Systems biology of <i>GAL</i> regulon in <i>Saccharomyces cerevisiae</i>

Pannala, Venkat R.; Bhat, Paike Jayadeva; Bhartiya, Sharad; Venkatesh, K. V.

doi:10.1002/wsbm.38

Cited by 20 publications

(21 citation statements)

References 54 publications

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“…The K. lactis GAL system model developed in this work has been validated experimentally. As the systems’ level properties, such as ultrasensitivity and memory, arising out of the various molecular mechanisms in S. cerevisiae have been well elucidated [19], it was of interest to compare the steady‐state performance of K. lactis with that of S. cerevisiae . Such a comparison yields the significance of the various molecular interactions in the two networks with similar molecular components.…”

Section: Introductionmentioning

confidence: 99%

Experimental and steady‐state analysis of the GAL regulatory system in Kluyveromyces lactis

Pannala¹,

Bhartiya²,

Venkatesh³

2010

The FEBS Journal

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The galactose uptake mechanism in yeast is a well‐studied regulatory network. The regulatory players in the galactose regulatory mechanism (GAL system) are conserved in Saccharomyces cerevisiae and Kluyveromyces lactis, but the molecular mechanisms that occur as a result of the molecular interactions between them are different. The key differences in the GAL system of K. lactis relative to that of S. cerevisiae are: (a) the autoregulation of KlGAL4; (b) the dual role of KlGal1p as a metabolizing enzyme as well as a galactose‐sensing protein; (c) the shuttling of KlGal1p between nucleus and cytoplasm; and (d) the nuclear confinement of KlGal80p. A steady‐state model was used to elucidate the roles of these molecular mechanisms in the transcriptional response of the GAL system. The steady‐state results were validated experimentally using measurements of β‐galactosidase to represent the expression for genes having two binding sites. The results showed that the autoregulation of the synthesis of activator KlGal4p is responsible for the leaky expression of GAL genes, even at high glucose concentrations. Furthermore, GAL gene expression in K. lactis shows low expression levels because of the limiting function of the bifunctional protein KlGal1p towards the induction process in order to cope with the need for the metabolism of lactose/galactose. The steady‐state model of the GAL system of K. lactis provides an opportunity to compare with the design prevailing in S. cerevisiae. The comparison indicates that the existence of a protein, Gal3p, dedicated to the sensing of galactose in S. cerevisiae as a result of genome duplication has resulted in a system which metabolizes galactose efficiently.

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Section: Introductionmentioning

confidence: 99%

Experimental and steady‐state analysis of the GAL regulatory system in Kluyveromyces lactis

Pannala¹,

Bhartiya²,

Venkatesh³

2010

The FEBS Journal

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“…While native regulated promoters provide a simple solution to key parts they lack orthogonality by being plugged-into yeast's natural regulation networks. Induction of the commonly-used GAL1 and GAL10 promoters, for example, involves multiple native proteins in a mechanism with three feedback loops [35]. Two solutions to this problem, both used for construction of the IRMA network ( Fig.…”

Section: Endogenous Promotersmentioning

confidence: 99%

Construction of synthetic regulatory networks in yeast

2012

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a b s t r a c tYeast species such as Saccharomyces cerevisiae have been exploited by humans for millennia and so it is therefore unsurprising that they are attractive cells to re-engineer for industrial use. Despite many beneficial traits yeast has for synthetic biology, it currently lags behind Escherichia coli in the number of synthetic networks that have been described. While the eukaryotic nature of yeast means that its regulation is not as simple to predict as it is for E. coli, once initial considerations have been made yeast is pleasingly tractable. In this review we provide a loose guide for constructing and implementing synthetic regulatory networks in S. cerevisiae using examples from previous research to highlight available resources, specific considerations and potential future advances.

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“…Switching strategies that establish phenotypic diversity are called bet-hedging [3]. Indeed, experimental and theoretical models of adaptation demonstrate that bet-hedging can evolve to maximize the net growth of the total population [1,2,28,38,42,48]. In [18], a simple differential model was used to show that switching strategies with two thresholds where the switching moment depends not only on the state of the environment, but also on the phenotype itself, can further increase Darwinian fitness of species.…”

Section: Introductionmentioning

confidence: 99%

Asymptotics of sign-changing patterns in hysteretic systems with diffusive thresholds

Gurevich

Рачинский

2015

ASY

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We consider a reaction-diffusion system including discontinuous hysteretic relay operators in reaction terms. This system is motivated by an epigenetic model that describes the evolution of a population of organisms which can switch their phenotype in response to changes of the state of the environment. The model exhibits formation of patterns in the space of distributions of the phenotypes over the range of admissible switching strategies. We propose asymptotic formulas for the pattern and the process of its formation.

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Systems biology of GAL regulon in Saccharomyces cerevisiae

Cited by 20 publications

References 54 publications

Experimental and steady‐state analysis of the GAL regulatory system in Kluyveromyces lactis

Experimental and steady‐state analysis of the GAL regulatory system in Kluyveromyces lactis

Construction of synthetic regulatory networks in yeast

Asymptotics of sign-changing patterns in hysteretic systems with diffusive thresholds

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