here, we use the unique capability of S. cerevisiae to grow in the complete absence of oxygen to directly compare SP in aerobic and anaerobic bioreactor cultures. This comparison revealed strong positive effects of oxygen availability on adenylate energy charge, longevity and thermotolerance during SP. A low thermotolerance of anaerobic batch cultures was already evident during the exponential growth phase and, in contrast to the situation in aerobic cultures, was not substantially increased during transition into SP. A combination of physiological and transcriptome analysis showed that the slow post-diauxic growth phase on ethanol, which precedes SP in aerobic, but not in anaerobic cultures, endowed cells with the time and resources needed for inducing longevity and thermotolerance. When combined with literature data on acquisition of longevity and thermotolerance in retentostat cultures, the present study indicates that the fast transition from glucose excess to SP in anaerobic cultures precludes acquisition of longevity and thermotolerance. Moreover, this study demonstrates the importance of a preceding, calorie-restricted conditioning phase in the acquisition of longevity and stress tolerance in SP yeast cultures, irrespective of oxygen availability.

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Section: Resultsmentioning

confidence: 92%

Oxygen availability strongly affects chronological lifespan and thermotolerance in batch cultures of Saccharomyces cerevisiae

Bisschops¹,

Vos²,

Martínez-Moreno

et al. 2015

MIC

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“…Both translation and ribosome biogenesis are key targets of the mTOR pathway, which has dramatic effects on longevity (reviewed in Iadevaia et al 2014 ; Lamming 2016 ), and it is therefore perhaps unsurprising that ribosome-related factors are so tightly regulated with age. The age-linked down-regulation of ribosomal proteins and ribosome biogenesis factors has been repeatedly noted in transcriptomic studies of budding yeast (Choi et al 2017 ; Hu et al 2014 ; Janssens et al 2015 ; Kamei et al 2014 ; Philipp et al 2013 ; Wanichthanarak et al 2015 ; Yiu et al 2008 ). Given the high degree of conservation of these pathways and their apparent association with ageing, we expected similar observations to be almost ubiquitous in higher eukaryotes, but in fact, down-regulation of ribosome-related genes has been rarely reported in metazoan model organisms.…”

Section: Candidates For Gene Expression Hallmarks Of Cellular Ageingmentioning

confidence: 82%

Gene expression hallmarks of cellular ageing

2018

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Ageing leads to dramatic changes in the physiology of many different tissues resulting in a spectrum of pathology. Nonetheless, many lines of evidence suggest that ageing is driven by highly conserved cell intrinsic processes, and a set of unifying hallmarks of ageing has been defined. Here, we survey reports of age-linked changes in basal gene expression across eukaryotes from yeast to human and identify six gene expression hallmarks of cellular ageing: downregulation of genes encoding mitochondrial proteins; downregulation of the protein synthesis machinery; dysregulation of immune system genes; reduced growth factor signalling; constitutive responses to stress and DNA damage; dysregulation of gene expression and mRNA processing. These encompass widely reported features of ageing such as increased senescence and inflammation, reduced electron transport chain activity and reduced ribosome synthesis, but also reveal a surprising lack of gene expression responses to known age-linked cellular stresses. We discuss how the existence of conserved transcriptomic hallmarks relates to genome-wide epigenetic differences underlying ageing clocks, and how the changing transcriptome results in proteomic alterations where data is available and to variations in cell physiology characteristic of ageing. Identification of gene expression events that occur during ageing across distant organisms should be informative as to conserved underlying mechanisms of ageing, and provide additional biomarkers to assess the effects of diet and other environmental factors on the rate of ageing.

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“…Also, transcription analyses have shown that Ste12 is a regulatory hub during stationary phase under rapamycin treatment (Wanichthanarak et al 2015), further strengthening the idea that Ste12 and Tec1 link TOR and MAPK-signaling pathways. However, Tec1 promotes cell-cycle progression by activation of Cln1 (Madhani et al 1999), in conflict with the fact that the cell-cycle is arrested in response to nutrient limitation.…”

Section: Discussionmentioning

confidence: 57%

Genome-Wide Mechanisms of Lifespan Extension by Dietary Restriction in Yeast

Garay

et al. 2017

Preprint

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SUMMARYWe show that the transcription factor Ste12 is needed for full lifespan extension and cell-cycle arrest in response to nutrient limitation; linking the pheromone/invasive growth pathway with cell survivorship. Strikingly, STE12 overexpression was sufficient to extend chronological lifespan under non-restricted conditions. Our global picture of the genetic players of longevity by dietary restriction highlights intricate regulatory cross-talks in aging cells.

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Genome-wide expression analyses of the stationary phase model of ageing in yeast

Cited by 11 publications

References 39 publications

Oxygen availability strongly affects chronological lifespan and thermotolerance in batch cultures of Saccharomyces cerevisiae

Oxygen availability strongly affects chronological lifespan and thermotolerance in batch cultures of Saccharomyces cerevisiae

Gene expression hallmarks of cellular ageing

Genome-Wide Mechanisms of Lifespan Extension by Dietary Restriction in Yeast

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