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Fast Raman single bacteria identification: toward a routine in-vitro diagnostic

Alice Douet 1 Quentin Josso 2 Adrien Marchant 3 Bertrand Dutertre 4 Delphine Filiputti 2 Armelle Novelli-Rousseau 2 Isabelle Espagnon 5 Meike Kloster-Landsberg 1 Frederic Mallard 6 Francois Perraut 1
1 CEA-LETI - Commissariat à l'énergie atomique et aux énergies alternatives - Laboratoire d'Electronique et de Technologie de l'Information
2 BIOMERIEUX
3 BIOASTER Microbiology Technology Institute [Lyon]
4 HORIBA France SAS [Villeneuve d'Ascq]
5 LADIS - Laboratoire d'analyse des données et d'intelligence des systèmes
DM2I - Département Métrologie Instrumentation & Information : DRT/LIST/DM2I
6 Innovat Unit, BioMerieux SA
Abstract : Timely microbiological results are essential to allow clinicians to optimize the prescribed treatment, ideally at the initial stage of the therapeutic process. Several approaches have been proposed to solve this issue and to provide the microbiological result in a few hours directly from the sample such as molecular biology. However fast and sensitive those methods are not based on single phenotypic information which presents several drawbacks and limitations. Optical methods have the advantage to allow single-cell sensitivity and to probe the phenotype of measured cells. Here we present a process and a prototype that allow automated single bacteria phenotypic analysis. This prototype is based on the use of Digital In-line Holography techniques combined with a specially designed Raman spectrometer using a dedicated device to capture bacteria. The localization of single-cell is finely determined by using holograms and a proper propagation kernel. Holographic images are also used to analyze bacteria in the sample to sort potential pathogens from flora dwelling species or other biological particles. This accurate localization enables the use of a small confocal volume adapted to the measurement of single-cell. Along with the confocal volume adaptation, we also have modified every components of the spectrometer to optimize single-bacteria Raman measurements. This optimization allowed us to acquire informative single-cell spectra using an integration time of 0.5s only. Identification results obtained with this prototype are presented based on a 65144 Raman spectra database acquired automatically on 48 bacteria strains belonging to 8 species.
Keywords : pathogen micro-Raman spectroscopy single cell identification digital In-line holography phenotype single bacteria phenotypic analysis bacteria hologram accurate localization confocal volume spectrometer Identification spectra database
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Conference papers
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https://hal-cea.archives-ouvertes.fr/cea-01828505
Contributor : Léna Le Roy Connect in order to contact the contributor
Submitted on : Tuesday, July 3, 2018 - 11:22:27 AM
Last modification on : Friday, June 25, 2021 - 10:00:02 AM

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CEA | CEA-UPSAY | DRT | LIST | LETI | CEA-GRE | DM2I | GS-COMPUTER-SCIENCE | GS-ENGINEERING

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Alice Douet, Quentin Josso, Adrien Marchant, Bertrand Dutertre, Delphine Filiputti, et al.. Fast Raman single bacteria identification: toward a routine in-vitro diagnostic. BIOPHOTONICS: PHOTONIC SOLUTIONS FOR BETTER HEALTH CARE V, Apr 2016, Brussels, Belgium. pp.98871W, ⟨10.1117/12.2227658⟩. ⟨cea-01828505⟩

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