京都大学 / 新制・課程博士 / 博士(人間・環境学) / 甲第23533号 / 人博第1012号 / 新制||人||239(附属図書館) / 2021||人博||1012(吉田南総合図書館) / 京都大学大学院人間・環境学研究科相関環境学専攻 / (主査)教授 小松 直樹, 教授 津江 広人, 准教授 土屋 徹 / 学位規則第4条第1項該当 / Doctor of Human and Environmental Studies / Kyoto University / DFAM

Nanoparticles are currently finding increasing use as drug delivery systems in the treatment of cancer and other disorders. When nanoparticles are introduced into body fluids, they adsorb proteins forming a coating called protein corona. The protein corona is vital since it controls biological responses of nanoparticles through interactions with cells and biological barriers. Due to the dynamic behaviour of protein-protein and protein-nanoparticle interactions, the protein corona evolves during circulation in the body. This results in difficulties to predict the biological behaviour and outcome of nanoparticles. In this work, it is hypothesised that a nanoparticle-protein corona (NP-PC) enriched in specific proteins could serve as a model to determine if the design and formation of a patient-specific nanodrug-protein corona could offer a novel approach to control nanodrug-protein corona evolution. Through usage of a model nanoparticle and model plasmas and by applying shotgun proteomics and SUrface proteomics, Safety, Targeting, and Uptake (SUSTU), NP-PC proteins were identified and quantified. The results indicate that desirable proteins are maintained in the protein corona surface when nanoparticles with a pre-made corona are introduced into model plasma. This implies that a designed NP-PC would be a strategy to control nanodrug-protein corona evolution, offering a route to improve nanodrug targeting and uptake by cells.

With the rapid growth of nanotechnology, situations where nanomaterials will interact with biological systems will unquestionably grow. Therefore, it is increasingly understood that interactions between nanomaterials and biological environments will play an essential role in nanomedicine. Biological polymer networks, including mucus and the extracellular matrix, serve as a filter for the exchange of molecules and nanoparticles. Such polymer networks are complex and heterogeneous hydrogel environments that regulate transport processes through finely tuned particle-network interactions. In chapters 3 and 4, we investigate the role of electrostatics on the basic mechanisms governing the diffusion of charged molecules inside model polymer networks by using fluorescence correlation spectroscopy (FCS). In chapter 3, we show that particle transport of charged probe molecules in charged hydrogels is highly asymmetric and that the filtering capability of the gel is sensitive to the solution ionic strength. Brownian dynamics simulations are in quantitative agreement with our experimental result. In chapter 4, we focus on hyperbranched cationic dendrimer macromolecules (polyamidoamine, PAMAM) which differ from probes in size, charge density and chain flexibilities. Our results show PAMAM has strongly reduced mobility in like charge gels and greatly enhanced apparent diffusivity in oppositely charged gels. Further studies with salt suggest that the oppositely charged polymer network acts as a giant counterion enhancing the mobility of PAMAM by changing its conformation to a more compacted state. Due to their large surface areas, nanomaterials in biological fluids are modified by adsorption of biomolecules, mainly proteins, to form so called “protein coronas”. These coronas ultimately define the biological identity of the nanoparticles and dictate the interactions of cells with the protein-NP complex. We have studied the adsorption of human transferrin and bovine serum albumin on the surface of sulfonated polystyrene nanoparticle. In chapter 5, we show the formation of multi-layered protein coronas and compare to established adsorption models. In addition we followed for the first time the protein binding kinetics as a function of pH and salt. Through these studies, we aim to gain quantitative knowledge of the dynamic rearrangement of proteins on engineered nanomaterials.

No description available.

Particles that deposit in the respiratory airways can come from many sources, such as environmental pollution, particles created in the workplace, and inhalers that are designed to deliver medicines to the lungs. Once these particles deposit in the respiratory airways, they can interact in a variety of ways. Some particles are toxic and can cause damage to lung tissues, others may have little to no effect on health, and some may provide some benefit or therapy. Once particles land in the respiratory airways, the interactions they have with proteins can impact where they go and how they behave. This thesis explores how particles that are inhaled may impact health through toxicity to lung cells. Aerosols produced from photooxidation of decamethylcyclopenta-siloxane, an ingredient common in personal care products, were exposed to lung cells using an air-liquid interface exposure system to assess if these aerosols impact lung cell health. No significant impacts on lung cell health were observed. Copper oxide, a component of cigarette smoke, urban particulate matter, and e-cigarette vapor, was assessed for its role in lung disease. Copper oxide nanoparticles were exposed to lung cells, and their viability, expression of a platelet activating factor receptor (PAFR), and susceptibility to infection with a pneumonia-causing bacterium (S. pneumoniae) were measured. Copper oxide nanoparticles were found to be toxic to lung cells. At some doses, increases in PAFR were observed, but no clear differences in susceptibility to bacterial infection were observed. This research improves knowledge of how inhaled materials can impact health, providing insight into how particles from human-derived sources affect the lungs. This thesis further explores how particles behave in the thin layer of fluid that covers the respiratory epithelium. This fluid contains a complex mixture of proteins, and this work aims to identify some of the ways these proteins interact with particles and influence behavior. This was accomplished by first investigating how individual proteins from this fluid interact with particles. Particle behavior was studied after exposure to these proteins, as well as the lung cell responses to the particles before and after interaction with individual proteins. These lung proteins were found to induce aggregation, significantly alter surface charge, and reduce cell uptake of particles. After studying how individual proteins might specifically affect particle behavior, particles were exposed to bronchoalveolar lavage fluid (BALF), a diluted lung fluid collected by rinsing lungs with saline. Particle responses to proteins in this fluid were compared to those in serum, a protein-rich blood extract. These studies identified differences in how various surface-functionalized polystyrene particles aggregated in BALF compared to serum. When particles were exposed to serum or BALF, they tended to be less likely to associate with lung cells. With some particle types studied, there were significant differences in how much BALF or serum reduced cell attachment and uptake. In addition to demonstrating that lung fluids impact particle behavior in a manner that differs from serum, a method was developed to increase the concentration of the proteins in BALF to partially undo the dilution that occurs during collection. After studying how protein adsorption can cause aggregation, cover up particle surfaces, and reduce attachment and uptake by lung cells, a polymer coating was synthesized to reduce particle interactions with these proteins and assist in stabilizing particles in lung fluids. This coating was tested in both BALF and serum to demonstrate its general utility at reducing undesired interactions with proteins in biological fluids and was found to enhance particle stability in lung fluids as well as saline. This research enhances understanding of how particles behave in the respiratory airways, providing tools to further study how particles behave in lung fluids and demonstrating a polymer coating that is useful in this environment.

Nanoparticles are promising platforms for biomedical applications ranging from diagnostic tools to therapeutic delivery agents. During the course of these applications, nanoparticles are exposed to a complex mixture of extracellular serum proteins that nonspecifically adsorb onto the surface. The resulting protein layer, or protein "corona," creates an interface between nanoparticles and the biological environment. Protecting the nanoparticle surface can reduce protein adsorption, but complete inhibition remains a challenge. As a result, the corona, rather than the nanoparticle itself, mediates the cellular response to the nanoparticle. The following dissertation describes the fundamental characterization of the cellular binding of charged nanoparticles, interactions of protein-nanoparticle complexes with cellular receptors, and the structural and thermodynamic properties of adsorbed corona proteins.

Correct diagnosis of disease is essential in the effort to save and improve lives. Point of care (POC) diagnostics are in-vitro tests that assist in patient diagnosis and can be used at the location of patient care. POC diagnostics are easy to use and provide near-instant readouts allowing medical providers and patients to make rapid decisions about treatment. Increased access to POC testing is especially beneficial to low-income and low resource areas that cannot afford expensive lab testing. The World Health Organization (WHO) has outlined at least 113 diseases for which POC diagnostics are needed. Because of this, developing effective, efficient, and economical methods for creating new POC tests is essential. Work in section one of this thesis describes strategies by which new POC bio-diagnostics can be created. The use of oxidized cellulose as a vector for antibody immobilization was explored in several cellulose-based materials to provide quick, economical tests while still obtaining effective limits of detection when used to detect the pregnancy hormone Human Chorionic Gonadotropin (HCG) in a proof of concept study. The majority of these tests could detect as low as 100 ng/mL of HCG well below the clinical level necessary for detection at 2400 ng/mL. The use of a hand-powered syringe-based POC named the fast flow immunoassay (FFI) was tested for its ability to increase observable signal in a sandwich immunoassay by passing the sample through the test filter multiple times. 10 passes through the filter resulted in a signal approximately 17x more intense than a 1-hour dot-blot sandwich immunoassay. Both oxidized cotton and FFI systems can be used to develop new POC assays quickly and economically. Future use of these POC systems could help expand the availability of diagnostic testing to disadvantaged areas. Gold-based drugs have been used and investigated as medications multiple times throughout history to treat various diseases such as Rheumatoid arthritis, parasitic infections, and cancer. In the last few decades, gold nanoparticles have been used as drug delivery agents and catalysts for various reactions. Recently catalytic gold nanocrystals have been characterized for their ability to treat neurodegenerative diseases. Although these results were promising, much is still unknown about their mechanism of action. Section two of this thesis investigates potential molecular pathways that gold nanocrystals could be affecting, specifically the IL-6/Jak/STAT3 inflammation pathway and the Nrf2 antioxidant pathway. The gold nanocrystals we tested did not affect these pathways at physiologically obtainable concentrations. Additional work was done to characterize protein interactome or protein corona of gold nanocrystals. Preliminary proteomic characterization of this protein corona in fetal bovine serum (FBS) identified 118 potential interactors and classified those based on function and structure. Future work will need to be done to follow up on these identifications and to determine what mechanistic implications they may have.

Selenium (Se) is an essential micronutrient and is also used in various industrial processes. However, Se also exhibits a low toxicity threshold and therefore presents a significant risk to human kind when released into the environment. The gap between Se deficiency (< 40 µg•day−1) and acute Se poisoning (> 400 µg•day−1) for humans is rather narrow. In addition, detrimental effects to the health of humans and other biota can arise from radioactive Se isotopes. Namely, 79Se is of concern, as it is one of the fission products originating from nuclear power production. The toxicity of selenium not only depends on its concentration but also on its speciation. This of course applies to both stable and radioactive isotopes. Microorganisms play a key role in determining and altering the speciation of Se in the selenium geochemical cycle. The naturally released selenium oxyanions (selenite (SeIVO32−) and selenate (SeVIO42−)) can be microbially reduced to differently shaped biogenic elemental selenium (BioSe, Se(0)) nanomaterials - BioSe-Nanospheres and BioSe-Nanorods. Even after more than 30 years of elaborated research on selenium, the impact of the microbial biota on the shape change of these BioSe-Nanomaterials lacks a fundamental understanding. Furthermore, due to the various species of microorganisms having different metabolisms, a detailed investigation of representative organism is required to predict the fate of selenium in the environment and engineered systems. Thus, the motivation behind this Ph.D. work was to study the effect of selected microorganisms (based on their high resilience, application in wastewater treatment processes, and capability to reduce selenium oxyanions) on the properties and fate of the produced biogenic elemental selenium nanomaterials. Namely, this meant deciphering the role of selenium oxyanion reduction mechanism on the localisation (intracellular or extracellular) of the microbially produced biogenic elemental selenium nanoparticles. This understanding is important as the localisation defines the release of the selenium nanoparticles in the environment and hence its potential pathway into the food chain. Further, the role of the microorganisms (pure culture and mixed culture) on the composition and stability of the corona (organic layer) on the BioSe-Nanomaterials was studied as properties of the corona can affect the stability and hence the localization of the nanomaterials. Moreover, the effect of the microbial environment on the shape establishment and stability, as well as on the fate of the produced biogenic elemental selenium nanomaterials was also investigated. Eventually, the obtained results narrow the identified knowledge gap and improve the understanding of the fate of selenium in the environment. In the first part of this Ph.D. thesis, the bacterial strain Bacillus safensis JG-B5T was chosen to study the influence of microbes on the fate of Se in the environment due to its occurrence in uranium mining sites where selenium is also found. First, this bacterium has been analysed by genome sequencing and its genomic data were deposited at the NCBI database. With the obtained results, the bacterial strain was classified in the corresponding phylogenetic tree. Furthermore, this Ph.D. work revealed that B. safensis JG-B5T is an obligate aerobic microorganism with the ability to reduce SeO32− to elemental selenium (Se(0)) in the form of red BioSe-Nanospheres. A reduction of SeO42− has not been observed. Two-chamber reactor experiments revealed that direct contact between SeO32− and the bacterial cells was necessary to start the reduction. In addition, microscopic investigations identified changes in the bacterial cell morphologies induced by toxic stress effects of SeO32−. Only extracellular production of BioSe-Nanospheres was observed using STEM equipped with a HAADF detector. The produced BioSe-Nanospheres were characterized by Raman spectroscopy as being amorphous Se. Furthermore, a stabilizing corona containing proteins and EPS, which caps the BioSe-Nanospheres, has been identified by FT-IR spectroscopy. The detailed composition of this corona has been further studied using proteomics analysis. The combination of two-chamber reactor experiments, genome analysis and the identified corona proteins indicated that the selenite reduction process of B. safensis JG-B5T was primarily mediated through membrane-associated proteins, like succinate dehydrogenase. Thus, a detailed molecular mechanism of the microbial reduction of SeO32− to BioSe-Nanospheres by the bacterial strain B. safensis JG-B5T has been proposed within this work. Besides these investigations on the formation of BioSe-Nanospheres, ζ-potential measurements have shown a low colloidal stability of the produced BioSe-Nanospheres. Thus, B. safensis JG-B5T is an attractive candidate in selenite wastewater treatment as it provides easy ways of recovering Se while maintaining low Se discharge. These investigations motivated us to study the general role of the microbial origin and microbial environment of the discharged nanomaterials in their shape change from BioSe-Nanospheres to BioSe-Nanorods. This constitutes the second part of this Ph.D. thesis. Thus, two different known microbial BioSe-Nanospheres producers by means of selenite reduction were used, namely the bacterial strain Escherichia coli K-12 and the microbial mix culture of anaerobic granular sludge. It was shown with Raman spectroscopy and SEM imaging that the BioSe-Nanospheres produced by E. coli K-12 remain amorphous and spherical when exposed to thermophilic conditions (up to one year), whereas those obtained by anaerobic granular sludge transform to trigonal BioSe-Nanorods. ζ-potential measurements identified a decrease of the colloidal stability of the transformed BioSe-Nanorods of anaerobic granular sludge compared to the still spherical BioSe-Nanospheres of E. coli K-12. As the shape of these BioSe-Nanospheres is stabilized by their corona, detailed investigations were performed to derive key factors affecting its shape change. CheSeNMs capped with different amount of BSA were produced and incubated to evaluate the quantitative effect of the amount of proteins in the corona on the shape stability of BioSe-Nanomaterials. This experiment implied that the larger quantity of proteins present in the corona of the BioSe-Nanospheres provide better shape stability. Indeed, the BioSe-Nanospheres produced by E. coli K-12 have 5.5 times more protein than those produced by anaerobic granular sludge. To gain deeper insight into their structural properties, proteomics analysis identified the surface proteins of the BioSe-Nanomaterials. The proteomics analysis also showed that the corona of BioSe-Nanospheres produced by E. coli K-12 consists of 1009 different proteins compared to only 173 on those produced by anaerobic granular sludge. The possible difference in the interaction of the corona proteins and selenium was elucidated using density functional theory calculations. The calculations suggest the possibility of the S-Se bond formation between Se atom and sulphur of the cysteine and methionine residues of the corona proteins. Furthermore, as representative for the microbial environment the bacterial strain B. safensis JG-B5T was used to mimic the role of microorganisms living in the vicinity of the discharged nanoparticles. The bacterial strain was incubated with purified BioSe-Nanospheres produced by E. coli K-12 at mesophilic conditions. Raman spectroscopy and SEM imaging showed that in contrast to the thermophilic incubation, the BioSe-Nanospheres transformed to BioSe-Nanorods in the presence of B. safensis JG-B5T. Proteomics analysis identified that the protein corona of BioSe-Nanospheres produced by E. coli K-12 was degraded by extracellular peptidases secreted upon co-incubation with B. safensis JG-B5T bacteria, which led to their transformation to BioSe-Nanorods. All the above findings show, how microorganisms fundamentally impact the speciation, colloidal stability, and shape of selenium. These, consequently, affect their flow coefficients or partition factors in the environment and therefore their fate. This work consequently demonstrates that the shape of the BioSe-Nanomaterials depends on both, their microbial origin and their microbial surrounding. Especially, the dynamic changes induced by this microbial environment on the shape of already formed BioSe-Nanospheres after their discharge are to be further explored. This increases the complexity in determining the risk assessment of Se and probably other redox active elements, which needs to be re-evaluated and improved by including microbial criteria for better accuracy. Based on the presented investigations, further studies regarding the detailed application and expansion to other bacterial strains will continuously widen the understanding of the behaviour of Se in the environment and engineered systems.

Characterizing nanoparticles to be able to understand how they functions in the body is important for development of drugs. Furthermore with increasing number of nanoparticle product the nanotoxicity of nanoparticles is important to understand. This report is a part of the EU-project Nanoclassifier which purpose is to “develop a cost effective, high throughput screening platform for characterization of the bionanointerface and its cell-binding partners”. Single-cycle kinetic was used to determine the number of binding epitopes on polystyrene nanoparticle with transferrin corona. The number of available epitopes describes how active the Nanoparticle will be in the body. For this purpose Single-cycle kinetic methodology was successfully used on nanoparticles. Single-cycle kinetic methodology has great potential to become the standard method for high throughput nanoparticle epitope characterization.

L’objectif principal de ces travaux de thèse était de comprendre l’impact de la chimie de surface de NPs lors de leur interaction avec des interfaces biologiques. Deux sortes de NPs cœurs-coquilles ont été étudiées : des NPs sphériques de silice mésoporeuse Fe3O4@MSN de 100 nm de diamètre, contenant un cœur magnétique et des NPs composées d’analogues de bleu de Prusse (ABP) de formes cubiques (BP), cuboïdes (FeNi), ou polyédriques Au@BP contenant un cœur d’or, de tailles comprises entre 47 et 67 nm. Ces NPs différent par leur taille, leur composition chimique et leur forme. Les NPs de silice mésoporeuse, particulièrement étudiées ces dernières années pour leurs potentielles applications médicales, ont été choisies pour estimer la pertinence du recours à des modèles membranaires supportés pour l’évaluation de la sécurité biologique de nanomatériaux pour la santé. Les NPs Fe3O4@MSN ont été synthétisées de façon homogène et reproductible. Ces NPs ont ensuite été fonctionnalisées, par greffage de groupements PEG sur la silice, ou recouvertes avec une bicouche lipidique. L’influence des propriétés de surface sur la stabilité en suspension de ces NPs a été caractérisée dans différents milieux. Les effets de ces NPs sur la viabilité cellulaire et la cinétique d’internalisation ont été suivis sur une lignée cellulaire d’hépato-carcinome humain HepG2. Afin d’appréhender la relation entre les propriétés de surface des NPs et leurs effets sur les cellules, l’interaction des NPs avec des modèles membranaires a été étudiée. Les interactions des NPs avec des modèles membranaires ont été suivies par microbalance à quartz (QCM-D) et résonance plasmonique de surface (RPS). Les NPs fonctionnalisées sont plus rapidement internalisées que les NPs natives, en particulier les NPs recouvertes de bicouches lipidiques, mais sont moins toxiques pour les cellules HepG2. La présence de protéines de sérum de veau fœtal induit la formation d’une couronne de protéines qui influence l’interaction des NPs natives avec les membranes. Par contre, les groupements PEG ou le recouvrement lipidique forment un encombrement stérique limitant l’adhésion des protéines à la surface, qui n’influencent donc pas l’interaction des NPs avec les membranes. D’autre part, les NPs d’ABP ont été recouvertes avec des bicouches lipidiques. Les NPs polyédrique Au@BP contiennent un cœur d’or pour leur conférer des propriétés plasmoniques. La forme des NPs, sphériques, cubiques, cuboïdes ou polyédriques, n’influence pas le recouvrement lipidique. Ces différentes NPs, agrégées à 150 mM de NaCl, sont stabilisées en suspension par la formation d’une bicouche lipidique supportée en surface. L’influence de la forme sur la sécurité biologique des NPs peut ainsi être étudiée, celles-ci ayant des propriétés de surface communes mais différentes formes. / This work is a part of a multidisciplinary project focused on the safety of nanoparticles (NPs) developed for theranostic applications. The goal of this thesis is to investigate the role of surface chemistry of NPs at the biological interface. Two types of core-shell NPs have been studied: spherical mesoporous silica Fe3O4@MSN, with a diameter of 100 nm and a magnetic core, and cubic, cuboid and polyhedral NPs composed of Prussian blue analogous, presenting sizes comprised between 47 and 67 nm. The polyhedral Prussian blue NPs Au@BP contain a gold core. The NPs present different sizes, shapes and chemical compositions. Mesoporous silica NPs (MSN), particularly studied for their potential medical applications, have been used to evidence the relevance of model membranes to investigate NPs safety. First, Fe3O4@MSN were homogeneously synthesized, in reproducible 100 mg batches. These NPs have been functionalized by PEG grafting and lipid coating. The influence of the surface properties on the NPs stability have been characterized in various media. A human hepatocarcinoma cell line HepG2 have been used to measure the cell viability and observe the uptake kinetics when the cells are incubated with Fe3O4@MSN. To rely the surface properties of the NPs to their cell effects, the interaction of NPs with membrane models have been studied. Quartz crystal microbalance with dissipation monitoring (QCM-D) and surface plasmon resonance (RPS) were used to follow NPs-model membrane interactions. Functionalized NPs were uptaken faster than the bare ones, in particular lipid coated NPs, but were less cytotoxic for HepG2 cells. The presence of fetal calf serum proteins reduces the interaction of bare Fe3O4@MSN with model membranes, due to the protein corona that formed around the NPs. However, the presence of proteins doesn’t change NPs-model membranes interactions when NPs are functionalized by PEG grafting or coated with a lipid bilayer. The PEG groups and the lipid bilayers constitute a steric barrier which reduces the protein adhesion at the NPs surfaces. On the other hand, Prussian blue analogous NPs were also coated with lipid bilayers. The golden core of the polyhedral one’s confers localized plasmon properties. The lipid bilayer coating is equally performed on spherical, cubic, cuboid or polyhedral shapes of the various NPs. These different NPs are aggregated in high ionic strength conditions, with 150 mM NaCl, but dispersed when coated by lipid bilayer. The influence of the shape on the safety of the NPs may be compared, using these NPs with common surface coating but various shapes.