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24, chemin de Borde Rouge –Auzeville – CS52627
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Dernière mise à jour : Mai 2018


Laboratory of Plant-Microbe Interactions - LIPM

Laboratory of Plant-Microbe Interactions

Members - Ralstonia adaptation and pathogenesis

Dr Stephane Genin, HDR, DR1 CNRS

Stéphane GENIN

After studying Genetics in Lyon, I received a Ph.D. from the Paris XI-Orsay University in 1993. I spent two years (1993-1995) as a Post-doctoral Fellow at the Department of Genetics at the University of Munich investigating Ustilago maydis filamentous growth, under the direction of Prof. Regine Kahmann. I joined LIPME in the INRAE Toulouse Center in 1989 where I worked with Christian Boucher on several aspects of Ralstonia solanacearum pathogenicity. In 1995 I was recruited as a scientist at CNRS and I am leading the R. solanacearum research group since 2005.

My authored publications via ORCID.


Dr Nemo Peeters, HDR, DR2 INRAE

Nemo Peeters

After studing Biology at the university of Montpellier, I obtained a PhD in january 2000, in plant cell and physiology from the University of Paris XI, Orsay under the supervision of Dr Ian Small at INRAE Versailles. I then spend 2 1/2 years at Cornell university, Ithaca NY, studying chloroplast RNA editing in the lab of Professor Maureen Hanson. in 2002,  joined the group of Stephane Genin to use plant cell biology approaches to study Ralstonia solanacearum type III effectors (T3Es). Since then I have worked on the identification and the characterisation of the multiple T3E from Ralstonia solanacearum. I obtained my HDR in 2007 and have been a Directeur de Recherche at INRAE since decembre 2015.

 My authored publications via ORCID.


Dr Alice Guidot, HDR, CRCN INRA


After studying biology at the University Lyon 1, I did a PhD in the Laboratory of Microbial Ecology in Lyon where I studied population genetics of the ectomycorrhizal fungus Hebeloma cylindrosporum. In 2001-2003, I did a first post-doc on fungal population genetics in the Mycology and forest pathology laboratory at the University of Uppsala in Sweden. In 2004-2007, I did a second post-doc in the CIRAD in Reunion Island where I studied the role of horizontal gene transfers in evolution of the plant pathogenic bacterium Ralstonia solanacearum. In 2008, I joined the group of Stephane Genin to develop an experimental evolution project with R. solanacearum. The principal aim of this project was to identify the molecular bases of adaptation to plants. Genomic analysis of the experimentally evolved clones showing adaptive traits on plants allowed me to identify regulatory genes impacting bacterial fitness in plants. I am now working on the importance of epigenetic alterations in bacterial genomes for adaptation to hosts with one post-doctorate Researcher, Rekha Gopalan-Nair.

 My authored publications via ORCID.


Dr Caroline Baroukh, CRCN INRAE

Caroline Baroukh

In 2010, I obtained a diploma from Ecole Centrale de Lyon as well as a MSc from Imperial College of London. Afterwards, I did my PhD at the Laboratory of Environmental Biotechnology at INRAE Narbonne. During my PhD, I developed a new metabolic modeling approach to model and understand microalgae metabolism submitted to several trophic growths. Then, I did a postdoctorate at the laboratory Physiology and Biotechnology of Algae (IFREMER), where I reconstructed a core metabolic network of Tisochrysis lutea as well as performed experiments to verify the models’ predictions from my PhD. I also did a postdoctorate in the team of Pr. Chachuat in the chemical engineering department of Imperial College of London. There, I developed new metabolic modeling approaches using mathematical optimization. In 2016, I joined the group to develop and apply systems biology approaches aiming at studying in details the link between metabolism and virulence, as well as initiating the modeling of the infectious dynamics of plant pathogens.

 My authored publications via ORCID.

On a non-professional level, one of my favorite hobby is to hold a blog on cooking and pastry


Xavier Barlet, IEHC CNRS


I obtained a Master degree in plant biotechnology at the University of Paris 7 in 1997. I then worked for two years in H. Keller’s lab on plant oomycetes interactions at INRAE Antibes before my recruitment in 2001 by the CNRS for working on a human microarray platform at Villejuif. I joined the LIPME in 2005 where I worked on plant susceptibility to Ralstonia solanacearum. I participated to different microarray programs and to the characterization of different plant mutants leading to tolerance to Rs. I joined the group of Stephane Genin in July 2014. I am also in charge of the BSL-2 facility for working on Rs at LIPME.


My authored publications via ORCID.

Isabelle Mila, AI INRAE


After a Bsc in Biotechnology at University Paul Sabatier, I was recruited at INRAE in 1992. At that time, I worked as a technician at the Laboratoire de Chimie Biologique at Grignon (UMR INRAE-AgroParisTech ) in the team Polyphenols. In parallel, I followed a CNAM cursus and I obtained a MSc in Agribusiness Biochemistry. In 1998, I obtained an engineer assistant position. In 2002, I joined the laboratory Génomique et Biotechnologie des Fruits (UMR INRAE-Ensat) situated at Auzeville. There, I was in charge of the « single cell » experimental system which allows to study proteins/proteins and proteins/DNA interactions implicated in the regulation of target genes. I worked on the plant model tomato. Since September 2020, I joined the LIPME team "Ralstonia, Adaptation and Pathogenesis". I study targets of virulence genes of the bacteria Ralstonia solanacearum in tomato for 75% of my time. The 25% left are dedicated to communication of LIPME, in collaboration with other persons of the lab working on this aspect. 


Patrick Barberis, AI INRAE


Patrick joined the group at the very begining of the work on Ralstonia solanacearum. He has been following the changes from classical genetics to the sequencing of the genome. He has been a key person in managing the Ralstonia solanacearum mutant database and the bioassays on tomato.


Rekha Gopalan-Nair, postdoctorate

Rekha Gopalan Nair

I did my Master's in Molecular Biology at the University of Skӧvde, Sweden (2016). Later I joined LIPME in 2017 as a PhD candidate, which was funded by the LabEx TULIP, “Young Scientists for the Future” edition. The project focused on “understanding the molecular determinants of host adaptation in the plant pathogen Ralstonia solanacearum during experimental evolution” under the direction of Alice Guidot. After obtaining my doctorate in 2020, I continued to work on the same project as a postdoctoral researcher from Dec 2020 with Alice Guidot and Stéphane Genin where I intend to identify the impact of epigenetic modification such as DNA methylation in host adaptation during experimental evolution. 


David Landry, PhD Student, University of Toulouse, doctoral school SEVAB 2018-2021

David Landry

In 2016, I obtained my Master specialized in Plant Biology at University of Poitiers. I did my internship at EBI lab – team SEVE in Poitiers, where I studied the implication of sugar transport in tripartit interaction between: Arabidopsis thalianaPseudomonas fluorescens WSC417r – Botrytis cinerea. Then, I was recruited as engineer at LIPME. I studied decoy domain integrated within R protein in order to demonstrate their interaction with core effectors from Ralstonia solanaceaum. In 2018, I was selected by SEVAB in the PhD contest and I started the PhD under the supervision of Nemo PEETERS and Laurent DESLANDES. The aim of this project is to decipher R protein that recognize the RipAA effector delivered by Ralstonia solanacearum in model plant species Nicotiana benthamiana.


Léo Gerlin, PhD Student, University of Toulouse, doctoral school SEVAB 2018-2021

Leo Gerlin

I obtained a master’s degree in biological engineering at INSA Toulouse in 2018, after a master project in Stéphane Genin’s team. This project aimed to reconstruct and analyze the metabolic network of the bacterium Xylella fastidiosa, and was under the supervision of Caroline Baroukh and Ludovic Cottret. Since October 2018, I started a PhD in the team, funded by a ministerial grant. Under the supervision of Stéphane Genin and Caroline Baroukh, I will develop a metabolic model of the interaction between Ralstonia solanacearum and tomato.