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  • Technician
  • Undergraduate Student
  • Veterinary
  • Visiting Scientist
  • Deputy Director of Center
  • Deputy Director of Department
  • Deputy Director of National Reference Center
  • Deputy Head of Facility
  • Director of Center
  • Director of Department
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About

After a PhD in bioinformatics and microbial ecology, I joined the team of C. Brochier-Armanet (Laboratoire de Biométrie et Biologie Évolutive) for a 2 years postdoc to study the deep evolution history of Archaea and Bacteria. Then I performed a postdoc at Institut Pasteur in S Gribaldo’s team to develop phylogenomic approaches aiming at tackling ancient evolutionary events within the microbial world. Since January 2018, I integrated the HUB as a permanent bioinformatician and I am involved in phylogenomic, metagenomics and comparative genomics projects.

Courses

09:00
13
Dec 2021
Course

Introduction à la Phylogénie Moléculaire : Concepts, méthodes et interprétation

Ce cours a pour objectif d’enseigner les bases théoriques et pratiques nécessaires à la conduite d’analyses phylogénétiques. Les sessions théoriques seront consacrées aux bases du domaine (représentation et combinatoire des arbres, modèles d’évolution) et […]
Arboviruses and Insect Vectors
Bioinformatics and Biostatistics HUB
Evolutionary Biology of the Microbial Cell
Alexis Criscuolo
Catherine Dauga
Julien Guglielmini
Frédéric Lemoine
Anna Zhukova
Najwa Taib
2021-12-13 09:00:00 2021-12-17 19:00:00 Europe/Paris Introduction à la Phylogénie Moléculaire : Concepts, méthodes et interprétation Ce cours a pour objectif d’enseigner les bases théoriques et pratiques nécessaires à la conduite d’analyses phylogénétiques. Les sessions théoriques seront consacrées aux bases du domaine (représentation et combinatoire des arbres, modèles d’évolution) et […] 28 Rue du Dr Roux, Paris, France
09:00
14
Dec 2020
Course

Introduction to Molecular Phylogenetics – ENS Paris

Introduction to Molecular Phylogenetics course aims to give the basic theoretical and practical concepts, best practices, and software necessary to start working on molecular phylogenetics and its applications to epidemiology. The course will have […]
INCEPTION – Institut Convergence for the study of Emergence of Pathology Through Individuals and Populations
Computational Biology
Catherine Dauga
Olivier Gascuel
Julien Guglielmini
Alexis Criscuolo
Frédéric Lemoine
Anna Zhukova
Najwa Taib
2020-12-14 09:00:00 2020-12-18 18:00:00 Europe/Paris Introduction to Molecular Phylogenetics – ENS Paris Introduction to Molecular Phylogenetics course aims to give the basic theoretical and practical concepts, best practices, and software necessary to start working on molecular phylogenetics and its applications to epidemiology. The course will have […] Ens Ulm, Rue d'Ulm, Paris, France
09:30
07
Oct 2019
Course

Introduction à la Phylogénie Moléculaire : Concepts, méthodes et interprétation

Ce cours a pour objectif de donner les bases théoriques et pratiques, ainsi que les bonnes pratiques nécessaires au démarrage de travaux en phylogénie et épidémiologie moléculaires. Les sessions théoriques donneront les bases du […]
Bioinformatics and Biostatistics HUB
Computational Biology
Olivier Gascuel
Frédéric Lemoine
Julien Guglielmini
Alexis Criscuolo
Anna Zhukova
Najwa Taib
Catherine Dauga
2019-10-07 09:30:00 2019-11-11 17:30:00 Europe/Paris Introduction à la Phylogénie Moléculaire : Concepts, méthodes et interprétation Ce cours a pour objectif de donner les bases théoriques et pratiques, ainsi que les bonnes pratiques nécessaires au démarrage de travaux en phylogénie et épidémiologie moléculaires. Les sessions théoriques donneront les bases du […] 28 Rue du Dr Roux, Paris, France

Projects

Project
Ongoing
9 Members

FRM- Human-associated archaea: evolution, adaptation, interactions

Simonetta Gribaldo (PI)

The Archaea are largely known as microorganisms thriving in extreme environments, but are in fact ubiquitouly found in nature. Importantly, archaeal methanogens are also stable members of the human gastrointestinal tract (GIT), where they […]
Project
Ongoing
13 Members

OM-LipAsy

Christophe Beloin (PI)

The outer membrane (OM) is an essential element in Gram-negative (diderm) bacteria. Its integrity is maintained by the control of lipids asymmetry via LPS and phospholipids transport by the Lpt and Mla systems, respectively. […]
Project
Ongoing
3 Members

ANR-METHEVOL: Characterization of new players and evolutionary transitions in the methane metabolism, a backbone in the evolution of the archaeal domain

Guillaume Borrel (PI)

Methanogenesis is an archaeal-specific metabolism that could have been active as early as 3.5 Gy ago with a direct impact on the evolution of the Earth’s climate system, as well as on current global […]
Project
Ongoing
5 Members

ANR-VIROMET-Uncovering the VIRome of archaeal METhanogens

Simonetta Gribaldo (PI)

Methanogenic archaea are phylogenetically diverse, ancient and environmentally widespread. They are common inhabitants of the gastrointestinal tract of humans and other animals, and produce methane, a potent green-house gas, as a metabolic by-product. Despite […]
Project
Completed
4 Members

ANR Fir-OM: Firmicutes with an outer membrane: toward new models to study the diderm/monoderm cell envelope transition

Simonetta Gribaldo (PI)

The bacterial envelope is one of the oldest and most essential cellular components, being involved in key housekeeping functions, such as physical integrity, cell division, motility, substrate uptake and secretion, and cell-cell communication. It […]
Project
Completed
4 Members

PTR OmNega: A multi-disciplinary investigation of the Negativicutes: atypical Firmicutes with LPS-outer membranes that inhabit the human gut

Simonetta Gribaldo (PI)

The Negativicutes are a poorly studied lineage of bacteria that include common inhabitants of the human oral and gut microbiome such as the anaerobe Veillonella, and which can also develop into opportunistic pathogens. Despite […]

CV

Experiences

  • 2018
    Bioinformatician
    Institut Pasteur (EBMC Unit – Bioinformatics and Biostatistics HUB)

     

    2017
    Postdoctoral fellow (9 months)
    Institut Pasteur (BMGE Unit)

     

    2015
    Postdoctoral fellow (2 years)
    Laboratoire de Biométrie et Biologie Évolutive, Université Lyon 1

     

    2013
    Postdoctoral fellow (1,5 years)
    Laboratoire Microorganismes : Génome et Environnement, Université Clermont

     

Education

  • 2013
    Phd in Bioinformatics at Université Blaise Pascal, Clermont-Ferrand
    Exploring the microbial diversity from high throughput sequencing

     

    2009
    Master 2 research at Université Blaise Pascal, Clermont-Ferrand
    Analysis and modelling of biological data

     

    2007
    Diploma in Agronomic engineering from Institut Agronomique et Vétérinaire Hassan II
    Rabat – Morocco

     

Publications

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