Publications

Robustness of plant quantitative disease resistance is provided by a decentralized immune network

Florent Delplace, Carine Huard-Chauveau, Ullrich Dubiella, Mehdi Khafif, Eva Alvarez, Gautier Langin, Fabrice Roux, Rémi Peyraud and Dominique Roby

Proc Natl Acad Sci U S. 2020

# Plant Regulatory Network Modeling # Omics # Mutational Analysis  # Plant Environment modeling

Intercellular cooperation in a fungal plant pathogen facilitates host colonization

Rémi Peyraud, Malick Mbengue, Adelin Barbacci, and Sylvain Raffaele

Proc Natl Acad Sci U S. 2019

# Spatiotemporal Plant Infection Modeling # Genome-Scale Network Modeling # Omics

Control of primary metabolism by a virulence regulatory network promotes robustness in a plant pathogen

Rémi Peyraud, Ludovic Cottret, Lucas Marmiesse, and Stéphane Genin

Nat Commun. 2018

# Genome-Scale Network Modeling # Plant Environment modeling # Omics # Evolution

A Resource Allocation Trade-Off between Virulence and Proliferation Drives Metabolic Versatility in the Plant Pathogen Ralstonia solanacearum

Rémi Peyraud, Ludovic Cottret, Lucas Marmiesse, Jérôme Gouzy, and Stéphane Genin

PLoS Pathog. 2016

# Genome-Scale Network Modeling # Omics # Flux Balance Analysis

Genome-scale reconstruction and system level investigation of the metabolic network of Methylobacterium extorquens AM1

Rémi Peyraud, Kathrin Schneider, Patrick Kiefer, Stéphane Massou, Julia A Vorholt, and Jean-Charles Portais

BMC Syst Biol. 2011

# Genome-Scale Network Modeling # Omics # Fluxomics

FlexFlux: combining metabolic flux and regulatory network analyses

Lucas Marmiesse, Rémi Peyraud, and Ludovic Cottret

BMC Syst Biol. 2015

# Genome-Scale Network Modeling # Software

Advances on plant–pathogen interactions from molecular toward systems biology perspectives

Rémi Peyraud, Ullrich Dubiella, Adelin Barbacci, Stéphane Genin, Sylvain Raffaele and Dominique Roby

Plant J. 2017

# Plant microbes interaction modeling # Genome-Scale Network Modeling # Omics

Engineering Methylobacterium extorquensfor de novo synthesis of the sesquiterpenoid α-humulene from methanol

Frank Sonntag, Cora Kroner, Patrice Lubuta, Rémi Peyraud, Angelika Horst Markus Buchhaupt and Jens Schrader

Metab Eng. 2015

# Synthetic biology # Genome-Scale Network Modeling

Demonstration of the ethylmalonyl-CoA pathway by using 13C metabolomics.

Rémi Peyraud, Patrick Kiefer, Philipp Christen, Stephane Massou, Jean-Charles Portais, Julia A. Vorholt

Proc Natl Acad Sci U S A. 2009

# Omics # Fluxomics # Metabolic pathway modeling

Enhanced in planta Fitness through Adaptive Mutations in EfpR, a Dual Regulator of Virulence and Metabolic Functions in the Plant Pathogen Ralstonia solanacearum.

Anthony Perrier, Rémi Peyraud, David Rengel, Xavier Barlet, Emmanuel Lucasson, Jérôme Gouzy, Nemo Peeters, Stéphane Genin, Alice Guidot

PLoS Pathog. 2016

# Omics # Evolution

Comparative transcriptomic studies identify specific expression patterns of virulence factors under the control of the master regulator PhcA in the Ralstonia solanacearum species complex.

Anthony Perrier, Xavier Barlet, Rémi Peyraud, David Rengel, Alice Guidot, Stéphane Genin

Microb Pathog. 2018

# Omics

Codon optimization underpins generalist parasitismn in fungi.

Thomas Badet, Remi Peyraud, Malick Mbengue, Olivier Navaud, Mark Derbyshire, Richard P Oliver, Adelin Barbacci, Sylvain Raffaele

Elife. 2017

# Genomics # Evolution # Cell Machinery Modeling

Methylobacterium genome sequences: a reference blueprint to investigate microbial metabolism of C1 compounds from natural and industrial sources.

Vuilleumier S, Chistoserdova L, Lee MC, Bringel F, Lajus A, Zhou Y, Gourion B, Barbe V, Chang J, Cruveiller S, Dossat C, Gillett W, Gruffaz C, Haugen E, Hourcade E, Levy R, Mangenot S, Muller E, Nadalig T, Pagni M, Penny C, Peyraud R, Robinson DG, Roche D, Rouy Z, Saenampechek C, Salvignol G, Vallenet D, Wu Z, Marx CJ, Vorholt JA, Olson MV, Kaul R, Weissenbach J, Médigue C, Lidstrom ME.

PLoS One. 2009

# Genomics # Genome annotation