Section: Partnerships and Cooperations

National Initiatives

ANR GreenSwimmers project

Participant : Charles Kervrann.

Biofilms are composed of spatially organized microorganisms (possibly including pathogens) embedded in an extracellular polymeric matrix. A direct time-lapse confocal microscopic technique was recently developed to enable the real-time visualization of biocide activity within the biofilm. It can provide information on the dynamics of biocide action in the biofilm and the spatial heterogeneity of bacteria-related susceptibilities that are crucial for a better understanding of biofilm resistance mechanisms. The approach is here to characterize the spatial and temporal exploration of the biofilm by microorganisms.

In this project, serpico develop methods and software for the computation of mean velocity as well as other descriptors of swimmers bacteria dynamics inside biofilm image sequences. We investigate spatio-temporal features and descriptors for comparison, classification, indexing and retrieval.

Table 2.

Funding: ANR, duration: 24 months

Partners: INRA, AgroParisTech, Naturatech company

France-BioImaging project

Participants : Charles Kervrann, Patrick Bouthemy, Tinaherinantenaina Rakotoarivelo, Thierry Pécot, Geoffrey Dieffenbach, Emmanuel Moebel, Perrine Paul-Gilloteaux.

The goal of the project is to build a distributed coordinated French infrastructure for photonic and electronic cellular bioimaging dedicated to innovation, training and technology transfer. High computing capacities are needed to exhaustively analyse image flows. We address the following problems: i) exhaustive analysis of bioimaging data sets; ii) deciphering of key steps of biological mechanisms at organ, tissular, cellular and molecular levels through the systematic use of time-lapse 3D microscopy and image processing methods; iii) storage and indexing of extracted and associated data and metadata through an intelligent data management system. serpico is co-head of the IPDM (Image Processing and Data Management) node of the FBI network composed of 6 nodes.

Table 3.

Funding: Investissement d'Avenir - Infrastructures Nationales en Biologie et Santé, ANR (2011-2016)

Partners: CNRS, Institut Jacques Monod, Institut Pasteur, Institut Curie, ENS Ulm, Ecole Polytechnique, INRA, INSERM