Research Fields: Medical mycology, omics, bioinformatics, therapeutics, resistance to antifungals
Work Place: EA3142 - GEIHP - Institut de Biologie en Santé - C.H.U. d'Angers, 4 rue de Larrey - F-49933
Research Laboratories: Groupe d’Etude des Interactions Hôte-Pathogène, EA3142 - Université d’Angers / Institut de
Head(s) of the Scientific Project: Nicolas Papon (Angers) / Jean-Pierre Gangneux (Rennes)
Offer type: postdoctoral researcher (short term contract, 12 months, possibly once renewable)
Application deadline: September 30, 2018
Job Starting Date: The candidate will have to take up his position
Progress in the treatment and prevention of bacterial infections over the last three decades, coupled with
Mission (scientific project)
The Antifungal Therapy during Cystic Fibrosis (ATCF) project followed 11 long-term patients with chronic colonization with Aspergillus fumigatus randomized to receive early azole antifungal therapy. This is an international clinical trial that recruited in 2 French
The clinical data are now acquired, but the biological material collected during the follow-up of the patients under treatment makes it possible to envisage an ambitious ancillary scientific project, using high-throughput sequencing technologies via comparative genomic and metagenomic approaches. This project will produce new clinical and fundamental data to rationalize azole antifungal therapy in patients with cystic fibrosis.
Three main stages of the project will be declined:
1. Analysis and interpretation of Whole Genome Sequencing of Aspergillus fumigatus isolates. The comparison of the genomes of the different isolates collected during the ATCF study will make it possible to differentiate a re-infestation with a new genotype, the persistence of the same strain in the quiescent state during the treatment and its reactivation when stopped treatment. Similarly, the comparison of sequential isolates from the same patient since the date of the first colonization of the airways will demonstrate the adaptation of the fungus to its host. In both cases, we will look in particular for a genome evolution of these strains affecting genes that can influence antifungal sensitivity and virulence.
2. Comparative analysis of phenotypes and genotypes of resistance of Aspergillus fumigatus. The phenotypic analysis will be carried out by determination of the minimum inhibitory concentrations in agar medium with the E-test® technique, and the results will be correlated with the gene sequence data known to confer resistance to different azole antifungals, but also other genes potentially involved in lower sensitivity to azole antifungals.
3. Metagenome analysis (targeted at the microbiota and mycobiota). The evolution of the metagenome during patient follow-up will be analyzed from the sputum collected in the ATCF study.
Doctor of Science with strong bioinformatics skills, with a maximum of 3 years’ experience after obtaining a doctorate, with international research experience (during or after his PhD).
The candidate must have proven experience in the bioinformatics analysis of genomic and metagenomic data in microorganisms and the handling of assignment software. He will have to work directly with the biologists of the two partner laboratories for an optimal exploitation of the sequences and metagenome
Site internet GEIHP (Angers) Site internet IRSET (Rennes)
Please send the following documents by email to
Nicolas Papon ([email protected]) and
Jean-Pierre Gangneux ([email protected])
- Short Curriculum Vitae and a covering letter showing your interest
listscientific publications, patents and others scientific productions
- A copy of your PhD diploma
Candidates will be selected on file and if necessary, following a face-to-face or telephone interview (subject to availability)
This Fellowship is funded by Université Bretagne Loire