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2015 ; 12
(1-2
): 69-82
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A simple model for Lutz and Bujard s controllable promoters and its application
for analyzing a simple genetic oscillator
#MMPMID25720352
Zamora-Chimal CG
; Zeron ES
In Silico Biol
2015[]; 12
(1-2
): 69-82
PMID25720352
show ga
We develop an exact and flexible mathematical model for Lutz and Bujard's
controllable promoters. It can be used as a building block for modeling genetic
systems based on them. Special attention is paid to deduce all the model
parameters from reported (in vitro) experimental data. We validate our model by
comparing the regulatory ranges measured in vivo by Lutz and Bujard against the
ranges predicted by the model, and which are calculated as the reporter activity
obtained under inducing conditions divided by the activity measured under maximal
repression. In particular, we verify Bond et al. assertion that the cooperativity
between two lac operators can be assumed to be negligible when their central base
pairs are separated by 22 or 32 bp [Gene repression by minimal lac loops in vivo,
Nucleic Acids Res, 38 (2010) 8072-8082]. Moreover, we also find that the
probability that two repressors LacI bind to these operators at the same time can
be assumed to be negligible as well. We finally use the model for the promoter
P(LlacO-1) to analyze a synthetic genetic oscillator recently build by Stricker
et al. [A fast, robust and tunable synthetic gene oscillator, Nature, 456 (2008)
516-519].