Know more

Our use of cookies

Cookies are a set of data stored on a user’s device when the user browses a web site. The data is in a file containing an ID number, the name of the server which deposited it and, in some cases, an expiry date. We use cookies to record information about your visit, language of preference, and other parameters on the site in order to optimise your next visit and make the site even more useful to you.

To improve your experience, we use cookies to store certain browsing information and provide secure navigation, and to collect statistics with a view to improve the site’s features. For a complete list of the cookies we use, download “Ghostery”, a free plug-in for browsers which can detect, and, in some cases, block cookies.

Ghostery is available here for free:

You can also visit the CNIL web site for instructions on how to configure your browser to manage cookie storage on your device.

In the case of third-party advertising cookies, you can also visit the following site:, offered by digital advertising professionals within the European Digital Advertising Alliance (EDAA). From the site, you can deny or accept the cookies used by advertising professionals who are members.

It is also possible to block certain third-party cookies directly via publishers:

Cookie type

Means of blocking

Analytical and performance cookies

Google Analytics

Targeted advertising cookies


The following types of cookies may be used on our websites:

Mandatory cookies

Functional cookies

Social media and advertising cookies

These cookies are needed to ensure the proper functioning of the site and cannot be disabled. They help ensure a secure connection and the basic availability of our website.

These cookies allow us to analyse site use in order to measure and optimise performance. They allow us to store your sign-in information and display the different components of our website in a more coherent way.

These cookies are used by advertising agencies such as Google and by social media sites such as LinkedIn and Facebook. Among other things, they allow pages to be shared on social media, the posting of comments, and the publication (on our site or elsewhere) of ads that reflect your centres of interest.

Our EZPublish content management system (CMS) uses CAS and PHP session cookies and the New Relic cookie for monitoring purposes (IP, response times).

These cookies are deleted at the end of the browsing session (when you log off or close your browser window)

Our EZPublish content management system (CMS) uses the XiTi cookie to measure traffic. Our service provider is AT Internet. This company stores data (IPs, date and time of access, length of the visit and pages viewed) for six months.

Our EZPublish content management system (CMS) does not use this type of cookie.

For more information about the cookies we use, contact INRA’s Data Protection Officer by email at or by post at:

24, chemin de Borde Rouge –Auzeville – CS52627
31326 Castanet Tolosan CEDEX - France

Dernière mise à jour : Mai 2018

Menu Logo Principal

Home page


Muriel Thomas : Microbiota and digestive and respiratory health

Muriel Thomas, Research Director, INRA - PI of the group
We are studying the bi-directional cross-talk between microbiota and gut epithelium.

Our team is expert in studying the beneficial effects triggered by microbiota. The group combines approaches at the frontier between physiology, microbiology, and nutrition.

logo group

Main results and activities:

1/ fundamental and academic research: microbiota and digestive health. By using gnototiotic rodents (Anaxem germ free facility, MICALIS), we have shown that the microbiota is a main actor shaping the structure, the proliferation and absorption and secretion functions of the intestinal epithelium. Our data reveal that certain microbes engage the functions of epithelial cells and actively shape digestion physiology of host. (Am J Physiol Gastrointest Liver Physiol., 2010 ; Faseb J., 2013 ; BMC Biol., 2013 ; Faseb J 2016 ; ISME J, 2015 ; Critical Reviews in Food Science and Nutrition, 2018).

2/ fundamental and academic research: microbiota and respiratory health.  We have recently shown that appropriate bacterial lung stimuli during early life are critical for susceptibility to allergic asthma in a preclinical model. (ISME J, 2017 ; Frontiers in physiol, 2018).

3/ applied projects with industrials.  We aim at isolating new probiotics or prebiotics and we also establish the mechanisms accounting for their beneficial effects observed in host (Int. J. Food Microbiol, 2010 ; J. Biol. Chem, 2011 ; PLoS One, 2011; Beneficial Microbes, 2013; Plos One, 2012 ; Plos One, 2013; Curr. Opin. Microbiol., 2013, gut microbes., 2014., Mbio, 2015 ; scientific reports, 2016 ; Frontiers in microbiology, 2017 ; Frontiers in physiology, 2018).

4/ translational research. In collaboration with clinicians, we study the intestinal physiology and microbiota of patients with major mal-absorption. (Am.J. Physiol. Gastro.liver, 2009 ; Biochimie, 2010 ; Plos One, 2013 ; Microorganism 2016 ; Scientific reports 2016 ; Frontiers in physiology, 2017).

5/ expertise and collective work. Our engagement in teaching at university, in public health agency (ANSES), specialized societies (SFNEP/SFNCM) and stakeholder (Vitaogora) is an asset to adapt our projects with the public health priorities, regulatory framework and food safety policy (Microbial cell factories, 2015).


Projects funded by ANR :


Project ANR SEVATSHMA (2019-2023) : Defining the severe paediatric asthma endotype: an integrated approach combining phenotypic analyses related to immune, metabolomic, and microbial features

Project ANR CIMMAP (2018-2020): To elucidate mechanisms linked to atopic diseases development using clinical and preclinical approaches and to develop an antenatal nutritional strategy to prevent allergy development in children using prebiotics.

Project ANR ACROBAT (2018-2020): Role of the lung/gut/bone marrow axis and of the microbiota during influenza A virus infection

Project ANR DOPEOS (2017-2019): Development and Optimization of a Production process of Extremely Oxygen Sensitive bacteria for their industrial exploitation.

They are currently working with us :


Aurélia Bruneau (Engeneer, INRA)

Claire Cherbuy. Research Ingeneer /

Claire Cherbuy (Engeneer, INRA)


Eugénie Huillet (researcher, INRA)

P1040454 k selection petite

Camille Mayeur (Engeneer, INRA)

DSC07973 ML selection petite

Marie-Louise Noordine (Technician, INRA)

DSC07981 vero selection petite

Véronique Robert (Assistant Engeneer, INRA)


Yohannes Seyoum (PhD)

elliot mois de resolution

Elliot Mathieu (PhD)

Photo cassandre

Cassandre Bedu-Ferrari (PhD)


Sophie Verstaeten (CDD, Engeneer)

alex plus petit

Alexandre David-Hachette (CDD, Engeneer)


Jennifer Palomo (Post-doc, CDD)

See also

They were working with us :


Unai Escribano-Vasquez (PhD student, 2015-2018)

DSC08105 Laura selection petite

Laura Gillard (PhD student, in collaboration with INSERM, 2012-2015)

aude selection petite

Aude Remot (Post-doc, INRA- AgreenSkill) (2013-2016)


Joanna Radziwill-Bienkowska

Joanna Radziwill-Bienkowska- PhD student (IBB, Varsaw, Poland) - Visiting PhD for 1 year (2013-2014)

P1040477 MMB selection petite

Muriel Mercier-Bonin (Researcher, INRA) - Visiting scientist for 2 years (2012-2014)

DSC07986 julie selection petite

Julie Tomas - PhD student (2010-2013)

Sylvie M

Sylvie Miquel - Post-doc (2011-2013)


Laura Wrzosek - M2 and PhD student (2008-2012)