Le poisson est un produit très périssable dont l’altération résulte essentiellement de la croissance bactérienne. Comparé aux régions tempérées, peu d’études portent sur le microbiote d’altération des poissons tropicaux. En Martinique, le thon jaune (Thunnus albacares) et l’ombrine ocellée (Sciaenops ocellatus) représentent des poissons d’intérêt pour les filières pêche et aquaculture. Dans le but de mieux connaître le microbiote d’altération de ces poissons, des analyses culturales et aculturales (séquençage de nouvelle génération des amplicons d’ARNr 16S, Illumina MiSeq) ont été réalisées.Une grande diversité d’espèces bactériennes a été retrouvée dans le thon et l’ombrine fraîchement pêchés (104 et 887 OTUs, respectivement) et la plupart d’entre elles sont communément isolées des poissons (Chryseobacterium, Burkholderia, Flavobacterium, Psychrobacter, Arthrobacter, Staphylococcus). Certaines, comme Ralstonia sp. et Rhodanobacter terrae, en quantité importante dans le thon frais, sont plus atypiques. Au cours de l’entreposage du thon sous-glace, Pseudomonas et Brochothrix deviennent dominants. L’emballage sous atmosphère modifiée (MAP) ou sous vide (VP) entraine clairement la sélection de Brochothrix dans un cas et d’un mélange de Brochothrix, bactéries lactiques (Lactococcus piscium, Carnobacterium maltaromaticum) et d’entérobactéries (Hafnia paralvei) dans l’autre, et ne permet pas une augmentation significative de la durée de conservation. Pour les filets d’ombrine, peu de différences sont observées entre MAP et VP dont le microbiote se compose essentiellement de bactéries lactiques (Carnobacterium spp., Vagococcus spp., Lactococcus spp., Leuconostoc spp.). La durée de conservation est étendue de 15 jours par rapport au poisson entier sous air.L’inoculation de différentes espèces bactériennes dans de la chair pauci-microbienne de thon ou d’ombrine a montré que Hafnia paralvei et Serratia spp. sont les espèces les plus altérantes. Brochothrix thermosphacta et Carnobacterium spp. produisent aussi des odeurs indésirables mais de façon plus modérée. Chez Pseudomonas, les espèces ne sont pas toutes altérantes et présentent même parfois des capacités à empêcher le développement des mauvaises odeurs induites par d’autres bactéries (Pseudomonas psychrophila/fragi) et à dégrader l’histamine (Pseudomonas cedrina, Pseudomonas plecoglossicida/monteilii). En parallèle, des tests sensoriels et des dosages physico-chimiques ont également été réalisés pour comprendre les conséquences de la croissance bactérienne et identifier des indicateurs fiables pour l’évaluation du degré d’altération des produits. / Fish is a highly perishable product and spoilage is mainly due to the bacterial growth. Compared to temperate regions, few studies examined the spoilage microbiota of tropical fish. In Martinique, yellowfin tuna (Thunnus albacares) and red drum (Sciaenops ocellatus) are essential fish of fisheries and aquaculture sectors. For a better characterization of the microbial ecosystem, culture-dependent and culture-independent (next-generation sequencing of 16S rRNA amplicons, Illumina MiSeq) methods were carried out.A wide diversity of species was found in freshly caught tuna and red drum (104 and 887 OTUs, respectively) and most of them are commonly isolated from fish (Chryseobacterium, Burkholderia, Flavobacterium, Psychrobacter, Arthrobacter, Staphylococcus). Others, such as Ralstonia sp. and Rhodanobacter terrae, largely present in fresh tuna, are less familiar. During the ice-storage of tuna, Pseudomonas and Brochothrix became dominant. The modified atmosphere packaging (MAP) and vacuum packaging (VP) clearly leaded to the selection of Brochothrix in one case and to a mixture of Brochothrix, lactic acid bacteria (Lactococcus piscium, Carnobacterium maltaromaticum) and enterobacteria (Hafnia paralvei) in the other case, and not conduct to a significant increase of the shelf-life. For red drum fillets, few differences were observed between MAP and VP with a microbiota essentially composed by lactic acid bacteria (Carnobacterium spp., Vagococcus spp., Lactococcus spp., Leuconostoc spp.). The shelf-life was extended by 15 days compared to the whole fish ice-stored.The inoculation of different bacterial species into the pauci-microbial flesh of tuna or red drum showed that Hafnia paralvei and Serratia spp. were the most spoiling bacteria. Brochothrix thermosphacta and Carnobacterium spp. produced more moderate undesirable odors. Among the Pseudomonas genus, not all species induced spoiling effects and some of them are even able to prevent the development of unpleasant odors from other bacteria (Pseudomonas psychrophila/fragi) and to degrade histamine (Pseudomonas cedrina, Pseudomonas plecoglossicida/monteilii).At the same time, sensory tests and physico-chemical assays were performed to understand the consequences of the bacterial growth and to identify reliable indices for the evaluation of the spoilage degree of the products.

Inledning En tredjedel av den mat som produceras i världen slängs (United Nations Development Programme [UNDP], 2020) och de livsmedelsförstörande mikroorganismerna är ett vanligt förekommande problem och en bidragande orsak till det globala matsvinnet (Snyder & Worobo, 2018). Livsmedelsindustrin använder därför olika hurdletekniker för att minimera risken för tillväxt av förskämningsorganismer (Snyder & Worobo, 2018). En strategi för att kontrollera om olika hurdletekniker uppfyller sitt syfte är att utsätta ett livsmedel för ett belastningstest. Syfte Syftet med studien var att genom ett belastningstest i ett flytande livsmedel jämföra konserveringsmedlen lingonjuice och kaliumsorbat + natriumbensoat samt att undersöka produktens fysikaliska och kemiska förändringar över tid.  Material och metod Ett flytande livsmedel (n = 73 á 180 ml) inokulerades i ett belastningstest med log 2–3 mikroorganismer per ml livsmedel. Därefter tillsattes konserveringsmedlen lingonjuice (n = 24) eller kaliumsorbat + natriumbensoat (n = 25). En tredjedel av proverna (n = 24) lämnades utan konserveringsmedel. Provtagning för analys av tillväxt, färg, pH och viskositet (mPas) utfördes vid 0, 14 och 30 dagar efter livsmedlet inokulerats med mikroorganismer.   Resultat Resultatet visade mikrobiell tillväxt i samtliga livsmedel vid dag 0. Dag 14 identifierades tillväxt i livsmedlet med kaliumsorbat + natriumbensoat samt lingonjuice. Vid analysen på dag 30 identifierades tillväxt i livsmedlet med kaliumsorbat + natriumbensoat och i livsmedlet utan konserveringsmedel. Över tiden skedde även fysikaliska förändringar i viskositet och kemiska förändringar av pH-värdet. Gällande färg skedde enbart marginella förändringar. Slutsats Resultatet av belastningstestet visade att lingonjuice är det konserveringsmedel som har bäst effekt med avseende på produktstabilitet genom att hämma tillväxt av tillsatta mikroorganismer. Resultaten av de fysikaliska mätningarna visade på förändringar över tid med avseende på viskositet. Färg visade enbart minimala förändringar. Resultatet av den kemiska mätningen visade på förändringar av pH-värdet över tid. / Introduction One third of food produced in the world is discarded (United Nations Development Program [UNDP], 2020) and food-destroying microorganisms are a common problem and a contributing cause of global food waste (Snyder & Worobo, 2018). The food industry therefore uses various hurdle techniques to minimize the risk of growth of spoilage organisms (Snyder & Worobo, 2018). One strategy to check whether different hurdle techniques meet their purpose is to expose foods in a challenge test. Aim The aim of the study was to compare the preservatives lingonberry juice and potassium sorbate + sodium benzoate and examine any physical and chemical changes over time through a challenge test on a liquid food product. Material and method A liquid food (n = 73 á 180 ml) was inoculated in a challenge test with log 2-3 microorganisms per ml food. Thereafter preservatives lingonberry juice (n = 24) or potassium sorbate + sodium benzoate (n = 25) were added. One third of the samples (n = 24) were left without preservatives. Sampling for analysis of growth, color, pH and viscosity (mPas) was performed at 0, 14 and 30 days after the food was inoculated with microorganisms. Results The results showed microbiological growth in all food products at day 0. Day 14 growth were found in the food with potassium sorbate + sodium benzoate and lingonberry juice. By the analysis on day 30 growth in the food with potassium sorbate + sodium benzoate and in the food without preservatives were showed. Over time physical changes of viscosity and chemical changes of pH occurred. Regard to color only marginal changes occurred. Conclusion The result of the challenge test showed that lingonberry juice is the preservative that has the best effect regard to product stability through inhibiting the added microorganisms. The results of the physical measurements showed changes regard to viscosity over time. Color only showed marginal changes. The result of the chemical measurement showed changes of pH over time.

<p>Microbes play key roles in processes that shape the world around us having direct impact in crop  production,  food  safety,  digestion,  and  overall  health.  Developing  tools  to  monitor  their activity in-situ is the key towards better understanding the true impact of microbial activity in these processes and, eventually, harnessing their potential. Many conventional techniques for microbial activity assessment require sample collection, expensive benchtop equipment, skilled technicians, and   destructive   sample   processing   which   makes   their   adaptation   for   in-situ   monitoring cumbersome. The need for technologies for in-situ monitoring has led to the development of many sensordesigns,  capable  of  detecting  single  strains  of  bacteria  to  low  limits  of  detection  (LOD). These designs, however, are limited to their complex manufacturing procedures, cost, and delicacy which makes them difficult to implement outside of a laboratory setting into harsh environments.</p> <p>In  the  last  25  years,  impedimetric  sensing  methods  have  been used  as  powerful  analytical tools  to  characterize  the  degradation  and  dissolution  of  polymers.  Known  for  their  robustness, these techniqueswere mainly used for characterizing polymer’s properties as corrosion-protective layers on metals. At the time, someresearchers pondered onthe potential use of this technique for biosensing  applications.In  this  thesis,  the  ability  of  monitoring  microbial  activity  in-situ  was explored by  integratingdifferent  bioresponsive  polymers  with  low-cost electronic  impedimetricplatformsand assessing their degradation kinetics in response to microbes</p> <p>This  novel  use  of  impedimetric  sensing  methods  and  approach  towards  microbial  activity sensing was systematically studied in different  areas including  agriculture, food packaging, and healthcare.  Microbes,  the  good,  the  bad,  and  the  ugly,  were  studied  within  their  ecosystems  to demonstrate  the  ability  of  using  the  described  systems  in  in-situ  monitoring.  In  agriculture, polymer  degradation  was  successfully  correlated  to  the  concentration  of  decomposing  bacteria directly in soil. In food packaging, spoilage of chicken samples was successfully detected within their package through a non-reversible system. In healthcare, a wireless and electronic-free wound monitoring  system  capable of  detecting  early  onset  of  infection  while  delivering  therapeutics without the need of external actuation was achieved. Further developments of this technology will present the key towards monitoring microbial activity in-situ in a large scale, providing solutions to  humanity’s  toughest  upcoming  challenges  including  food  production,  food  safety,  and healthcare.</p>

Manual inspection is a prevailing practice for quality assessment of poultry meat, but it is labor-intensive, tedious, and subjective. This thesis aims to assess the efficacy of an emerging structured illumination reflectance imaging (SIRI) technique with machine learning approaches for assessing WS and microbial spoilage in broiler breast meat. Broiler breast meat samples were imaged by an in house-assembled SIRI platform under sinusoidal illumination. In first experiment, handcrafted texture features were extracted from direct component (DC, corresponding to conventional uniform illumination) and amplitude component (AC, unique to the use of sinusoidal illumination) images retrieved from raw SIRI pattern images build linear discriminant analysis (LDA) models for classifying normal and defective samples. A further validation experiment was performed using deep learning as a feature extractor followed by LDA. The third experiment was on microbial spoilage assessment of broiler meat, deep learning models were used to extract features from DC and AC images builds on classifiers. Overall, this research has demonstrated consistent improvements of AC over DC images in assessing WS and spoilage of broiler meat and that SIRI is a promising tool for poultry meat quality detection.

Traditional fabrication methods used to manufacture biosensors for physiological, therapeutics, or health monitoring purposes are complex and rely on costly materials, which has hindered their adoption as single-use medical devices. The development of a new kind of wearable and implantable electronics relying on inexpensive materials for their manufacturing will pave the way towards the ubiquitous adoption of sticker-like health tracking devices.<div>One of growing and most promising applications for biosensors is the continuous health monitoring using mechanically soft, stretchable sensors. While these healthcare devices showed an excellent compatibility with human tissues, they still need highly trained personnel to perform multi-step, prolonged fabrication for several functioning layers of the device. In this dissertation, I propose low-cost, scalable, simple, and rapid manufacturing techniques to fabricate multifunctional epidermal and implantable sensors to monitor a range of biosignals including heart, muscle, or eye activity to characterizing of biofuids such as sweat. I have also used these devices as an implant to provide heat therapy for muscle regeneration and optical stimulation of neurons using optogenetics. These devices have also combined with those of triboelectric<br>nanogenerators to realize self-powered sensors for monitoring imperceptible mechanical biosignals such as respiratory and pulse rate.</div><div>Food health and safety has also emerged as another important frontier to develop biosensors and improve the human health and quality of life. The recent progresses on detecting microbial activity inside foods or their packages rely on development of highly functional materials. The existing materials for fabrication of food sensors, however,<br>are often costly and toxic for human health or the environment. In this dissertation, I proposed biocompatible food sensors using protein/PCL microfibers to reinforce the protein microfibrous structure in humid conditions and exploit their excellent hygroscopic properties to sense biogenic gas, as an indicator for early detection of food spoilage. Finally, my battery-free food sensors are capable of monitoring food safety with no need of extra measurement devices. Collectively, this dissertation proposes cost-effective solutions to solve human health issues, enabled by developing low-cost, functional materials and exploiting simple fabrication techniques.<br></div>