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Natural Functional Diversity of the Yeast Galactose Network

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HAL Id: hal-01427716

https://hal.inria.fr/hal-01427716

Submitted on 5 Jan 2017

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Natural Functional Diversity of the Yeast Galactose

Network

Florent Chuffart, Eddy Caron, Gael Yvert

To cite this version:

Florent Chuffart, Eddy Caron, Gael Yvert. Natural Functional Diversity of the Yeast Galactose Network. EMBL-EBI-Wellcome Trust Course: In silico Systems Biology, Apr 2012, London, United Kingdom. �hal-01427716�

(2)

SPADES  project  is  funded  by  French  Na:onal  Research  Agency  (08-­‐ANR-­‐SEGI-­‐025)  SiGHT  project  is  funded  by  European  Research  Council  (ERC-­‐StG2011-­‐281359)  

Natural  Func+onal  Diversity  of  the  

Yeast  Galactose  Network  

Florent  Chuffart,  Eddy  Caron  and  Gael  Yvert  

The aim of our research is to study the natural

intra-species variability of the yeast

galactose regulatory network. Our approach consists in studying more that 100 natural strains of yeast (S. cerevisiae).

The Galactose Regulatory Network benefits from both complex and well-characterized [P.J. Bhat, Galactose Regulon of Yeast, 2008] features.

We use a Green Fluorescent Protein (GFP) reporter under the control of the Gal1 Promoter and make single-cell acquisitions by flow cytometry. We will put in perspective in vivo experiments with in silico modelling, based on the models of [M. Acar et al., Nature, vol 435, 12 may 2005], [S. A. Ramsey et al., nature genetics, WIREs SysBio, vol 38, num 9, sept 2006], [V. R. Pannala, Vol 2, Jan/Feb 2010] [Hsu C. et al., Nat Commun. 2012 Feb 21;3:682] we will build a simulator

and perform

and perform dynamic simulations of the galactose response using SPADES. SPADES is high performance computing platform targeting different supercomputer. Parameters of the model will be fit to relevant observations and predictions from simulations will supervise further experiments. Our aim is to run simulations efficiently and to describe which network parameters vary across the species and which ones are stable.

Our expectation is to describe and quantify the variability in terms of response distribution,

kinetics and dose response.

Strain A Strain B Strain C 2   1   7,10   80   4   3   80   3   2   80   1,7,5   GFP  

GFP  

PGal1

2   1   7,10   80   4   3   80   3   2   80   1,7,5   GFP  

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