Analyzing and Exploiting the Effects of Protease Sharing in Genetic Circuits
Degradation of proteins in cells plays a large role in the dynamics of gene networks. This degradation is enabled by proteases, which are found in limited quantities in the cell. Proteins that compete for protease may therefore become coupled by non-explicit interactions, which are often neglected i...
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| Format: | Article |
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Elsevier
2018
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| Online Access: | http://hdl.handle.net/1721.1/119166 https://orcid.org/0000-0002-9163-8821 https://orcid.org/0000-0001-6472-8576 |
| _version_ | 1826203616094978048 |
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| author | McBride, Cameron David Del Vecchio, Domitilla |
| author2 | Massachusetts Institute of Technology. Department of Mechanical Engineering |
| author_facet | Massachusetts Institute of Technology. Department of Mechanical Engineering McBride, Cameron David Del Vecchio, Domitilla |
| author_sort | McBride, Cameron David |
| collection | MIT |
| description | Degradation of proteins in cells plays a large role in the dynamics of gene networks. This degradation is enabled by proteases, which are found in limited quantities in the cell. Proteins that compete for protease may therefore become coupled by non-explicit interactions, which are often neglected in mathematical models. In this work, we develop a model for these non-explicit interactions in gene networks. We examine the effects of protease sharing on the number of equilibria of a system and on the steady state protein concentrations. As a consequence of this analysis, we find that protease sharing effects may be used to cancel undesirable effects due to ribosome sharing. |
| first_indexed | 2024-09-23T12:40:26Z |
| format | Article |
| id | mit-1721.1/119166 |
| institution | Massachusetts Institute of Technology |
| last_indexed | 2024-09-23T12:40:26Z |
| publishDate | 2018 |
| publisher | Elsevier |
| record_format | dspace |
| spelling | mit-1721.1/1191662022-10-01T10:26:22Z Analyzing and Exploiting the Effects of Protease Sharing in Genetic Circuits McBride, Cameron David Del Vecchio, Domitilla Massachusetts Institute of Technology. Department of Mechanical Engineering McBride, Cameron David Del Vecchio, Domitilla Degradation of proteins in cells plays a large role in the dynamics of gene networks. This degradation is enabled by proteases, which are found in limited quantities in the cell. Proteins that compete for protease may therefore become coupled by non-explicit interactions, which are often neglected in mathematical models. In this work, we develop a model for these non-explicit interactions in gene networks. We examine the effects of protease sharing on the number of equilibria of a system and on the steady state protein concentrations. As a consequence of this analysis, we find that protease sharing effects may be used to cancel undesirable effects due to ribosome sharing. United States. Air Force. Office of Scientific Research (grant number FA9550-14-1-0060) National Science Foundation (U.S.). Expeditions in Computing (award number 1521925) 2018-11-16T22:05:00Z 2018-11-16T22:05:00Z 2017-10 2018-11-09T16:56:01Z Article http://purl.org/eprint/type/JournalArticle 2405-8963 http://hdl.handle.net/1721.1/119166 McBride, Cameron, and Domitilla Del Vecchio. “Analyzing and Exploiting the Effects of Protease Sharing in Genetic Circuit.” IFAC-PapersOnLine 50, no. 1 (July 2017): 10924–10931. https://orcid.org/0000-0002-9163-8821 https://orcid.org/0000-0001-6472-8576 http://dx.doi.org/10.1016/J.IFACOL.2017.08.2459 IFAC-PapersOnLine Creative Commons Attribution-NonCommercial-NoDerivs License http://creativecommons.org/licenses/by-nc-nd/4.0/ application/pdf Elsevier Elsevier |
| spellingShingle | McBride, Cameron David Del Vecchio, Domitilla Analyzing and Exploiting the Effects of Protease Sharing in Genetic Circuits |
| title | Analyzing and Exploiting the Effects of Protease Sharing in Genetic Circuits |
| title_full | Analyzing and Exploiting the Effects of Protease Sharing in Genetic Circuits |
| title_fullStr | Analyzing and Exploiting the Effects of Protease Sharing in Genetic Circuits |
| title_full_unstemmed | Analyzing and Exploiting the Effects of Protease Sharing in Genetic Circuits |
| title_short | Analyzing and Exploiting the Effects of Protease Sharing in Genetic Circuits |
| title_sort | analyzing and exploiting the effects of protease sharing in genetic circuits |
| url | http://hdl.handle.net/1721.1/119166 https://orcid.org/0000-0002-9163-8821 https://orcid.org/0000-0001-6472-8576 |
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