Biochip and Bionanotechnology

Its mission

Team of multidisciplinary research, certified ISO 9001:2008 since 2013, which develops tools for diagnostics, interaction between biomolecules, and analyses of microbial biodiversity.

Key words

Transcriptomics, genomics, interaction, diagnosis, biochips, sequencing

Person in charge

– Chargée de recherche CNRS

Team numbers in 2016: 10

Teachers and researchers: 1 / engineers: 6 / assistant engineers and technicians: 0 / post-doctoral and doctoral students: 3

Thematic axes

• AXIS 1: Development of diagnostic tools
• AXIS 2: Study of the interactions between biomolecules
• AXIS 3: Genetic adaptation and biodiversity
• AXIS 4: Development of new applications for NGS (ChIP-exo, single cell, CLIP seq, etc.) and associated statistics and computer tools

Main activities

• Design of new generations of biochips for diagnosis (food-borne pathogens, toxic algae, breast cancer, allergies, glycosyl hydrolases involved in the degradation of the lignocellulosic biomass, etc.).
• Study of microbial biodiversity through sequencing and methods development
• Analysis of the interactions between biomolecules and the molecular characterisation of the role of the nucleoid in the mechanism of segregation of F plasmid in E. coli through SPRi and NGS approaches.

Research models

Essentially diverse micro-organisms (bacteria, micro-algae, yeast, etc.) but also of higher eukaryotes (man, animals, plants, etc.) in certain collaborative projects

Fields of application and target products

• Agri-food: “SECURIDIAL” biochip for the detection of food-borne pathogens,
• Health: “INNODIAG” biochip for the identification of a gene signature in the context of breast cancer,
• Food: “DIAGALA” biochip for the diagnosis of food allergies,
• Environment: “PHYTOCHIP” biochip for the detection of toxic micro-algae,
• Renewable energies: “CAZYCHIP” biochip for the analysis of the expression of the glycosyl hydrolases (GH) involved in the degradation of plant biomass.

Technologies, techniques, specific tools

• Biochips (DNA or protein chips): Agilent, Affymetrix, custom chips
• NGS sequencing
• Microfluidics for the analysis of individual clones
• Probe design
• Bioinformatic analyses

For the realisation of some of its projects, the team also enjoys the support of the equipment available at the adjoining GeT-Biopuces platform (

).

Significant publications and patents

• Pillet F.; Sanchez A.; Trevisiol E.; Severac M., Bouet J.Y.; Anton Leberre V. (2013) Dendrimer functionalization of gold surface improves the measurement of Protein-DNA interactions by Surface Plasmon Resonance imaging. Biosensors & Bioelectronics. (2013), vol 43 pp. 148-154
• Cyntia R. Flores-Juárez, Véronique Anton Leberre, Emmanuelle Trévisiol, Eva González-Jasso1, and Reynaldo C. Pless (2014) Hybridisation of N4-methylcytosine-containing amplicons on DNA microarrays. Journal of Biotechnology 189 (2014) 143–149
• Tatiana Kempowsky-Hamon, Carine Valle, Magali Lacroix-Triki, Lyamine Hedjazi, Sophie Lamarre, Lidwine Trouilh, Delphine Labourdette, Laurence Puydenus Roger, Loubna Mhamdi, Florence Dalenc, Thomas Filleron, Gilles Favre, Jean M François, Marie V Le Lann and Véronique Anton Leberre. (2015) Fuzzy logic selection as a new reliable tool to identify molecular grade signatures in breast cancer – the INNODIAG study. BMC Medical Genomics 2015, 8:3
• Charlotte Noyer; Anne Abot; Lidwine Trouilh; Veronique Anton Leberre; Catherine Dreanno (2015) Phytochip: Development of a DNA-microarray for rapid and accurate identification of Pseudo-nitzschia spp and other harmful algal species. Journal of Microbiological Method. available online: 10-MAR-2015 – 112:55-66.
• Chassaing, N., Davis, E. E., McKnight, K. L., Niederriter, A. R., Causse, A., David, V., Desmains, A., Lamarre, S., Vincent-Delorme C, Pasquier L, Coubes C, Lacombe D, Rossi M, Dufier JL, Dollfus H1, Kaplan J, Katsanis N, Etchevers HC, Faguer S, Calvas P Coubes, C. (2016). Targeted resequencing identifies PTCH1 as a major contributor to ocular developmental anomalies and extends the SOX2 regulatory network. Genome Research Apr;26(4):474-85

Precompetitive projects

– Innovative mini-fluidic devices for the on-line pseudo-clonal analysis of the metabolism and genotype-phenotype relations within micro-organisms