FAME: Fermentation Advances and Microbial Engineering (Team EAD8)

Research Activities, Objectives & Approach

Research activities of the FAME group focus on kinetic and stoichiometric studies of microbial transformations in order to identify the phenomena which limit the performances of biotechnological processes.

The objective is to understand, quantify and model the dynamic interactions within the complex "Process-Environment-Microorganism" System in order to i) reveal the key phenomena affecting the microbial physiology under intensive production conditions and ii) to deduce optimal culture conditions. From the knowledge of the innate microorganism potential and depending on the objectives of the process of interest, a complementary strain engineering approach would be developed in order to explore/implement original potentialities for the "Microorganism / Bioreactor" System.


The scientific approach relied on a so-called “Top-down Systemic” generic approach. Based on quantifications and analyses of the matter fluxes, the objective is to get a global vision of the dynamics of microbial behavior at the relevant observation levels compatible with the characteristic response times of biological and/or physical mechanisms. Combining experimental and modeling approaches, the research group aims to deduce process optimization or intensification strategies by implementing nutritional, biochemical and/or metabolic and strain engineering strategies.


LINK to POSTERS Presentation Team & Approach

1-FAME_Research Group Presentation.pdf

2-FAME_Scientific Approach.pdf


This approach combining experiments and modeling are divided into 4 research themes.


Theme 1: Systemic optimization of the "Bioreactor - Microorganism" System

The objective is to outperform the performances achieved in batch-mode culture conditions in order to access the better titers, productivity and/or yields by managing cellular activity and by implementing the pertinent fermentation strategy to insure the robustness of the "Microorganism-Bioreactor" System.



Theme 2: Biocatalytic deconstruction and valorization of lignocellulosic biomass

The objective is to characterize and quantify the interactions between Biocatalyst(s) and their Substrate(s) in order to identify the limiting factors of the microbial transformation of lignocellulose-based substrates under high dry matter conditions.



Theme 3: Populations / Sub-Populations & Heterogeneity

The objective is to quantify the dynamics of microbial responses (at global population and sub-population scales) to environmental fluctuations in order to intensify/optimize and to scale-up the bioprocesses. The studies concern the dynamic analysis as well as the modeling of the physiological heterogeneities (physiological states, metabolic, morphological, genetic) of the subpopulations within bioreactor in connection to environmental fluctuations.



Theme 4: Microbial engineering for gaseous substrates conversion: CO2 scavenging

The objective is to develop efficient processes for the production of chemical synthons from gaseous substrates (CO2, H2, ...) by exploiting the natural or "engineered" capacity of autotrophic microorganisms.

The work focuses on the study of the physiology of these microorganisms and their implementation in innovative reactors for intensive molecule production.



Main activities

  •       Analyses of microbial dynamics under well-controlled environmental conditions
  •       Study of the dynamics of microbial behavior (metabolic / physiological / genetic) in fluctuating environment; Contribution to the improvement of bioprocess scale up
  •       Quantitative analysis of microbial subpopulations within bioprocesses
  •       Microbial dynamics modeling
  •       Metabolic modeling
  •       Microbial production intensification (alcohols, lipids, polymers) from renewable substrates (lignocellulosic biomass or industrial by-products)
  •       Innovation in bioprocesses and feeding strategies
  •       CO2 microbial bioconversion into molecules of interest (alcohols, alkanes, lipids)
  •       Microbial engineering for the production of molecules of interest (alcohols, alkanes, lipids)


Fermentation – Biochemical engineering - Microbial processes - Industrial microbiology - Industrial biotechnology - Innovative Fermentation Strategies - Batch - Fed-batch - Continuous - Reactor –Bioreactor - Heterogeneity - Quantitative physiology - Subpopulation analysis – Single-cell analysis - Microbial engineering - Phenomenological model - MFA - FBA – Dynamic metabolic model - Population model - Model reduction.