A prion-like domain of Tpk2 catalytic subunit of protein kinase A modulates P-body formation in response to stress in budding yeast

Barraza, Carla Eliana; Solari, Clara A.; Rinaldi, Jimena; Ojeda, Lucas; Rossi, Silvia; Ashe, Mark P.; Portela, Paula

doi:10.1016/j.bbamcr.2020.118884

Cited by 9 publications

(10 citation statements)

References 79 publications

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“…Clearly, specific stress-responsive stimulons and the ESR were repressed while ribosome-associated mRNAs were induced. This emerging "high-growth" phenotype in the DS showed striking resemblance with the conditions of other experimental scenarios, all having high PKA activity in common [87,96,107,121,123,124]. Our experimental design, however, involved the same dilution rate during the DS compared to the RS, implying merely transiently downshifting and upshifting signals for protein kinase A.…”

Section: Not a Threat But Still A New Habitat-how Lsl Transitions Ind...mentioning

confidence: 60%

“…Bresson et al provide additional evidence that RiBi and RP genes are specifically flagged for TRAMP-mediated mRNA degradation following glucose withdrawal, with both gene sets exhibiting different degradation dynamics [120]. High PKA activity reportedly inhibits p-body and stress granule formation [121] and more remarkably, the assembly of these structures is independent of TORC1 or Snf1 signaling [122].…”

Section: Not a Threat But Still A New Habitat-how Lsl Transitions Ind...mentioning

confidence: 99%

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Mimicked Mixing-Induced Heterogeneities of Industrial Bioreactors Stimulate Long-Lasting Adaption Programs in Ethanol-Producing Yeasts

Minden

Aniolek

Noorman

2023

Genes

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Commercial-scale bioreactors create an unnatural environment for microbes from an evolutionary point of view. Mixing insufficiencies expose individual cells to fluctuating nutrient concentrations on a second-to-minute scale while transcriptional and translational capacities limit the microbial adaptation time from minutes to hours. This mismatch carries the risk of inadequate adaptation effects, especially considering that nutrients are available at optimal concentrations on average. Consequently, industrial bioprocesses that strive to maintain microbes in a phenotypic sweet spot, during lab-scale development, might suffer performance losses when said adaptive misconfigurations arise during scale-up. Here, we investigated the influence of fluctuating glucose availability on the gene-expression profile in the industrial yeast Ethanol Red™. The stimulus–response experiment introduced 2 min glucose depletion phases to cells growing under glucose limitation in a chemostat. Even though Ethanol Red™ displayed robust growth and productivity, a single 2 min depletion of glucose transiently triggered the environmental stress response. Furthermore, a new growth phenotype with an increased ribosome portfolio emerged after complete adaptation to recurring glucose shortages. The results of this study serve a twofold purpose. First, it highlights the necessity to consider the large-scale environment already at the experimental development stage, even when process-related stressors are moderate. Second, it allowed the deduction of strain engineering guidelines to optimize the genetic background of large-scale production hosts.

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Section: Not a Threat But Still A New Habitat-how Lsl Transitions Ind...mentioning

confidence: 60%

Section: Not a Threat But Still A New Habitat-how Lsl Transitions Ind...mentioning

confidence: 99%

Mimicked Mixing-Induced Heterogeneities of Industrial Bioreactors Stimulate Long-Lasting Adaption Programs in Ethanol-Producing Yeasts

Minden

Aniolek

Noorman

2023

Genes

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“…Such variability is particularly evident in the NTD of Tpk2. This possesses glutamine-rich regions that are predicted to form a prion-like domain (PrLD), which are absent from Tpk1/3 [ 49 ].…”

Section: Unravelling Tpk Isoform Specificitymentioning

confidence: 99%

“…Yeast strains that were deleted for TPK2 or TPK3 also exhibited differences in the expression of multiple mRNAs during heat stress, with Tpk2 seemingly responsible for the resumption of translation initiation after stress and Tpk3 promoting translational repression [ 107 ]. Further study has since revealed that a prion-like domain predicted in the N-terminus of Tpk2 is required for its re-localisation to PBs upon heat stress [ 49 ]. Tpk3 does not carry this N-terminal PrLD and so the mechanism by which this isoform associates with granules is clearly distinct to that of Tpk2 ( Figure 4 ).…”

Section: Control Of the Heat Shock Response By The Camp/pka Pathwaymentioning

confidence: 99%

Yeast Protein Kinase A Isoforms: A Means of Encoding Specificity in the Response to Diverse Stress Conditions?

et al. 2022

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Eukaryotic cells have developed a complex circuitry of signalling molecules which monitor changes in their intra- and extracellular environments. One of the most widely studied signalling pathways is the highly conserved cyclic AMP (cAMP)/protein kinase A (PKA) pathway, which is a major glucose sensing circuit in the yeast Saccharomyces cerevisiae. PKA activity regulates diverse targets in yeast, positively activating the processes that are associated with rapid cell growth (e.g., fermentative metabolism, ribosome biogenesis and cell division) and negatively regulating the processes that are associated with slow growth, such as respiratory growth, carbohydrate storage and entry into stationary phase. As in higher eukaryotes, yeast has evolved complexity at the level of the PKA catalytic subunit, and Saccharomyces cerevisiae expresses three isoforms, denoted Tpk1-3. Despite evidence for isoform differences in multiple biological processes, the molecular basis of PKA signalling specificity remains poorly defined, and many studies continue to assume redundancy with regards to PKA-mediated regulation. PKA has canonically been shown to play a key role in fine-tuning the cellular response to diverse stressors; however, recent studies have now begun to interrogate the requirement for individual PKA catalytic isoforms in coordinating distinct steps in stress response pathways. In this review, we discuss the known non-redundant functions of the Tpk catalytic subunits and the evolving picture of how these isoforms establish specificity in the response to different stress conditions.

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“…Phase-separated membrane-less compartments can both form and dissociate in response to specific signals. P-bodies appear to be constitutive, though much smaller in size and number during times of regular growth, and grow in size and abundance upon stress or inhibition of Protein Kinase A signaling in yeast (Barraza et al, 2021;Paige et al, 2019;Ramachandran et al, 2011). SGs are induced upon stress and their formation is linked to eIF2alpha phosphorylation in mammalian cells (Kedersha et al, 1999), yet in other eukaryotic organisms SGs assemble in both an eIF2alpha-dependent and -independent manner (Groušl et al, 2009;Kato et al, 2011;Kramer et al, 2008;Nilsson & Sunnerhagen, 2011;Shah et al, 2013).…”

Section: P-body and Sg Composition And Structurementioning

confidence: 99%

The role of stress-activated RNA–protein granules in surviving adversity

Escalante

Gasch

2021

RNA

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Severe environmental stress can trigger a plethora of physiological changes and, in the process, significant cytoplasmic reorganization. Stress-activated RNA-protein granules have been implicated in this cellular overhaul by sequestering pre-existing mRNAs and influencing their fates during and after stress acclimation. While the composition and dynamics of stressactivated granule formation have been well studied, their function and impact on RNA-cargo has remained murky. Several recent studies challenge the view that these granules degrade and silence mRNAs present at the onset of stress and instead suggest new roles for these structures in mRNA storage, transit, and inheritance. Here we discuss recent evidence for revised models of stress-activated granule functions and the role of these granules in stress survival and recovery.

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A prion-like domain of Tpk2 catalytic subunit of protein kinase A modulates P-body formation in response to stress in budding yeast

Cited by 9 publications

References 79 publications

Mimicked Mixing-Induced Heterogeneities of Industrial Bioreactors Stimulate Long-Lasting Adaption Programs in Ethanol-Producing Yeasts

Mimicked Mixing-Induced Heterogeneities of Industrial Bioreactors Stimulate Long-Lasting Adaption Programs in Ethanol-Producing Yeasts

Yeast Protein Kinase A Isoforms: A Means of Encoding Specificity in the Response to Diverse Stress Conditions?

The role of stress-activated RNA–protein granules in surviving adversity

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