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Dynamics of the Heat Stress Response of Ceramides with Different Fatty-Acyl Chain Lengths in Baker's Yeast.

Chen PW, Fonseca LL, Hannun YA, Voit EO - PLoS Comput. Biol. (2015)

Bottom Line: The article demonstrates that computational modeling has the capacity to convert metabolic snapshots, taken sequentially over time, into a description of cellular, dynamic strategies.The specific application is a detailed analysis of a set of actions with which Saccharomyces cerevisiae responds to heat stress.The details of the sphingolipid responses to heat stress are important, because they guide some of the longer-term alterations in gene expression, with which the cells adapt to the increased temperature.

View Article: PubMed Central - PubMed

Affiliation: Wallace H. Coulter Department of Biomedical Engineering, Georgia Institute of Technology, Atlanta, Georgia, United States of America; The George W. Woodruff School of Mechanical Engineering, Georgia Institute of Technology, Atlanta, Georgia, United States of America.

ABSTRACT
The article demonstrates that computational modeling has the capacity to convert metabolic snapshots, taken sequentially over time, into a description of cellular, dynamic strategies. The specific application is a detailed analysis of a set of actions with which Saccharomyces cerevisiae responds to heat stress. Using time dependent metabolic concentration data, we use a combination of mathematical modeling, reverse engineering, and optimization to infer dynamic changes in enzyme activities within the sphingolipid pathway. The details of the sphingolipid responses to heat stress are important, because they guide some of the longer-term alterations in gene expression, with which the cells adapt to the increased temperature. The analysis indicates that all enzyme activities in the system are affected and that the shapes of the time trends in activities depend on the fatty-acyl CoA chain lengths of the different ceramide species in the system.

No MeSH data available.


Related in: MedlinePlus

Trends in IPC synthase activities.The upper and lower panels show IPC synthase activities from DHC to IPC and from PHC to IPC, respectively. The X-axis represents the 30 minutes of the heat stress experiment, and the Y-axis represents the fold change in activities. In each plot, the blue and gray dots represent averaged and individual enzyme activities, respectively. The yellow and green shading marks similar enzyme activity patterns involved in DHC (top panel) and PHC (bottom panel), respectively.
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pcbi.1004373.g006: Trends in IPC synthase activities.The upper and lower panels show IPC synthase activities from DHC to IPC and from PHC to IPC, respectively. The X-axis represents the 30 minutes of the heat stress experiment, and the Y-axis represents the fold change in activities. In each plot, the blue and gray dots represent averaged and individual enzyme activities, respectively. The yellow and green shading marks similar enzyme activity patterns involved in DHC (top panel) and PHC (bottom panel), respectively.

Mentions: IPC synthase controls a different pathway of ceramide utilization, which results in the synthesis of complex sphingolipids that are members of the IPC family. For long chain (C14 –C18) DHC, an initial activation of IPC synthases is again followed by low activity profiles during the last 10 to 15 minutes (Fig 6). The same is observed for C14 –C24 PHC. By contrast, activities associated with very long C24 –C26 DHC and C26 PHC peak between 10 and 15 minutes. The activities for DHC return to low values within the experimental time period, while the activity with respect to C26 PHC is still increased after 30 minutes.


Dynamics of the Heat Stress Response of Ceramides with Different Fatty-Acyl Chain Lengths in Baker's Yeast.

Chen PW, Fonseca LL, Hannun YA, Voit EO - PLoS Comput. Biol. (2015)

Trends in IPC synthase activities.The upper and lower panels show IPC synthase activities from DHC to IPC and from PHC to IPC, respectively. The X-axis represents the 30 minutes of the heat stress experiment, and the Y-axis represents the fold change in activities. In each plot, the blue and gray dots represent averaged and individual enzyme activities, respectively. The yellow and green shading marks similar enzyme activity patterns involved in DHC (top panel) and PHC (bottom panel), respectively.
© Copyright Policy
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4524633&req=5

pcbi.1004373.g006: Trends in IPC synthase activities.The upper and lower panels show IPC synthase activities from DHC to IPC and from PHC to IPC, respectively. The X-axis represents the 30 minutes of the heat stress experiment, and the Y-axis represents the fold change in activities. In each plot, the blue and gray dots represent averaged and individual enzyme activities, respectively. The yellow and green shading marks similar enzyme activity patterns involved in DHC (top panel) and PHC (bottom panel), respectively.
Mentions: IPC synthase controls a different pathway of ceramide utilization, which results in the synthesis of complex sphingolipids that are members of the IPC family. For long chain (C14 –C18) DHC, an initial activation of IPC synthases is again followed by low activity profiles during the last 10 to 15 minutes (Fig 6). The same is observed for C14 –C24 PHC. By contrast, activities associated with very long C24 –C26 DHC and C26 PHC peak between 10 and 15 minutes. The activities for DHC return to low values within the experimental time period, while the activity with respect to C26 PHC is still increased after 30 minutes.

Bottom Line: The article demonstrates that computational modeling has the capacity to convert metabolic snapshots, taken sequentially over time, into a description of cellular, dynamic strategies.The specific application is a detailed analysis of a set of actions with which Saccharomyces cerevisiae responds to heat stress.The details of the sphingolipid responses to heat stress are important, because they guide some of the longer-term alterations in gene expression, with which the cells adapt to the increased temperature.

View Article: PubMed Central - PubMed

Affiliation: Wallace H. Coulter Department of Biomedical Engineering, Georgia Institute of Technology, Atlanta, Georgia, United States of America; The George W. Woodruff School of Mechanical Engineering, Georgia Institute of Technology, Atlanta, Georgia, United States of America.

ABSTRACT
The article demonstrates that computational modeling has the capacity to convert metabolic snapshots, taken sequentially over time, into a description of cellular, dynamic strategies. The specific application is a detailed analysis of a set of actions with which Saccharomyces cerevisiae responds to heat stress. Using time dependent metabolic concentration data, we use a combination of mathematical modeling, reverse engineering, and optimization to infer dynamic changes in enzyme activities within the sphingolipid pathway. The details of the sphingolipid responses to heat stress are important, because they guide some of the longer-term alterations in gene expression, with which the cells adapt to the increased temperature. The analysis indicates that all enzyme activities in the system are affected and that the shapes of the time trends in activities depend on the fatty-acyl CoA chain lengths of the different ceramide species in the system.

No MeSH data available.


Related in: MedlinePlus