<p> </p> <p>ndoor air quality (IAQ) due to the presence of airborne microorganisms or bioaerosols (0.01-10 μm) in indoor spaces has been a concern for many years; however, it gained significant attention during the COVID-19 pandemic. Photocatalytic oxidation (PCO) has shown promising potential to kill microorganisms (removal/disinfection) and has already been in use within HVAC systems to treat volatile organic compounds (VOCs) (treatment). The main motivation of this work is to understand whether PCO devices can be used for bioaerosol removal in indoor spaces by integrating them with HVAC systems. Among the various factors that influence the adoption of PCO for large-scale bioaerosol removal, this work specifically tries to investigate two factors 1) whether the commercially available PCO reactors for treatment can be used for removal/disinfection or not, and 2) how to setup a standardized experimental setup for evaluating the removal efficiency of these systems. Generally, most of the commercial PCO devices use UV- based photocatalysis, so the removal efficiency is a combination of inactivation by UV and the reactive oxygen species produced by photocatalytic reactions (pure photocatalytic effect).</p> <p>In this work, the bioaerosol transport and the photon transport in a reactor is hypothesized as central to using the photocatalytic effect to inactivate microorganisms. This study uses analytical models to estimate the collection efficiency of the bioaerosols inside the honeycomb channels as a function of non-dimensional aspect ratios and velocity typical of HVAC systems. Subsequently, the collection efficiency results are overlaid with the prior literature results on photon transport inside such channels to present a limiting case for the removal efficiency of these systems. Another crucial factor for the performance of PCO systems is to investigate about the bioaerosol remediation on a photocatalyst substrate. Since there are many challenges associated with the numerical modeling of this phenomenon, this work developed a standardized experimental setup at the Herrick Laboratories, Purdue to investigate these interactions and further validate the previous hypothesis .The setup is constructed to systematically characterize the bioaerosol flowing through the airstream and measure data crucial to the PCO reactor performance, such as fluence rate field, number concentration (#/cm3), and viable concentration (CFU or PFU/m3) of the microorganisms upstream and downstream of the treatment sections. </p> <p>The collection efficiency (CE) of bioaerosols in honeycomb channels with velocities typical to HVAC systems were estimated using analytical models, and the results were presented in dimensionless aspect ratios (AR= Lch/ Dch). Based on the CE modeling results, the highest CE for aspect ratio 25 was less than 20% for the entire bioaerosol size range. From the prior literature results on photon transport, it was found that the intensity of the light reduced significantly for aspect ratios less than or equal to 6. Based on these results, it was found that the existing honeycomb geometries weren’t effective for PCO disinfection in operating conditions typical of HVAC systems. Since there aren’t any existing well-established methods to experimentally investigate these kinds of systems, this work will present the details about the development of the proposed methods inspired from prior literature for general air cleaning devices and small-scale PCO experiments. Furthermore, a detailed discussion about the important subsystems such as aerosol generation subsystem, sampling subsystem, and reactor subsystem which is crucial to investigating the hypotheses is presented in this thesis. Finally, some preliminary results on each of these characterization experiments to test the hypotheses has been presented in this thesis.</p>

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Les feuilles hébergent une grande diversité de micro-organismes. Parmi les facteurs responsables de la structuration des communautés microbiennes foliaires, l’effet du processus de dispersion reste peu étudié. Les structures paysagères telles que les lisières ou l’hétérogénéité du paysage influencent la migration et la dispersion de nombreuses espèces de macro-organismes, mais l’effet de tels facteurs sur la composition des communautés microbiennes foliaires n’a jamais été testé.Nous faisons l’hypothèse que les parcelles forestières sont une source de champignons foliaires pour les vignes adjacentes. Nous avons comparé les communautés fongique foliaires et aériennes de la vigne et des forêts adjacentes au cours d’une saison de végétation, testé l’effet d’une lisière forestière sur ces communautés et évalué l’effet de la composition du paysage sur ces communautés. Les communautés fongiques ont été caractérisées par métabarcoding.Les communautés fongiques foliaires viticoles et forestières divergent au cours de la saison. Ni la distance à la lisière, ni la proportion de forêt dans le paysage n’affectent les communautés foliaires de la vigne, mais les communautés aériennes diffèrent en fonction de la distance à la lisière forestière. Ces résultats suggèrent que la dispersion ne joue qu’un rôle mineur dans la structure des communautés fongiques foliaires. De nombreuses pressions de sélection telles que les pratiques agricoles semblent en revanche avoir un effet fort sur ces communautés. Des études supplémentaires sont nécessaires pour vérifier la contribution relative de ces pressions de sélection, ainsi que le potentiel service de régulation fourni aux cultures par la forêt. / Plant leaves host a large diversity of microorganisms. Among the factors shaping foliar microbial community structure, the effect of the dispersal process remain understudied. Landscape elements, such as edges or landscape heterogenity, influence migration and dispersal of many macro-organism species. However, the effect of such factors on foliar microbial communities has never been studied. We hypothesized that forests are a source of foliar fungi for adjacent vineyards. We compared foliar and airborne fungal communities in vineyard and adjacent forests along a vegetative season, we examined the effect of a forest edge on these communities in a vineyard, and weassessed the effect of landscape composition on these communities. Fungal communities were characterized with a metabarcoding method. Foliar fungal communities in vineyards and forests diverge over the course of the vegetative season. Neither the distance to the edge nor the proportion of forest in the landscape affect foliar fungal communities in vineyards, while airborne communities change with the distance to the forest edge. These results suggest that dispersal is not dominant in shaping foliar fungal communities. Instead, many selective pressures such as agricultural practices seem to shape strongly these communities. Further investigations are required in order to estimate the relative contribution of those processes, and the potential ecosystem service provided by the forest to crops.

Le secteur du tri des déchets est en pleine expansion. De par la nature de leurs activités, les centres de tri des déchets sont une source d’émission de bioaérosols dont l’exposition peut entrainer diverses troubles sur la santé des travailleurs. La composition des bioaérosols dans les centres de tri est peu documentée. Dans ce contexte, les objectifs de la thèse étaient de caractériser et de déployer dans un centre de tri (pour un suivi d’un an) une méthode d’analyse de la biodiversité microbienne dans les bioaérosols par séquençage à haut débit. Les travaux ont permis de connaitre les avantages et les limites de plusieurs méthodes d’analyse de la biodiversité et de mettre en lumière la nécessité de standardiser un processus de mesure dans le cadre d’études de comparaison. Le suivi de la biodiversité microbienne dans les bioaérosols émis en centre de tri a permis de mettre en évidence la grande complexité et la variabilité des taxons bactériens et fongiques à différents postes de l’entreprise. L’analyse statistique a mis en évidence le caractère multifactoriel de la variation et de la composition des bioaérosols émis en environnement professionnel. La quantité importante de données a permis d’améliorer les connaissances sur la composition des bioaérosols émis en centre de tri des déchets et sur la stratégie de prélèvement à adopter pour une évaluation du risque biologique représentative de l’entreprise / The waste sorting activities is constantly increasing. Due to the nature of their activities, waste sorting plants are a source of bioaerosol emissions whose exposure can lead to various health problems for workers. The composition of bioaerosols in sorting centers is poorly documented. In this context, the aims of the thesis were to characterize and deploy in a sorting center (for a follow- up of one year) a method of analysis of microbial biodiversity in bioaerosols using high throughput sequencing. The work provided information about the advantages and the limits of several methods of analysis of the biodiversity and highlighted the need to standardize a process of measurements for comparative studies. The monitoring of microbial biodiversity in bioaerosols emitted in a sorting plant revealed the high complexity and the variability of bacterial and fungal taxa at different places in the company. Statistical analysis highlighted the multifactorial nature of the variation and composition of bioaerosols emitted in this occupational environment. The large amount of collected data improved the knowledge on the composition of bioaerosols emitted in the waste sorting plant and the sampling strategy to be conducted for a representative biological risk assessment in the company

Development of the advanced, real-time methods for monitoring of bioaerosols is becoming increasingly important. At present, the Ultraviolet Aerodynamic Particle Sizer (UVAPS, Model 3312, TSI, St. Paul., MN) is the only commercially available method for in-situ, continuous measurements of viable airborne microorganisms. Research included in this thesis aimed towards comprehensive evaluation of the method over a wide range of operating conditions, linking the experimental results to the theoretical basis of its design and operation, and to developing a scientific basis for its application to real-time monitoring of bioaerosols. Specifically, due to a growing concern in the general community about the environmental and health aspects of biological aerosols originated from various types of agricultural operations including animal farming, this research was focussed on developing a research methodology/strategy for applying the method to the investigation of bioaerosols in the swine confinement buildings (SCB). Investigations under controlled laboratory conditions were primarily concerned with selectivity, sensitivity, counting efficiency, and detection limits of the spectrometer. This study also examined the effect of physiological state (metabolic activity) of bacteria on the performance characteristics of the method. The practical implications of the research findings are discussed in this thesis. Further field investigations undertaken on a pig farm advanced understanding of the UVAPS performance in the real-life environmental settings. The research also provided a new insight on the particle size distribution and the effect of on-farm-activities on aerosol load inside the SCBs, for both biological and non-biological aerosols. This study has proved that the UVAPS is a powerful tool for investigation of viable bioaerosols in the environment. However, this method is limited to detection of active metabolising bacteria that excludes dormant bacterial spores. In addition, the method is very sensitive to physiological state of bacteria and to the effect of adverse environmental conditions on metabolic activity of airborne bacteria, which may decrease the amount of the intrinsic fluorophores in the cells below sensitivity level iv of the monitor. Possible limitations of this technology include also the lack of selectivity and thus interferences from the non-microbial organic components of airborne particles. In addition, the sensitivity of the method is insufficient for monitoring viable bacteria in the environments with relatively low concentrations of bioaerosols. In order to increase sensitivity of the method, it would be desirable to concentrate the bioaerosols into a smaller volume with the aim of high-volume virtual impactors (aerosol concentrators) prior to the monitoring. Therefore, in the indoor environments where an application of the concentrator is not feasible, the utilisation of the UVAPS may be problematic. Due to the intrinsic limitations, the method is not recommended for the direct measurements of viable bioaerosols and should be used in conjunction with the conventional biosamplers for obtaining more realistic insights into the microbial air quality. Nevertheless, the UVAPS has been found to be an adequate method for the investigation of the dynamics of biological aerosols in real-time. Overall, this thesis contributes to the advancing of the understanding of the method and may assist in developing new, more advanced technologies for the real-time monitoring of viable bioaerosols, as well as in developing sampling strategies for the application of the method to various bioaerosol studies.

La pollution de l'air est l'un des principaux problèmes de santé publique de notre siècle et surtout de l'air intérieur alors que nous passons environ 90% de notre temps dans des environnements fermés. Parmi les polluants les bioaérosols ont été peu étudiés. Cependant des études épidémiologiques ont déjà montré une relation entre les bioaérosols et la santé. Le but de cette thèse est d’étudier les virus respiratoires dans les milieux clos via les systèmes de ventilation. A l’issue d’un état de l’art des polluants de l’air, il est important de définir ceux nécessitant d’être traités, les systèmes de ventilation, les procédés de filtration par médias fibreux et les procédés de traitement pouvant être mis en oeuvre. Les effets des bioaérosols viraux dans les environnements intérieurs sur la santé publique ont été discutés dans une revue bibliographique. Une méthodologie a été mise en oeuvre pour étudier le comportement des virus dans une centrale de traitement de l’air (CTA). Les virus respiratoires, mengovirus (virus nu à ARN de la même famille que les rhinovirus responsables du rhume) et adénovirus (virus respiratoire nu à ADN), ont été choisis et étudiés dans un système expérimental miniature représentatif des systèmes de traitement d’air. La performance de filtration d’un filtre de CTA vis-à-vis des aérosols viraux a été évaluée avec une validation du système expérimental utilisé. Cette étude a montré la capacité des virus de passer à travers le filtre tout en restant infectieux. Peu de littérature existant sur le sujet, ce projet a permis d’ajouter de nouvelles données pertinentes quant à la persistance des virus respiratoires dans l’air intérieur et plus précisément au niveau des filtres dans les centrales de traitement d’air. / Air pollution is one of the major public health problems of our century and especially of indoor air as we spend about 90% of our time in closed environments. Among pollutants bioaerosols have been poorly studied. However, epidemiological studies have already shown a relationship between bioaerosols and human health. The aim of this PhD work is to learn about respiratory viruses in closed environments via ventilation systems in order to study indoor air quality. At the end of state of the art of air pollutants, it is important to define those present in the air that need to be treated, ventilation systems, filtration processes by fibrous media and the processing methods being able to be implemented. The effects of viral bioaerosols on public health in indoor environments were discussed and drafted in a bibliographic review. The methodology of the study was to assess the fate of respiratory viruses, mengoviruses and adenoviruses, in a miniature experimental system similar to air treatment systems used in closed environments. The experimental system used was validated and the filter performance against viral aerosols was investigated. This study presented originality for the characterization and the fate of two non-enveloped respiratory viruses, mengovirus (RNA) and adenovirus (DNA), in indoor environments and their fate on fiber glass filter. This study showed the ability of viruses to pass through the filter and to remain infectious upstream and downstream the filter. There is scarce literature on this subject, and this project allowed us to add new relevant data on the persistence of respiratory viruses in indoor air and more precisely at the level of filters in air handling units.

Les particules en suspension dans l’air (notées « PM » pour « Particulate matter ») sont aujourd’hui au cœur des préoccupations sociétales en raison de leur impact majeur sur la santé publique et leur forte participation au changement climatique. La matière organique (MO) représente généralement la première composante en masse des PM mais reste encore très mal appréhendée, en particulier la fraction organique d’origine biogénique primaire (PBOA). Des sucres primaires sont proposés comme des traceurs moléculaires pour étudier les processus de transport atmosphérique ainsi que pour estimer la contribution des PBOAs à la masse totale des PM. Cependant, les connaissances sont encore très limitées sur leurs distributions spatiales et temporelles (i.e., cycles journaliers, saisonniers et annuels), leurs principales sources d’émissions, ou encore les facteurs environnementaux qui déterminent leurs concentrations atmosphériques. Par ailleurs, si la comprehension du potentiel oxydant (PO) —proxy de l’effet sanitaire des PM— inhérent à la composante chimique des aérosols a relativement bien avancé ces dernières années, la contribution de cette fraction PBOA est encore est très mal connue. Ces différents aspects constituent les objectifs de ce travail de thèse. D’un point de vue méthodologique, nos questions ont été abordées par une approche interdisciplinaire, qui a impliquée l’exploitation statistique d’une large base de données et le couplage de campagnes de terrain spécifiques avec la mise en œuvre d’une stratégie expérimentale novatrice développée pour l’étude simultanée des caractéristiques chimiques et microbiologiques des échantillons prélevés.Dans un premier travail basé sur l’exploitation d’une large base de données, nous avons montré que les PBOAs constituent une fraction très importante des PM en France, independamment de la typologie de l’environnement, contribuant en moyenne annuelle à 13 ± 4 % de la MO dans les PM10. On met en évidence une similitude entre les évolutions temporelles de concentrations et de ratios entre sucres primaires pour des sites localisés dans une même région géographique (jusqu’à une distance inter-sites d’environ 200 km). Ces observations indiquent que la source PBOA est très homogène spatialement sur des distances cohérentes avec celle de grands types d'écosystèmes. Cette observation a ensuite été validée par une expérimentation basée sur deux échantillonnages annuels de terrain qui nous a permis de démontrer (i) que les évolutions journalières des concentrations atmosphériques en sucres primaires sont déterminées par seulement quelques taxons microbiens atmosphériques, variables d’un point de vue regionale ; et (ii) que ces taxons proviennent respectivement de la flore locale et régionale pour les sites d’étude qui sont directement influencés et non par les activités agricoles. Enfin, dans le cadre d’étude de PO, nos résultats ont permis de démontrer (i) que tous les bioaérosols modèles testés possèdent un PO intrinsèque significatif, comparable pour certaines espèces à celui de composants chimiques atmosphériques modèles connus pour leur forte reactivité redox ; et (ii) qu’ils sont capables d’influencer significativement le PO des PM chimiques modèles ou collectées en condition réelle.Ces travaux apportent un nouveau regard sur l’importance massique des PBOAs et des nouvelles connaissances sur les sources et processus dominants conduisant à leur introduction dans l’atmosphère, ainsi que l’influence des facteurs environnementaux sur ces processus. L’ensemble des résultats de ce travail plaide pour une prise en compte systematique des PBOAs dans les modèles de chimie atmosphérique pour une meilleure prédiction de la qualité de l’air. / Airborne particles (called « PM » for Particulate matter") are nowadays at the core of societal concerns because of their major impact on public health and their strong participation in climate change. Organic matter (OM) generally represents the first mass component of PM but it is still poorly understood, in particular the organic fraction from primary biogenic origin (PBOA). Some specific primary sugars are proposed as molecular tracers to study the atmospheric transport processes as well as to estimate the contribution of PBOAs to the total mass of PM. However, knowledge is still very limited about their spatial and temporal distributions (i.e., daily, seasonal and annual cycles), their main emission sources, or the environmental factors that drive their atmospheric concentrations. Moreover, although the understanding of the oxidative potential (OP) —a proxy of the health effect of PM— inherent in the chemical component of aerosols has progressed quite well in recent years, the contribution of this PBOA fraction is still very poorly understood. These aspects constitute the main objectives of this thesis work. From a methodological point of view, our questions were addressed by an interdisciplinary approach, which involved the statistical exploitation of a large database and the coupling of specific field campaigns with the implementation of an innovative experimental strategy developed for the simultaneous study of the chemical and microbiological characteristics of the samples collected.In a first work based on the exploitation of a large database, we showed that PBOAs constitute a very important fraction of PM in France, regardless of the typology of the environment, contributing on average to 13 ± 4% of the annual MO in PM10. We observed a synchronous temporal trends in both concentrations and ratios between primary sugars species for sites located in the same geographical region (up to an inter-site distance of about 200 km). These observations indicate that the PBOA source is very spatially homogeneous over distances consistent with those of large ecosystem types. This observation was then validated by an experimental approach based on two annual field sampling studies that allowed us to demonstrate (i) that daily changes in atmospheric concentrations of primary sugars are drived by only a few regionally variable atmospheric microbial taxa; and (ii) that these taxa come from local and regional flora for study sites that are directly influenced and not by agricultural activities, respectively. Finally, in the framework of the OP study, our results demonstrated (i) that all the tested model bioaerosols have a significant intrinsic OP, which is comparable for some species to the model atmospheric chemical components known for their high redox reactivity; and (ii) that they can significantly influence the OP of chemical PM models or sampled under real ambient conditions.This work provides a different look into the mass importance of PBOAs and new insights into the dominant sources and processes leading to their introduction into the atmosphere, as well as the influence of environmental factors on these processes. Alltogether these results argue for a systematic consideration of PBOAs in atmospheric chemistry models for better prediction of air quality.

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