Micro-confinement of bacteria into w/o emulsion droplets for rapid detection and enumeration

International audienceToday, rapid detection and identification of bacteria in microbiological diagnosis is a major issue. Reference methods usually rely on growth of microorganisms, with the drawback of lengthy time-to-result. The method provides global information on a clonal population that is known to be inhomogeneous relative to metabolic states and activities. Therefore, there may be a significant advantage of methods that allow characterisation of individual bacteria from a large population, both for test time reduction and the clinical value of the characterisation. We report here a method for rapid detection and real-time monitoring of the metabolic activities of single bacteria. Water-in-oil emulsions were used to encapsulate single Escherichia coli cells into picolitre (pL)-sized microreactor droplets. The glucuronidase activity in each droplet was monitored using the fluorogenic reporter molecule MUG (4-methylumbelliferyl- - d-glucuronide) coupled to time-lapse fluorescence imaging of the droplets. Such bacterial confinement provides several major advantages. (1) Enzymatic activities of a large number of single bacterium-containing droplet could be monitored simultaneously, allowing the full characterisation of metabolic heterogeneity in a clonal population. We monitored glucuronidase enzymatic activity and growth over ∼200 single bacteria over a 24-h period. (2) Micro-confinement of cells in small volumes allows rapid accumulation of the fluorescent metabolite, hence decreasing the detection time. Independent of the initial concentration of bacteria in the sample, detection of the presence of bacteria could be achieved in less than 2 h. (3) Considering the random distribution of bacteria in droplets, this method allowed rapid and reliable enumeration of bacteria in the initial sample. Overall, the results of this study showed that confinement of bacterial cells increased the effective concentration of fluorescent metabolites leading to rapid (2 h) detection of the fluorescent metabolites, thus significantly reducing time to numeration

Mid-infrared multispectral lensless imaging for wide-field and label-free microbial identification

SPIE Photonics Europe, 2020, Strasbourg, France. March 29, 2020 - April 2, 2020International audienceConsidering the optimization possibilities of the image descriptors currently used and the ongoing development of the uncooled bolometers technology, these very first results are promising and could be dramatically improved with further experiments. Thereby, mid-infrared multispectral lensless imaging has the potential to become a fast and precise Petri dish analysis technology

Laser cooling of solids: towards biomedical applications

International audienceFocal cooling is a promising alternative therapy for intractable focal epilepsies, avoiding the irreversible neuronal damages induced by resection surgery. However, due to thermal conduction losses, local cooling of a deep brain region remains a challenging objective for thermoelectric or fluidic technologies. Here, we investigated the viability of an optical micro-cooler based on anti-Stokes refrigeration of ytterbium doped YLF crystals, taking into account the medical constraints for implantable device. We realized significant cooling under atmospheric pressure and developed a solution drastically reducing the harmful fluorescence heating of brain-like liquids below 2 K, thus demonstrating the relevance of this technology for biomedical applications

Optical forward-scattering for identification of bacteria within microcolonies

International audienceThe development of methods for the rapid identification of pathogenic bacteria is a major step towards accelerated clinical diagnosis of infectious diseases and efficient food and water safety control. Methods for identification of bacterial colonies on gelified nutrient broth have the potential to bring an attractive solution, combining simple optical instrumentation, no need for sample preparation or labelling, in a non-destructive process. Here, we studied the possibility of discriminating different bacterial species at a very early stage of growth (6 hours of incubation at 37°C), on thin layers of agar media (1mm of Tryptic Soy Agar), using light forward-scattering and learning algorithms (Bayes Network, Continuous Naive Bayes, Sequential Minimal Optimisation). A first database of more than 1000 scatterograms acquired on seven Gram-negative strains yielded a recognition rate of nearly 80%, after only 6 hours of incubation. We investigated also the prospect of identifying different strains from a same species through forward scattering. We discriminated thus four strains of Escherichia coli with a recognition rate reaching 82%. Finally, we show the discrimination of two species of coagulase-negative Staphylococci (S. haemolyticus and S. cohnii), on a commercial selective pre-poured medium used in clinical diagnosis (ChromID MRSA, bioMérieux), without opening lids during the scatterogram acquisition. This shows the potential of this method – non-invasive, preventing cross-contaminations and requiring minimal dish handling – to provide early clinically-relevant information in the context of fully automated microbiology labs

Development of photonic crystal based biosensors for applications to point-of-care diagnostics

International audienceno abstrac

Direct identification of clinically relevant bacterial and yeast microcolonies and macrocolonies on solid culture media by Raman spectroscopy

International audienceDecreasing turnaround time is a paramount objective in clinical diagnosis. We evaluated the discrimination power of Raman spectroscopy when analyzing colonies from 80 strains belonging to nine bacterial and one yeast species directly on solid culture medium after 24-h (macrocolonies) and 6-h (microcolonies) incubation. This approach, that minimizes sample preparation and culture time, would allow resuming culture after identification to perform downstream antibiotic susceptibility testing. Correct identification rates measured for macrocolonies and microcolonies reached 94.1% and 91.5%, respectively, in a leave-one-strain-out cross-validation mode without any correction for possible medium interference. Large spectral differences were observed between macrocolonies and microcolonies, that were attributed to true biological differences. Our results, conducted on a very diversified panel of species and strains, were obtained by using simple and robust sample preparation and preprocessing procedures, while still confirming published results obtained by using more complex elaborated protocols. Instrumentation is simplified by the use of 532-nm laser excitation yielding a Raman signal in the visible range. It is, to our knowledge, the first side-by-side full classification study of microorganisms in the exponential and stationary phases confirming the excellent performance of Raman spectroscopy for early species-level identification of microorganisms directly from an agar culture