Effect of DNA looping on the induction kinetics of the \textit{lac} operon
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Publication:2219774
DOI10.1016/J.JTBI.2007.03.030zbMATH Open1455.92047arXivq-bio/0702039OpenAlexW1974444878WikidataQ51008436 ScholiaQ51008436MaRDI QIDQ2219774FDOQ2219774
Publication date: 21 January 2021
Published in: Journal of Theoretical Biology (Search for Journal in Brave)
Abstract: The induction of the lac operon follows cooperative kinetics.The first mechanistic model of these kinetics is the de facto standard in the modeling literature (Yagil & Yagil, Biophys J, 11, 11-27, 1971). Yet, subsequent studies have shown that the model is based on incorrect assumptions. Specifically, the repressor is a tetramerwith four (not two) inducer-binding sites, and the operon contains two auxiliary operators (in addition to the main operator). Furthermore, these structural features are crucial for the formation of DNA loops, the key determinants of lac repression and induction. Indeed, the repression is determined almost entirely (>95%) by the looped complexes (Oehler et al, EMBO J, 13, 3348, 1990), and the pronounced cooperativity of the induction curve hinges upon the existence of the looped complexes (Oehler et al, Nucleic Acids Res, 34, 606, 2006). Here, we formulate a model of lac induction taking due account of the tetrameric structure of the repressor and the existence of looped complexes. We show that: (1) The kinetics are significantly more cooperative than those predicted by the Yagil & Yagil model. (2) The model provides good fits to the repression data for cells containing tetrameric (or mutant dimeric) repressor, as well as the induction curves for 6 different strains of E. coli. It also implies that the ratios of certain looped and non-looped complexes are independent of inducer and repressor levels, a conclusion that can be rigorously tested by gel electrophoresis. (3) Repressor overexpression dramatically increases the cooperativity of the induction curve. This suggests that repressor overexpression can induce bistability in systems, such as growth of E. coli on lactose, that are otherwise monostable.
Full work available at URL: https://arxiv.org/abs/q-bio/0702039
mathematical modelinductiontranscriptional regulationDNA loopingbacterial gene regulation\textit{lac} operon
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