title: Fluorescence-based tools for single-cell approaches in food microbiology.
abstract: The better understanding of the functioning of microbial communities is a challenging and crucial issue in the field of food microbiology, as it constitutes a prerequisite to the optimization of positive and technological microbial population functioning, as well as for the better control of pathogen contamination of food. Heterogeneity appears now as an intrinsic and multi-origin feature of microbial populations and is a major determinant of their beneficial or detrimental functional properties. The understanding of the molecular and cellular mechanisms behind the behavior of bacteria in microbial communities requires therefore observations at the single-cell level in order to overcome "averaging" effects inherent to traditional global approaches. Recent advances in the development of fluorescence-based approaches dedicated to single-cell analysis provide the opportunity to study microbial communities with an unprecedented level of resolution and to obtain detailed insights on the cell structure, metabolism activity, multicellular behavior and bacterial interactions in complex communities. These methods are now increasingly applied in the field of food microbiology in different areas ranging from research laboratories to industry. In this perspective, we reviewed the main fluorescence-based tools used for single-cell approaches and their concrete applications with specific focus on food microbiology.
authors.affiliation: Irstea, UR HBAN, Antony, France.
authors.forename: A
authors.initials: A
authors.lastname: Bridier
authors.affiliation: Eawag, Swiss Federal Institute of Aquatic Science and Technology, Dübendorf, Switzerland.
authors.forename: F
authors.initials: F
authors.lastname: Hammes
authors.affiliation: INRA, UMR1319 Micalis, Jouy-en-Josas, France; AgroParisTech, UMR Micalis, Jouy-en-Josas, France.
authors.forename: A
authors.initials: A
authors.lastname: Canette
authors.affiliation: Irstea, UR HBAN, Antony, France.
authors.forename: T
authors.initials: T
authors.lastname: Bouchez
authors.affiliation: INRA, UMR1319 Micalis, Jouy-en-Josas, France; AgroParisTech, UMR Micalis, Jouy-en-Josas, France. Electronic address: romain.briandet@jouy.inra.fr.
authors.forename: R
authors.initials: R
authors.lastname: Briandet
mesh_terms: D001419:Bacteria / Q000254:growth & development; D005434:Flow Cytometry; D005453:Fluorescence; D005516:Food Microbiology / Q000379:methods*; D056656:Lab-On-A-Chip Devices; D059013:Microbial Consortia / Q000502:physiology; D061848:Optical Imaging / Q000379:methods*; D059010:Single-Cell Analysis / Q000379:methods*
keywords: Bacterial pathogen; Flow cytometry; Food matrix; Laser scanning microscopy; Microfluidic; Single-cell fluorescence imaging