Characterization of the molecular mechanism involved in the detection of rare earth elements in Pseudomonas putida and associated biosensors development.
Rare earths (REE) are widely used in high technology, and demand for REE is set to double over the next 30 years. The selective extraction and recycling of REE has a triple challenge: economic, technological and ecological. Currently, less than 1% of REEs are recycled. What's more, extraction methods are tedious and polluting. They require several stages with acids or solvents. The discovery in 2011 of enzymes that naturally use light REE has opened up new prospects. The development of biosourced methods could be a key element in unlocking current selectivity and extraction barriers. This thesis is part of the biotechnologies of tomorrow theme. The aim of this thesis is to acquire fundamental data on the molecular mechanism of a biological system for the selective perception of REE through a robust screening, in order to take advantage of it for the development of biosensors responding to certain specific REE. Cell biology, biochemistry and in silico analysis techniques based on artificial intelligence will be used to accomplish this project. The results obtained will enable us to identify: 1) the molecular mechanism of REE detection and the factors influencing its selectivity, 2) the binding sites of the regulator and the genes involved in this response, and 3) the development from 1) and 2) of robust and selective biosensors.
New rapid diagnostic tool for sepsis: microfluidic biochip for multi-target detection by isothermal amplification
Sepsis is among the main cause of death across the world, and is caused by severe bacterial infection but can also originate from viruses, fungi or even parasites. In order to drastically increase survival rates, a rapid diagnostic and appropriate treatment is of paramount importance. The commercially available tools for nucleic acid detection by qPCR are able to sense multiple targets. However, these multiplexed analyses arise from the accumulation of analysis channels or reaction chambers where only one target can be detected. The original sample has to be divided, resulting in a loss of sensibility since a smaller amount of targets is available in channels or chambers.
In order to tackle the question of “How to detect multiple targets without a loss in sensibility?”, the PhD candidate will have to develop a multiplexed detection in a single reaction chamber by localized immobilization of LAMP primers (Loop-mediated isothermal amplification) on a solid substrate like COC or glass.
The expected outcome is a biochip allowing for real-time and fast (minutes) detection of several molecular DNA targets including: primers design and selection, primers immobilization on surface, integration of the biochip into a microfluidic cartridge and data collection and management for fluorescence detection of targets.
This innovative work will provide the PhD candidate with strong skills in diverse scientific domains such as molecular biology, surface functionalization, modelling and simulation, in a very multidisciplinary working environment.
Biogas upgrading with an advanced Biorefinery for CO2 conversion
The use of renewable energy sources is a major challenge for the coming decades. One way of meeting the growing demand for energy is to valorize waste. Among the various strategies currently developed, the recovery of biogas from anaerobic digestion plants appears to be a promising approach. Biogas is composed mainly of methane, but also of unused CO2 (around 40%). The project proposed here is to reform biogas using a renewable biohydrogen source to convert the remaining CO2 into pure CH4. We propose to set up a stand-alone advanced biorefinery that will combine photoproduction of hydrogen from waste (e.g.: lactoserum) by the bacterium Rhodobacter capsulatus combined with the CO2 present in the biogas in a biomethanation unit containing a culture of Methanococcus maripaludis, a methanogenic archaea able to produce CH4 from CO2 and H2 only (according to the Sabatier reaction). The aim is to produce CH4 in an energy-efficient and environmentally-friendly way.