Microbiological analysis of spent nuclear fuel pools: towards the identification of radiation-resistant bacteria

Van Eesbeeck Valérie


Mahillon Jacques, (UCL), Jacques.Mahillon@uclouvain.be

SCK•CEN Mentor

Monsieurs Pieter
+32 14 33 21 08

SCK•CEN Co-mentor

Leys Natalie
+32 14 33 27 26

Expert group


PhD started


Short project description

After being used as nuclear fuel inside power plants, spent nuclear fuel must be stored underwater in nuclear pool racks in order to cool down before being safely disposed while ensuring protection against radiation. Remarkably, despite the low-nutrient environment combined with the highly radioactive character of the water and the presence of dissolved radioactive metals, microbial growth is not fully prevented. Indeed, bacteria, yeast and unicellular algae have previously been detected in spent nuclear fuel pools, potentially leading to biofouling, biofilms or microbial-initiated corrosion. These microbial processes might have a negative effect on the general operation of spent nuclear fuel pools, for example by corrosion of measuring instruments. Additionally, biofouling can deteriorate the quality and clarity of the water which hampers the safe manipulation of spent fuel in the racks or obstructs the inventory of spent nuclear fuel by control agencies. Conversely, microorganisms identified in such environments represent a unique opportunity to gain new knowledge in mechanisms involved in resistance to ionizing radiation and to develop novel technologies. These organisms are good candidates for being used in the development of bioremediation processes, aimed at removing radionuclides from contaminated sites.


Within this project an assessment will be made on the presence of microbial communities inside spent nuclear fuel pools in France (e.g. a few pressurized water reactors of EDF) and Belgium (e.g. BR2 reactor of SCK•CEN). Not only the microbiological population present in planktonic form will be considered, but also special attention will be given to biofilms. As such, this project should result in an inventory of microbial groups present in spent nuclear fuel pools, including a detailed characterization of species abundant in those environments, as well as organisms with potential application in, for example, bioremediation processes.

In a first work package, we will inventory the prokaryotic microorganisms present in each pool using a global metagenomic and metaproteomic approach. The overall microbial populations will be assessed using a 16S and 18S rRNA amplicon sequencing approach. By selectively sequencing marker genes like 16S and 18S rRNA, the type and relative abundance of prokaryotic and eukaryotic microorganisms respectively can be identified. For the most interesting samples, the complete metabolic potential of the microbial community inside those pools will be identified using a shotgun metagenomics approach (i.e. not only sequencing a marker gene, but rather sequence all available DNA). By additionally implementing a metaproteomics approach – performed in collaboration with CEA (France), it will also be possible to identify those parts of the microbial genomes essential for surviving in such harsh environments. For each of the spent nuclear fuel pools where samples are taken, a detailed physicochemical analysis – including gamma spectroscopy for identifying the radionuclides present in water, pH, light intensity, water conductivity – will be performed, in order to correlate the microbial population observed within a specific pool to its physicochemical characteristics. The global radionuclide content in these microbiological populations will be assessed to study a possible relation between microorganisms and their ability to concentrate specific radionuclides.

Next to high-throughput approaches, individual bacterial strains will be isolated from the communities in a second work package, based on the output generated in those 'omics' approaches. Samples originating from each pool will be grown on specific media in various conditions. The consortia and the enrichment degree in these cultures will be assessed using mass spectrometry. The resulting isolates will be subjected to whole-genome sequencing, followed by genome annotation. Particular focus will be given to those parts of the genomes potentially explaining how those isolates can survive in such oligotrophic but highly radioactive environments. Additionally, those organisms will be phenotypically characterized, for example by testing their resistance towards radiation in specialized irradiation facilities (for example, gamma irradiation using BRIGIT at BR2 of SCK•CEN, spent nuclear fuels at Laue Langevin Institute) and resistance towards heavy metals. Combining those tests with transcriptomic approaches (e.g. RNA-seq) will lead to the identification of those gene clusters important for their survival in such extreme environments. This will lead to the identification of species potentially of interest for bioremediation purposes of environments contaminated with radionuclides.

This PhD project is part of collaboration with Commissariat à l'énergie atomique (CEA), more specifically with the group of Dr. Corinne Rivasseau. The PhD candidate will have ample opportunity to exchange experiences and samples with this group, and the PhD includes a one-year (or two times six-months) visit to this laboratory in France.