Multi-level kinetic model explaining diverse roles of isozymes in prokaryotes.
Current standard methods for kinetic and genomic modeling cannot provide deep insight into metabolic regulation. Here, we developed and evaluated a multi-scale kinetic modeling approach applicable to any prokaryote. Specifically, we highlight the primary metabolism of the cyanobacterium Synechococcu...
| Main Authors: | , , |
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| Format: | Article |
| Language: | English |
| Published: |
Public Library of Science (PLoS)
2014-01-01
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| Series: | PLoS ONE |
| Online Access: | https://www.ncbi.nlm.nih.gov/pmc/articles/pmid/25127487/pdf/?tool=EBI |
| _version_ | 1819181129445408768 |
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| author | Jiri Jablonsky Doreen Schwarz Martin Hagemann |
| author_facet | Jiri Jablonsky Doreen Schwarz Martin Hagemann |
| author_sort | Jiri Jablonsky |
| collection | DOAJ |
| description | Current standard methods for kinetic and genomic modeling cannot provide deep insight into metabolic regulation. Here, we developed and evaluated a multi-scale kinetic modeling approach applicable to any prokaryote. Specifically, we highlight the primary metabolism of the cyanobacterium Synechococcus elongatus PCC 7942. The model bridges metabolic data sets from cells grown at different CO2 conditions by integrating transcriptomic data and isozymes. Identification of the regulatory roles of isozymes allowed the calculation and explanation of the absolute metabolic concentration of 3-phosphoglycerate. To demonstrate that this method can characterize any isozyme, we determined the function of two glycolytic glyceraldehyde-3-phosphate dehydrogenases: one co-regulates high concentrations of the 3-phosphoglycerate, the other shifts the bifurcation point in hexose regulation, and both improve biomass production. Moreover, the regulatory roles of multiple phosphoglycolate phosphatases were defined for varying (non-steady) CO2 conditions, suggesting their protective role against toxic photorespiratory intermediates. |
| first_indexed | 2024-12-22T22:25:20Z |
| format | Article |
| id | doaj.art-ac44eb06276a4635b97e7e251fcbe855 |
| institution | Directory Open Access Journal |
| issn | 1932-6203 |
| language | English |
| last_indexed | 2024-12-22T22:25:20Z |
| publishDate | 2014-01-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS ONE |
| spelling | doaj.art-ac44eb06276a4635b97e7e251fcbe8552022-12-21T18:10:34ZengPublic Library of Science (PLoS)PLoS ONE1932-62032014-01-0198e10529210.1371/journal.pone.0105292Multi-level kinetic model explaining diverse roles of isozymes in prokaryotes.Jiri JablonskyDoreen SchwarzMartin HagemannCurrent standard methods for kinetic and genomic modeling cannot provide deep insight into metabolic regulation. Here, we developed and evaluated a multi-scale kinetic modeling approach applicable to any prokaryote. Specifically, we highlight the primary metabolism of the cyanobacterium Synechococcus elongatus PCC 7942. The model bridges metabolic data sets from cells grown at different CO2 conditions by integrating transcriptomic data and isozymes. Identification of the regulatory roles of isozymes allowed the calculation and explanation of the absolute metabolic concentration of 3-phosphoglycerate. To demonstrate that this method can characterize any isozyme, we determined the function of two glycolytic glyceraldehyde-3-phosphate dehydrogenases: one co-regulates high concentrations of the 3-phosphoglycerate, the other shifts the bifurcation point in hexose regulation, and both improve biomass production. Moreover, the regulatory roles of multiple phosphoglycolate phosphatases were defined for varying (non-steady) CO2 conditions, suggesting their protective role against toxic photorespiratory intermediates.https://www.ncbi.nlm.nih.gov/pmc/articles/pmid/25127487/pdf/?tool=EBI |
| spellingShingle | Jiri Jablonsky Doreen Schwarz Martin Hagemann Multi-level kinetic model explaining diverse roles of isozymes in prokaryotes. PLoS ONE |
| title | Multi-level kinetic model explaining diverse roles of isozymes in prokaryotes. |
| title_full | Multi-level kinetic model explaining diverse roles of isozymes in prokaryotes. |
| title_fullStr | Multi-level kinetic model explaining diverse roles of isozymes in prokaryotes. |
| title_full_unstemmed | Multi-level kinetic model explaining diverse roles of isozymes in prokaryotes. |
| title_short | Multi-level kinetic model explaining diverse roles of isozymes in prokaryotes. |
| title_sort | multi level kinetic model explaining diverse roles of isozymes in prokaryotes |
| url | https://www.ncbi.nlm.nih.gov/pmc/articles/pmid/25127487/pdf/?tool=EBI |
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