dorsal/arxiv
View SchemaEffect of DNA looping on the induction kinetics of the lac operon
| Authors | Atul Narang |
|---|---|
| Categories | |
| ArXiv ID | q-bio/0702039 |
| URL | https://arxiv.org/abs/q-bio/0702039 |
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.
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"abstract": "The induction of the lac operon follows cooperative kinetics.The first\nmechanistic model of these kinetics is the de facto standard in the modeling\nliterature (Yagil \u0026 Yagil, Biophys J, 11, 11-27, 1971). Yet, subsequent studies\nhave shown that the model is based on incorrect assumptions. Specifically, the\nrepressor is a tetramerwith four (not two) inducer-binding sites, and the\noperon contains two auxiliary operators (in addition to the main operator).\nFurthermore, these structural features are crucial for the formation of DNA\nloops, the key determinants of lac repression and induction. Indeed, the\nrepression is determined almost entirely (\u003e95%) by the looped complexes (Oehler\net al, EMBO J, 13, 3348, 1990), and the pronounced cooperativity of the\ninduction curve hinges upon the existence of the looped complexes (Oehler et\nal, Nucleic Acids Res, 34, 606, 2006). Here, we formulate a model of lac\ninduction taking due account of the tetrameric structure of the repressor and\nthe existence of looped complexes. We show that: (1) The kinetics are\nsignificantly more cooperative than those predicted by the Yagil \u0026 Yagil model.\n(2) The model provides good fits to the repression data for cells containing\ntetrameric (or mutant dimeric) repressor, as well as the induction curves for 6\ndifferent strains of E. coli. It also implies that the ratios of certain looped\nand non-looped complexes are independent of inducer and repressor levels, a\nconclusion that can be rigorously tested by gel electrophoresis. (3) Repressor\noverexpression dramatically increases the cooperativity of the induction curve.\nThis suggests that repressor overexpression can induce bistability in systems,\nsuch as growth of E. coli on lactose, that are otherwise monostable.",
"arxiv_id": "q-bio/0702039",
"authors": [
"Atul Narang"
],
"categories": [
"q-bio.MN",
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"title": "Effect of DNA looping on the induction kinetics of the lac operon",
"url": "https://arxiv.org/abs/q-bio/0702039"
},
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