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Microfluidique digitale pour la croissance de micro-organismes difficiles à cultiver

Abstract : Soil is the natural medium containing the highest microbial diversity (10^9 cells from 10^4 different species per gram of soil). Yet we still can’t grow in laboratory more than 5 % of them. Having access to this diversity will lead to crucial applications for farming (production of organic fertilizers or environmentally friendly pesticides) and to pharmacology (discovery of new antibiotics or new anticancer molecules). This work focuses on the study of growth of non culturable micro-organisms from natural samples, like soil. This method uses microfluidics droplets as microreactors to obtain the growth of microbial species encapsulated inside. The first step is to achieve a solution with nothing but the microbes from our natural sample (no minerals) for a successful encapsulation and obtain diversity as close to the one found in the soil. The second step is to encapsulate the cells from this solution with different set of condition like : initial concentration, growth media and incubation time. By coupling observation of the droplets after growth and the rRNA 16S sequencing of their content we demonstrate that it is possible to obtain the growth of up to 40 % of the species. This microfluidic method, besides its use in growing unculturable species in laboratory, opens the way towards high-throughput screening of interactions between a given species (human or plant pathogens, phage/virus) and the microbiota it is likely to contaminate (gut flora, soil, sea …) and obtain the quantitative determination the reaction of microbiota.
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Submitted on : Friday, November 29, 2019 - 2:30:44 PM
Last modification on : Sunday, June 26, 2022 - 5:46:45 AM


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  • HAL Id : tel-02337717, version 2



Mathieu de La Motte Saint Pierre. Microfluidique digitale pour la croissance de micro-organismes difficiles à cultiver. Chimie-Physique [physics.chem-ph]. Université Paris sciences et lettres, 2017. Français. ⟨NNT : 2017PSLET039⟩. ⟨tel-02337717v2⟩



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