Cargando…
Canonical Modeling of the Multi-Scale Regulation of the Heat Stress Response in Yeast
Heat is one of the most fundamental and ancient environmental stresses, and response mechanisms are found in prokaryotes and shared among most eukaryotes. In the budding yeast Saccharomyces cerevisiae, the heat stress response involves coordinated changes at all biological levels, from gene expressi...
Autores principales: | , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
MDPI
2012
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3901190/ https://www.ncbi.nlm.nih.gov/pubmed/24957376 http://dx.doi.org/10.3390/metabo2010221 |
_version_ | 1782300813829341184 |
---|---|
author | Fonseca, Luis L. Chen, Po-Wei Voit, Eberhard O. |
author_facet | Fonseca, Luis L. Chen, Po-Wei Voit, Eberhard O. |
author_sort | Fonseca, Luis L. |
collection | PubMed |
description | Heat is one of the most fundamental and ancient environmental stresses, and response mechanisms are found in prokaryotes and shared among most eukaryotes. In the budding yeast Saccharomyces cerevisiae, the heat stress response involves coordinated changes at all biological levels, from gene expression to protein and metabolite abundances, and to temporary adjustments in physiology. Due to its integrative multi-level-multi-scale nature, heat adaptation constitutes a complex dynamic process, which has forced most experimental and modeling analyses in the past to focus on just one or a few of its aspects. Here we review the basic components of the heat stress response in yeast and outline what has been done, and what needs to be done, to merge the available information into computational structures that permit comprehensive diagnostics, interrogation, and interpretation. We illustrate the process in particular with the coordination of two metabolic responses, namely the dramatic accumulation of the protective disaccharide trehalose and the substantial change in the profile of sphingolipids, which in turn affect gene expression. The proposed methods primarily use differential equations in the canonical modeling framework of Biochemical Systems Theory (BST), which permits the relatively easy construction of coarse, initial models even in systems that are incompletely characterized. |
format | Online Article Text |
id | pubmed-3901190 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2012 |
publisher | MDPI |
record_format | MEDLINE/PubMed |
spelling | pubmed-39011902014-05-27 Canonical Modeling of the Multi-Scale Regulation of the Heat Stress Response in Yeast Fonseca, Luis L. Chen, Po-Wei Voit, Eberhard O. Metabolites Article Heat is one of the most fundamental and ancient environmental stresses, and response mechanisms are found in prokaryotes and shared among most eukaryotes. In the budding yeast Saccharomyces cerevisiae, the heat stress response involves coordinated changes at all biological levels, from gene expression to protein and metabolite abundances, and to temporary adjustments in physiology. Due to its integrative multi-level-multi-scale nature, heat adaptation constitutes a complex dynamic process, which has forced most experimental and modeling analyses in the past to focus on just one or a few of its aspects. Here we review the basic components of the heat stress response in yeast and outline what has been done, and what needs to be done, to merge the available information into computational structures that permit comprehensive diagnostics, interrogation, and interpretation. We illustrate the process in particular with the coordination of two metabolic responses, namely the dramatic accumulation of the protective disaccharide trehalose and the substantial change in the profile of sphingolipids, which in turn affect gene expression. The proposed methods primarily use differential equations in the canonical modeling framework of Biochemical Systems Theory (BST), which permits the relatively easy construction of coarse, initial models even in systems that are incompletely characterized. MDPI 2012-02-27 /pmc/articles/PMC3901190/ /pubmed/24957376 http://dx.doi.org/10.3390/metabo2010221 Text en © 2012 by the authors; licensee MDPI, Basel, Switzerland. http://creativecommons.org/licenses/by/3.0/ This article is an open-access article distributed under the terms and conditions of the Creative Commons Attribution license (http://creativecommons.org/licenses/by/3.0/). |
spellingShingle | Article Fonseca, Luis L. Chen, Po-Wei Voit, Eberhard O. Canonical Modeling of the Multi-Scale Regulation of the Heat Stress Response in Yeast |
title | Canonical Modeling of the Multi-Scale Regulation of the Heat Stress Response in Yeast |
title_full | Canonical Modeling of the Multi-Scale Regulation of the Heat Stress Response in Yeast |
title_fullStr | Canonical Modeling of the Multi-Scale Regulation of the Heat Stress Response in Yeast |
title_full_unstemmed | Canonical Modeling of the Multi-Scale Regulation of the Heat Stress Response in Yeast |
title_short | Canonical Modeling of the Multi-Scale Regulation of the Heat Stress Response in Yeast |
title_sort | canonical modeling of the multi-scale regulation of the heat stress response in yeast |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3901190/ https://www.ncbi.nlm.nih.gov/pubmed/24957376 http://dx.doi.org/10.3390/metabo2010221 |
work_keys_str_mv | AT fonsecaluisl canonicalmodelingofthemultiscaleregulationoftheheatstressresponseinyeast AT chenpowei canonicalmodelingofthemultiscaleregulationoftheheatstressresponseinyeast AT voiteberhardo canonicalmodelingofthemultiscaleregulationoftheheatstressresponseinyeast |