Ammonia Pulses and Metabolic Oscillations Guide Yeast Colony Development

Palková, Zdena; Devaux, Frédéric; Řičicová, Markéta; Minarikova, Lucie; Crom, Stéphane Le; Jacq, Claude

doi:10.1091/mbc.e01-12-0149

Cited by 131 publications

(191 citation statements)

References 30 publications

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“…earlier than in the wt strain), but its overall level of expression from the 26th h onwards was lower than in the wt. Most of the above data indicate that pdr5/snq2 cultures activate a metabolism to some extent similar to that described previously on glycerol medium [32].…”

Section: The Absence Of Pdr5p and Snq2p But Not Of Yor1p Influencessupporting

confidence: 85%

Putative role for ABC multidrug exporters in yeast quorum sensing

et al. 2009

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a b s t r a c tPleiotropic drug resistance (PDR) transporters play essential roles in cell resistance to various toxic compounds in various organisms including bacteria, mammals and yeasts. A large group of PDR transporters have been described in yeasts so far, including those that are controlled by transcription factor Pdr1p. Here, we show that besides their role in removing extracellularly added toxic compounds, the Pdr5p and Snq2p transporters play important physiological roles and significantly influence the developmental phases and physiology of yeast populations growing in a liquid culture. They appear to be involved in population quorum sensing, which consequently influences transcription factor Pdr1p level via feedback regulation.

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Section: The Absence Of Pdr5p and Snq2p But Not Of Yor1p Influencessupporting

confidence: 85%

Putative role for ABC multidrug exporters in yeast quorum sensing

et al. 2009

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“…3 and 4). These defects can be related to the fact that sok2 colonies do not produce a significant amount of volatile ammonia, the proposed signal of nutrient exhaustion, of transient growth arrest, and of changes allowing cells to economize their metabolism (1,3). The process of ammonia production can be influenced at least at three steps: (i) formation of free intracellular ammonium, (ii) export of ammonium out of the cells, and (iii) conversion of NH 4 ϩ to NH 3 and its volatilization.…”

Section: Discussionmentioning

confidence: 99%

“…Our previous findings revealed that the acid-to-alkali colony transition is connected with significant changes in gene expression, indicating a parallel decrease in stress factors and mitochondrial respiratory functions, a switch from the mitochondrial citrate cycle to the methylglyoxylate cycle, enabling more economical exploitation of nutrients, and mobilization of cell reserves by means of ␤-oxidation of fatty acids in peroxisomes. Additionally, we observed significant changes in the expression of genes coding for various membrane proteins/transporters including those that may be important for ammonia production (Ato transporters) (3). Monitoring the behavior of colonies of strains defective in several particular genes allowed us to identify the gene encoding transcription factor Sok2p as a regulator possibly affecting long term colony development.…”

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confidence: 99%

Sok2p Transcription Factor Is Involved in Adaptive Program Relevant for Long Term Survival of Saccharomyces cerevisiae Colonies

Váchová

Devaux

Kučerová

et al. 2004

Journal of Biological Chemistry

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Volatile ammonia functions as a long range alarm signal important for the transition of yeast colonies to their adaptive alkali developmental phase and for their consequent long term survival. Cells of aged Saccharomyces cerevisiae sok2 colonies deleted in the gene for Sok2p transcription factor are not able to release a sufficient amount of ammonia out of the cells, they are more fragile than cells of wild type colonies, and they exhibit a survival defect. Genome-wide analysis on gene expression differences between sok2 and WT colonies revealed that sok2 colonies are not able to switch on the genes of adaptive metabolisms effectively and display unbalanced expression and activity of various enzymes involved in cell protection against oxidative damage. Impaired amino acid metabolism and insufficient activation of genes for putative ammonium exporters Ato and of those for some other membrane transporters may be responsible for observed defects in ammonia production. Thus, Sok2p appears to be an important regulator of S. cerevisiae colony development. Gene expression differences caused by its absence in colonies differ from those described previously in liquid cultures, which suggests a pleiotropic effect of Sok2p under different conditions.

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“…Remarkably seven subunits of the F 0 F 1 -ATPase were phosphorylated, suggesting that this central machinery for cellular ATP production is a frequent target for covalent modification. Among the phosphorylated transport proteins, Ato2, Ato3, and Ady2 belong to the GPR1/FUN34/yaaH family and are potential permeases for acetate and ammonium (66,67). For Ato2, Ato3, and Yat1 of the lipid metabolism group, a role in mitochondrial retrograde signaling was reported (6).…”

Section: Identification Of Phosphorylation Sites Of Yeastmentioning

confidence: 99%

Profiling Phosphoproteins of Yeast Mitochondria Reveals a Role of Phosphorylation in Assembly of the ATP Synthase

Reinders

Wagner

Zahedi

et al. 2007

Molecular & Cellular Proteomics

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Mitochondria are crucial for numerous cellular processes, yet the regulation of mitochondrial functions is only understood in part. Recent studies indicated that the number of mitochondrial phosphoproteins is higher than expected; however, the effect of reversible phosphorylation on mitochondrial structure and function has only been defined in a few cases. It is thus crucial to determine authentic protein phosphorylation sites from highly purified mitochondria in a genetically tractable organism. The yeast Saccharomyces cerevisiae is a major model organism for the analysis of mitochondrial functions. We isolated highly pure yeast mitochondria and performed a systematic analysis of phosphorylation sites by a combination of different enrichment strategies and mass spectrometry. We identified 80 phosphorylation sites in 48 different proteins. These mitochondrial phosphoproteins are involved in critical mitochondrial functions, including energy metabolism, protein biogenesis, fatty acid metabolism, metabolite transport, and redox regulation. By combining yeast genetics and in vitro biochemical analysis, we found that phosphorylation of a serine residue in subunit g (Atp20) regulates dimerization of the mitochondrial ATP synthase. The authentic phosphoproteome of yeast mitochondria will represent a rich source to uncover novel roles of reversible protein phosphorylation. Molecular & Cellular Proteomics 6:1896 -1906, 2007.Mitochondria are the central organelle for the energy metabolism of eukaryotic cells and are critical for numerous metabolic pathways, including that for amino acids, lipids, heme, and iron-sulfur clusters, and play key roles in the regulation of programmed cell death (1-5). It is evident that these processes have to be tightly regulated to permit a mitochondrial response to changes in energy demand, cellular metabolism, or environmental conditions (6, 7). Until recently the most common regulatory mechanism of eukaryotic cells, reversible phosphorylation (8 -10), was considered to represent an exception in the case of mitochondria, including the E1 subunit of pyruvate dehydrogenase and the branched-chain ␣-ketoacid dehydrogenase (11)(12)(13)(14).A number of recent studies have provided evidence that phosphorylation of mitochondrial proteins is much more frequent than expected (15-23). (i) Incubation of isolated mitochondria with radiolabeled ATP or staining of mitochondrial proteins with phosphospecific dyes suggested that a substantial fraction of mitochondrial proteins are phosphorylated (24 -27). A limitation of these approaches is the inability to identify the specific phosphorylated amino acid residues in addition to the possibility of nonspecific labeling of proteins.(ii) Proteomics analysis of isolated mitochondria by mass spectrometry revealed the presence of numerous protein kinases and phosphatases (28 -34), implying that reversible protein phosphorylation may be a widespread mechanism of regulating mitochondrial function. The most comprehensive proteomics analysis of mitochondria, the PROM...

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Ammonia Pulses and Metabolic Oscillations Guide Yeast Colony Development

Cited by 131 publications

References 30 publications

Putative role for ABC multidrug exporters in yeast quorum sensing

Putative role for ABC multidrug exporters in yeast quorum sensing

Sok2p Transcription Factor Is Involved in Adaptive Program Relevant for Long Term Survival of Saccharomyces cerevisiae Colonies

Profiling Phosphoproteins of Yeast Mitochondria Reveals a Role of Phosphorylation in Assembly of the ATP Synthase

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