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Time‐dependent regulation analysis dissects shifts between metabolic and gene‐expression regulation during nitrogen starvation in baker’s yeast
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| Zeitschriftentitel: | The FEBS Journal |
|---|---|
| Personen und Körperschaften: | , , , , |
| In: | The FEBS Journal, 276, 2009, 19, S. 5521-5536 |
| Format: | E-Article |
| Sprache: | Englisch |
| veröffentlicht: |
Wiley
|
| Schlagwörter: |
| author_facet |
van Eunen, Karen Bouwman, Jildau Lindenbergh, Alexander Westerhoff, Hans V. Bakker, Barbara M. van Eunen, Karen Bouwman, Jildau Lindenbergh, Alexander Westerhoff, Hans V. Bakker, Barbara M. |
|---|---|
| author |
van Eunen, Karen Bouwman, Jildau Lindenbergh, Alexander Westerhoff, Hans V. Bakker, Barbara M. |
| spellingShingle |
van Eunen, Karen Bouwman, Jildau Lindenbergh, Alexander Westerhoff, Hans V. Bakker, Barbara M. The FEBS Journal Time‐dependent regulation analysis dissects shifts between metabolic and gene‐expression regulation during nitrogen starvation in baker’s yeast Cell Biology Molecular Biology Biochemistry |
| author_sort |
van eunen, karen |
| spelling |
van Eunen, Karen Bouwman, Jildau Lindenbergh, Alexander Westerhoff, Hans V. Bakker, Barbara M. 1742-464X 1742-4658 Wiley Cell Biology Molecular Biology Biochemistry http://dx.doi.org/10.1111/j.1742-4658.2009.07235.x <jats:p>Time‐dependent regulation analysis is a new methodology that allows us to unravel, both quantitatively and dynamically, how and when functional changes in the cell are brought about by the interplay of gene expression and metabolism. In this first experimental implementation, we dissect the initial and late response of baker’s yeast upon a switch from glucose‐limited growth to nitrogen starvation. During nitrogen starvation, unspecific bulk degradation of cytosolic proteins and small organelles (autophagy) occurs. If this is the primary cause of loss of glycolytic capacity, one would expect the cells to regulate their glycolytic capacity through decreasing simultaneously and proportionally the capacities of the enzymes in the first hour of nitrogen starvation. This should lead to regulation of the flux which is initially dominated by changes in the enzyme capacity. However, metabolic regulation is also known to act fast. To analyse the interplay between autophagy and metabolism, we examined the first 4 h of nitrogen starvation in detail using time‐dependent regulation analysis. Some enzymes were initially regulated more by a breakdown of enzyme capacity and only later through metabolic regulation. However, other enzymes were regulated metabolically in the first hours and then shifted towards regulation via enzyme capacity. We conclude that even initial regulation is subtle and governed by different molecular levels.</jats:p> Time‐dependent regulation analysis dissects shifts between metabolic and gene‐expression regulation during nitrogen starvation in baker’s yeast The FEBS Journal |
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| title |
Time‐dependent regulation analysis dissects shifts between metabolic and gene‐expression regulation during nitrogen starvation in baker’s yeast |
| title_unstemmed |
Time‐dependent regulation analysis dissects shifts between metabolic and gene‐expression regulation during nitrogen starvation in baker’s yeast |
| title_full |
Time‐dependent regulation analysis dissects shifts between metabolic and gene‐expression regulation during nitrogen starvation in baker’s yeast |
| title_fullStr |
Time‐dependent regulation analysis dissects shifts between metabolic and gene‐expression regulation during nitrogen starvation in baker’s yeast |
| title_full_unstemmed |
Time‐dependent regulation analysis dissects shifts between metabolic and gene‐expression regulation during nitrogen starvation in baker’s yeast |
| title_short |
Time‐dependent regulation analysis dissects shifts between metabolic and gene‐expression regulation during nitrogen starvation in baker’s yeast |
| title_sort |
time‐dependent regulation analysis dissects shifts between metabolic and gene‐expression regulation during nitrogen starvation in baker’s yeast |
| topic |
Cell Biology Molecular Biology Biochemistry |
| url |
http://dx.doi.org/10.1111/j.1742-4658.2009.07235.x |
| publishDate |
2009 |
| physical |
5521-5536 |
| description |
<jats:p>Time‐dependent regulation analysis is a new methodology that allows us to unravel, both quantitatively and dynamically, how and when functional changes in the cell are brought about by the interplay of gene expression and metabolism. In this first experimental implementation, we dissect the initial and late response of baker’s yeast upon a switch from glucose‐limited growth to nitrogen starvation. During nitrogen starvation, unspecific bulk degradation of cytosolic proteins and small organelles (autophagy) occurs. If this is the primary cause of loss of glycolytic capacity, one would expect the cells to regulate their glycolytic capacity through decreasing simultaneously and proportionally the capacities of the enzymes in the first hour of nitrogen starvation. This should lead to regulation of the flux which is initially dominated by changes in the enzyme capacity. However, metabolic regulation is also known to act fast. To analyse the interplay between autophagy and metabolism, we examined the first 4 h of nitrogen starvation in detail using time‐dependent regulation analysis. Some enzymes were initially regulated more by a breakdown of enzyme capacity and only later through metabolic regulation. However, other enzymes were regulated metabolically in the first hours and then shifted towards regulation via enzyme capacity. We conclude that even initial regulation is subtle and governed by different molecular levels.</jats:p> |
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| author | van Eunen, Karen, Bouwman, Jildau, Lindenbergh, Alexander, Westerhoff, Hans V., Bakker, Barbara M. |
| author_facet | van Eunen, Karen, Bouwman, Jildau, Lindenbergh, Alexander, Westerhoff, Hans V., Bakker, Barbara M., van Eunen, Karen, Bouwman, Jildau, Lindenbergh, Alexander, Westerhoff, Hans V., Bakker, Barbara M. |
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| description | <jats:p>Time‐dependent regulation analysis is a new methodology that allows us to unravel, both quantitatively and dynamically, how and when functional changes in the cell are brought about by the interplay of gene expression and metabolism. In this first experimental implementation, we dissect the initial and late response of baker’s yeast upon a switch from glucose‐limited growth to nitrogen starvation. During nitrogen starvation, unspecific bulk degradation of cytosolic proteins and small organelles (autophagy) occurs. If this is the primary cause of loss of glycolytic capacity, one would expect the cells to regulate their glycolytic capacity through decreasing simultaneously and proportionally the capacities of the enzymes in the first hour of nitrogen starvation. This should lead to regulation of the flux which is initially dominated by changes in the enzyme capacity. However, metabolic regulation is also known to act fast. To analyse the interplay between autophagy and metabolism, we examined the first 4 h of nitrogen starvation in detail using time‐dependent regulation analysis. Some enzymes were initially regulated more by a breakdown of enzyme capacity and only later through metabolic regulation. However, other enzymes were regulated metabolically in the first hours and then shifted towards regulation via enzyme capacity. We conclude that even initial regulation is subtle and governed by different molecular levels.</jats:p> |
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| imprint_str_mv | Wiley, 2009 |
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| spelling | van Eunen, Karen Bouwman, Jildau Lindenbergh, Alexander Westerhoff, Hans V. Bakker, Barbara M. 1742-464X 1742-4658 Wiley Cell Biology Molecular Biology Biochemistry http://dx.doi.org/10.1111/j.1742-4658.2009.07235.x <jats:p>Time‐dependent regulation analysis is a new methodology that allows us to unravel, both quantitatively and dynamically, how and when functional changes in the cell are brought about by the interplay of gene expression and metabolism. In this first experimental implementation, we dissect the initial and late response of baker’s yeast upon a switch from glucose‐limited growth to nitrogen starvation. During nitrogen starvation, unspecific bulk degradation of cytosolic proteins and small organelles (autophagy) occurs. If this is the primary cause of loss of glycolytic capacity, one would expect the cells to regulate their glycolytic capacity through decreasing simultaneously and proportionally the capacities of the enzymes in the first hour of nitrogen starvation. This should lead to regulation of the flux which is initially dominated by changes in the enzyme capacity. However, metabolic regulation is also known to act fast. To analyse the interplay between autophagy and metabolism, we examined the first 4 h of nitrogen starvation in detail using time‐dependent regulation analysis. Some enzymes were initially regulated more by a breakdown of enzyme capacity and only later through metabolic regulation. However, other enzymes were regulated metabolically in the first hours and then shifted towards regulation via enzyme capacity. We conclude that even initial regulation is subtle and governed by different molecular levels.</jats:p> Time‐dependent regulation analysis dissects shifts between metabolic and gene‐expression regulation during nitrogen starvation in baker’s yeast The FEBS Journal |
| spellingShingle | van Eunen, Karen, Bouwman, Jildau, Lindenbergh, Alexander, Westerhoff, Hans V., Bakker, Barbara M., The FEBS Journal, Time‐dependent regulation analysis dissects shifts between metabolic and gene‐expression regulation during nitrogen starvation in baker’s yeast, Cell Biology, Molecular Biology, Biochemistry |
| title | Time‐dependent regulation analysis dissects shifts between metabolic and gene‐expression regulation during nitrogen starvation in baker’s yeast |
| title_full | Time‐dependent regulation analysis dissects shifts between metabolic and gene‐expression regulation during nitrogen starvation in baker’s yeast |
| title_fullStr | Time‐dependent regulation analysis dissects shifts between metabolic and gene‐expression regulation during nitrogen starvation in baker’s yeast |
| title_full_unstemmed | Time‐dependent regulation analysis dissects shifts between metabolic and gene‐expression regulation during nitrogen starvation in baker’s yeast |
| title_short | Time‐dependent regulation analysis dissects shifts between metabolic and gene‐expression regulation during nitrogen starvation in baker’s yeast |
| title_sort | time‐dependent regulation analysis dissects shifts between metabolic and gene‐expression regulation during nitrogen starvation in baker’s yeast |
| title_unstemmed | Time‐dependent regulation analysis dissects shifts between metabolic and gene‐expression regulation during nitrogen starvation in baker’s yeast |
| topic | Cell Biology, Molecular Biology, Biochemistry |
| url | http://dx.doi.org/10.1111/j.1742-4658.2009.07235.x |