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A quasi-integral controller for adaptation of genetic modules to variable ribosome demand.

ABSTRACT: The behavior of genetic circuits is often poorly predictable. A gene's expression level is not only determined by the intended regulators, but also affected by changes in ribosome availability imparted by expression of other genes. Here we design a quasi-integral biomolecular feedback controller that enables the expression level of any gene of interest (GOI) to adapt to changes in available ribosomes. The feedback is implemented through a synthetic small RNA (sRNA) that silences the GOI's mRNA, and uses orthogonal extracytoplasmic function (ECF) sigma factor to sense the GOI's translation and to actuate sRNA transcription. Without the controller, the expression level of the GOI is reduced by 50% when a resource competitor is activated. With the controller, by contrast, gene expression level is practically unaffected by the competitor. This feedback controller allows adaptation of genetic modules to variable ribosome demand and thus aids modular construction of complicated circuits.

SUBMITTER: Huang HH

PROVIDER: S-EPMC6303309 | biostudies-literature | 2018 Dec

REPOSITORIES: biostudies-literature

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A quasi-integral controller for adaptation of genetic modules to variable ribosome demand.

Huang Hsin-Ho HH Qian Yili Y Del Vecchio Domitilla D

Nature communications 20181221 1

The behavior of genetic circuits is often poorly predictable. A gene's expression level is not only determined by the intended regulators, but also affected by changes in ribosome availability imparted by expression of other genes. Here we design a quasi-integral biomolecular feedback controller that enables the expression level of any gene of interest (GOI) to adapt to changes in available ribosomes. The feedback is implemented through a synthetic small RNA (sRNA) that silences the GOI's mRNA, ...[more]

PMID: 30575748

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Project description:We investigated the conceptual capability of Moistube irrigation (MTI) to discharge under zero applied positive pressure and under varied climatic conditions by inducing an artificial evaporative demand (Ed) or negative pressure around Moistube tubing. This study was premised on the null hypothesis that an artificially induced Ed or negative pressure does not impact MTI discharge. Moistube tubing was enclosed in a 1 m long PVC conduit. A 20 l water reservoir placed on an electronic balance provided a continuous supply of water whilst a three-speed hot air blower facilitated the radiative factor and advection process. The procedure was conducted under varied climatic conditions with three air velocity (ua) treatments namely; 1.2 m.s-1, 2.5 m.s-1, and 3.0 m.s-1 and the experiment run times were 159 h, 134 h and 10 h, respectively. The average temperature (Tave) and relative humidity (RH) data for ua = 1.2 m.s-1 were 53°C and 7.31%, whilst for ua = 2.5 m.s-1, Tave was 56°C and RH = 7.19%, and for ua = 3.0 m.s-1, Tave was 63°C and RH = 6.16%. The experimental data was input into the four variable Penman-Monteith method to compute the evaporative demand (Ed). For each Ed, the instantaneous mass flow rate ([Formula: see text]) was recorded using an electronic balance and subsequently converted to volumetric flow rates. For each of the air velocities, the respective Ed values obtained were 0.16, 0.31 and 0.36 mm.d-1. The Bowen ratios (r) were well below 1 (r < 1), which suggested a sufficient supply of moisture to evaporate. For Ed = 0.16 mm.d-1 the vapour pressure deficit (VPD) was 113.08 mbars, whilst for Ed = 0.31 mm.d-1 and for Ed = 0.36 mm.d-1 the VPD were 129.93 mbars and 150.14 mbars, respectively. The recorded discharges (q) at normalised time (t*) = 1 h for Ed = 0.16 mm.d-1 was 7.67*10-3 l.hr-1.m-1 length, whilst for Ed = 0.31 mm.d-1 q = 14.5*10-3 l.hr-1.m-1 length, and for Ed = 0.36 mm.d-1 q = 20.8*10-3 l.hr-1.m-1 length. The imposed negative pressure causes an exponential increase in Moistube™ discharge, thus disproving the null hypothesis. The higher the evaporative demand the higher the discharge. This phenomenon allows MTI to be used for deficit irrigation purposes and allows irrigators to capitalize on realistic soil matric potential irrigation scheduling approach.

Dataset Information

A quasi-integral controller for adaptation of genetic modules to variable ribosome demand.

Publications

A quasi-integral controller for adaptation of genetic modules to variable ribosome demand.

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