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京都大学 / 新制・課程博士 / 博士(生命科学) / 甲第24119号 / 生博第481号 / 新制||生||64(附属図書館) / 京都大学大学院生命科学研究科統合生命科学専攻 / (主査)教授 野田 岳志, 教授 鈴木 淳, 教授 高田 穣 / 学位規則第4条第1項該当 / Doctor of Philosophy in Life Sciences / Kyoto University / DFAM

Type I interferons (IFN) are a potent antiviral cytokine group that are key regulators of the immune response against virus infection. Not only does this group activate antiviral states within target cells, it can modulate the innate immune response. In the studies presented, we investigate the effects of type I IFN on the innate immune system during a mucosal vaginal virus infection, herpes simplex virus type 2 (HSV-2), a prominent sexually transmitted infection that causes genital herpes and increases risk of human immunodeficiency virus acquisition. It is well known that type I IFN is critical for natural killer (NK) cell activation. These cells contribute to the antiviral response by suppressing virus replication and aiding in the initiation of the adaptive immune response, particularly through the release of IFN-γ. In the work presented, we demonstrate that type I IFN does not act on NK cells directly for their activation, but instead activates NK cell IFN-γ production by inducing inflammatory monocytes to release IL-18, which in turn, signals NK cells to release IFN-γ during a mucosal HSV-2 infection. Rather, direct action of type I IFN on NK cells serves to negatively regulate their IFN-γ response. We also found that type I IFN was critical for suppressing virus-induced innate immunopathology during HSV-2 infection. Overall, our studies further our understanding of type I IFN and the many roles it plays during virus infection, which has become more relevant as specific therapies altering type I IFN are being used in the clinic. Further, we provide a fundamental understanding of type I IFN and its ability to shape the innate immune response to virus infection by suppressing dysregulated and immunopathological functions while promoting beneficial innate immune responses that can help fight the infection. / Thesis / Doctor of Philosophy (PhD) / Type I interferons (IFN) are a group of proteins that are rapidly produced early during infection and is important for combatting virus infections. We show that type I IFN is not just an antiviral molecule, but can modulate the initial immune response to virus infection. As part of the initial immune response, Natural killer (NK) cells are immune cells that respond rapidly to infection and are a key element in controlling the early stages of infection. We found that type I IFN is critical for activating NK cell function by signaling through an intermediary cell, but can also suppress that same function by directly acting on NK cells. We also found that type I IFN is critical for suppressing a dysregulated immune response that causes severe virus-induced vaginal pathology. Overall, our data suggests that type I IFN is a key antiviral molecule that shapes the immune response to virus infection.

Japanese encephalitis virus (JEV) is one of the major causes of encephalitis in Asia. JEV causes serious inflammation of the brain, which may lead to permanent brain damage and has a high mortality rate. Almost 3 billion people live in JE endemic areas and JEV causes an estimated 20,000 cases of disease and 6000 deaths per year. JEV is a positive stranded RNA virus belonging to the Flavivirus genus of the family Flaviviridae. The genome of JEV is about 11 kb long and codes for a polyprotein which is cleaved by both host and viral encoded proteases to form 3 structural and 7 non-structural proteins. JEV transmission occurs through a zoonotic cycle involving mosquitoes and vertebrate amplifying hosts, chiefly pigs and ardeid birds. Humans are infected when bitten by an infected mosquito and are dead end hosts. The role of humoral and cell mediated immune responses during JEV infection have been studied by several groups. While the humoral responses play a central role in protection against JEV, the cell mediated immune responses contributing to this end are not fully understood. The MHC molecules have been known to play predominant roles in host responses to viral infections and the consequences of virus infection on the expression of MHC molecules are varied. The expression of MHC-I molecules is known to decrease upon infection with many viruses such as HIV, MCMV, HCMV, Adv, and EBV. In contrast, infection with flavivirus such as West Nile Virus (WNV) has been shown to increase the cell surface expression of both MHC-I and MHC-II molecules. It has been reported previously that WNV infection increases the cell surface expression of adhesion molecules such as ICAM-1, VCAM-1 as well as E-Selectin and these changes were mediated directly by WNV and not by soluble cytokines. In contrast to classical MHC-I molecules, the nonclassical MHC-I molecules do not belong to a single group of structurally and functionally homologous proteins and normally have lower cell surface expression. Earlier studies have shown that the expression of nonclassical MHC-I molecules were induced during infection with JHM strain of mouse hepatitis virus (MHV). However, the functional significance of this induction is unclear. Expression of nonclassical MHC-I molecules upon flaviviral infection is not very well understood. In this thesis, evidence is presented that JEV infection induces the expression of both classical and nonclassical MHC-I molecules on primary mouse brain astrocytes, mouse embryonic fibroblasts (MEFs) and H6 (hepatoma cell). The levels of adhesion molecules as well as molecules involved in antigen processing and presentation were also analyzed and our results clearly demonstrate that JEV infection induces their expression on astrocytes, MEFs and H6. The role of NF-κB and type-I IFNs in the induction of classical and nonclassical MHC-I molecules as well as molecules involved in antigen processing and presentation were also analyzed and our results demonstrated that type-I IFN mediated signaling is responsible for the induction of these molecules during JEV infection. Chapter 1 discusses the innate and adaptive immune system, the role of classical and nonclassical MHC molecules in the initiation of immune response and diverse strategies adapted by different viruses to evade the immune response. It also includes a detailed discussion about the IFN and NF-κB signaling pathways and their modulation by viral infection. Finally, the genome organization, epidemiology, transmission cycle, pathogenesis and pathology, clinical features, humoral as well as cell mediated immune response to JEV infection and the current vaccine status to JEV infection are briefly discussed. Chapter 2 describes the general materials and methods used in this study. It includes the details of the reagents and cell lines used in the experiments. It also discusses the various techniques such as RT-PCR, FACS analysis, EMSA and ELISA. Chapter 3 focusses on the validation of different knockout MEFs used in the study as well as confirming the purity of primary astrocyte cultures established from pub brains. The susceptibility of various cells to JEV infection has also been investigated. Our results confirmed the authenticity of all the cells and the purity of primary astrocyte cultures used in the study. Our results also indicated that all the cells used in the study are susceptible to JEV infection. Chapter 4 discusses the expression of MHC and related genes involved in immune response upon JEV infection of primary mouse brain astrocytes, MEFs and H6. Chapter 4 demonstrates for the first time that JEV infection induces the expression of nonclassical MHC-I or class Ib molecules namely Qa-1, Qb1 and T10 in addition to the induction of classical MHC-I molecules. In contrast to WNV, there was no increase in the cell surface expression of MHC-II molecules upon JEV infection of primary mouse brain astrocytes. JEV infection also induces the expression of adhesion molecules as well as molecules involved in antigen processing and presentation namely Tap1, Tap2, Tapasin, Lmp2, Lmp7 and Lmp10. Chapter 5 demonstrates that JEV infection induces NF-κB activation in astrocytes and MEFs. Studies using MEFs deficient in classical and alternate pathways of NF-κB activation indicate that JEV activates the classical pathway of NF-κB activation and is dependent on canonical lKKβ/IKK2 activity. JEV infection of astrocytes, MEFs and H6 induces the production of type-I IFNs. To determine the mechanism of type-I IFN induction during JEV infection, MEFs deficient in NF-κB signaling and IFN signaling were used. Results indicate that type-I IFN production in MEFs occurs by both NF-κB dependent and independent mechanisms. In contrast, the production of IFN-α was completely abrogated in IFNAR-\- MEFs whereas IFN-β production was greatly reduced. Production of type-I IFNs in IFNGR-\- MEFs is also reduced upon JEV infection but the reason for this is unclear. Chapter 6 demonstrates that JEV induced expression of classical MHC-I molecules occurs by type-I IFN mediated signaling. This result is in contrast to WNV infection, in which both NF-κB and type-I IFNs are involved in the induction of classical MHC-I molecules. Type-I IFNs were also shown to be involved in the induction of nonclassical MHC molecules namely, Qa-1 and Qb1 during JEV infection. In contrast, the expression of T10, another nonclassical MHC molecule occurs independent of type-I IFN signaling. The expression of molecules involved in antigen processing and presentation namely, Tap1, Tap2, Lmp2 and Lmp7 was type-I IFN-mediated, whereas the expression of Tapasin and Lmp10 was mediated by both type-I IFN dependent and independent mechanisms. The expression of VCAM-1 was dependent on NF-κB mediated signaling. Chapter 7 precisely describes the underlying mechanism of induction of MHC and various other related molecules and their significance during JEV infection. In addition, it also includes a working model for the induction of these molecules during JEV infection. In summary, this is the first study in which the mechanism of JEV mediated induction of classical as well as nonclassical MHC molecules has been studied in detail. This study clearly demonstrated that type-I IFNs are involved in the induction of classical and nonclassical MHC-I molecules during JEV infection. The functional significance of this JEV mediated induction of classical MHC-I molecules is unclear, but it has been proposed that this is to escape from the action of NK cells. The absence of MHC-II induction during JEV infection could be important because it may lead to the initiation of an immune response which is different from that induced during other viral infections which induce the expression of MHC-II molecules. In contrast to classical MHC-I molecules, the functional and biological significance of nonclassical MHC-I molecules are poorly studied. Nonclassical MHC-I molecules play an important role in bridging adaptive and innate immune response. So the nonclassical MHC molecules induced during JEV infection may play an important role in the initiation of immune response during JEV infection. The role these nonclassical MHC-I molecules in antigen presentation during JEV infection is not known. These nonclassical antigens are also recognized by NK and γδT cells, thus the expression of nonclassical MHC-I molecules during JEV infection might also confer a protective role.

Submitted by Luciana Ferreira (lucgeral@gmail.com) on 2014-10-06T15:17:41Z No. of bitstreams: 2 Dissertação - Helen de Oliveira Soares - 2013.pdf: 801287 bytes, checksum: 7d8d0899bf1a66a37c47e1cc61097a1e (MD5) license_rdf: 23148 bytes, checksum: 9da0b6dfac957114c6a7714714b86306 (MD5) / Approved for entry into archive by Luciana Ferreira (lucgeral@gmail.com) on 2014-10-06T15:55:38Z (GMT) No. of bitstreams: 2 Dissertação - Helen de Oliveira Soares - 2013.pdf: 801287 bytes, checksum: 7d8d0899bf1a66a37c47e1cc61097a1e (MD5) license_rdf: 23148 bytes, checksum: 9da0b6dfac957114c6a7714714b86306 (MD5) / Made available in DSpace on 2014-10-06T15:55:38Z (GMT). No. of bitstreams: 2 Dissertação - Helen de Oliveira Soares - 2013.pdf: 801287 bytes, checksum: 7d8d0899bf1a66a37c47e1cc61097a1e (MD5) license_rdf: 23148 bytes, checksum: 9da0b6dfac957114c6a7714714b86306 (MD5) Previous issue date: 2013-04-29 / Hepatitis A virus (HAV) is mainly transmitted by the oral-fecal route. HAV infection prevalence is associated with socio-economic and hygienic conditions. In Brazil, hepatitis A is considered an endemic infection and some studies have shown a shift from high to intermediate endemicity pattern. Almost recyclable waste collectors have a lifestyle that is characterized by precarious social, cultural and environmental factors. The epidemiological status of HAV infections of these workers remains unknown. So, this study aimed to investigate the hepatitis A virus infection profile in recyclable waste collectors in Goiânia, Goiás. A cross-sectional survey was carried out with 431 individuals who were recruited in all 15 recycling cooperatives in Goiânia, Goiás. All individuals were interviewed and their serum samples were tested for anti-HAV total marker by enzyme-linked immunosorbent assay (ELISA). Total anti-HAV positive samples were tested for IgM anti-HAV marker by ELISA. Almost all population (429/431) was positive for total anti-HAV antibodies. By contrast, none were IgM anti-HAV positive. The seroprevalence of HAV infection among recyclable waste collectors in Goiânia-Goiás was 99,5% (IC 95%: 98,1-99,9). Unfavorable socio-economic, sanitary and house conditions (low education and family income, high number of people at home and lack of treated/filtered water), as well as risk practices (contact with contaminated waste, irregular use of gloves and eating from the garbage) were reported by a considerable percentage of participants. These findings highlight the need of actions of health promotion and diseases prevention to the population of recyclable waste collectors in Goiânia, Goiás. / O vírus da hepatite A (HAV) é transmitido principalmente pela via oral-fecal. A prevalência da infecção pelo HAV está associada às condições socioeconômicas e de higiene. No Brasil, a hepatite A é considerada uma infecção endêmica e alguns estudos têm revelado uma mudança no perfil de endemicidade de alto para intermediário. A maioria dos catadores de materiais recicláveis vive em condições sociais, culturais e ambientais precárias. A situação epidemiológica da infecção pelo HAV desses trabalhadores permanece desconhecida. Assim, este estudo teve como objetivo investigar o perfil da infecção pelo vírus da hepatite A em catadores de materiais recicláveis em Goiânia, Goiás. Constitui-se em estudo transversal realizado com 431 indivíduos recrutados nas 15 cooperativas de reciclagem em Goiânia, Goiás. Todos os participantes foram entrevistados e suas amostras de soros testadas para o marcador anti-HAV total pelo ensaio imunoenzimático (ELISA). As amostras positivas foram testadas para o marcador anti-HAV IgM também por ELISA. A quase totalidade da população (429/431) apresentou positividade para o marcador anti-HAV total, porém nenhum indivíduo foi positivo para anti-HAV IgM. A soroprevalência da infecção pelo HAV em catadores de materiais recicláveis em Goiânia-Goiás foi de 99,5% (IC 95%: 98,1-99,9). Características socioeconômicas, sanitárias e de moradia desfavoráveis (baixa escolaridade e renda familiar, número elevado de pessoas no domicílio e falta de água tratada/filtrada), bem como práticas de risco (contato com resíduos contaminados, uso irregular de luvas e ingestão de alimentos encontrados no lixo) foram relatadas por percentuais consideráveis dos participantes. Esses achados evidenciam a necessidade de ações de promoção da saúde e prevenção de doenças para a população de catadores de materiais recicláveis em Goiânia, Goiás.

Regulatory processes and history dependent behavior appear in many dynamical systems in nature and technology. For modeling regulatory processes, hybrid systems offer several advances. From this point of view, to observe the capability of hybrid systems in a history dependent system is a strong motivation. In this thesis, we developed functional hybrid systems which exhibit memory dependent behavior such that the dynamics of the system is determined by both the location of the state vector and the memory. This property was explained by various examples. We used the hybrid system with memory in modeling the gene regulatory network of human immune response to Influenza A virus infection. We investigated the sensitivity of the piecewise linear model with memory. We introduced how the model can be developed in future.

HIV/AIDS is one of the largest health problems the world is currently facing. Even with anti-retroviral therapies (ART), many resource-constrained countries are unable to meet the treatment needs of their infected populations. ART-distribution methods need to be created that prevent the largest number of future HIV infections. We have developed a compartment model that tracks the spread of HIV in multiple two-sex populations over time in the presence of limited treatment. The model has been fit to represent the HIV epidemic in rural and urban areas in Uganda. With the model we examine the spread of HIV among urban and rural regions and observe the effects of preferential treatment to rural areas on the spread of HIV in the country as a whole. We also investigate the effects of preferentially treating women on the spread of HIV. We find that preferentially treating urban women produces the most dramatic effect in reducing the number of infected male and females in rural and urban areas.

L’infection par le virus du Chikungunya est devenu en quelques années un problème de santé publique. D’abord limitée dans les régions tropicales et subtropicales, la diffusion mondiale du vecteur de l’infection couplée à la migration humaine et aux adaptations du virus contribue à la survenue de phénomènes épidémiques fréquents et touchant de nombreux territoires jusqu’aux pays tempérés. Dans les prochaines décades, la population des 65 ans ou plus sera probablement largement impactée lors des épidémies. Les conséquences de la maladie dans cette population est méconnu du fait de l’absence de données d’observation disponibles. Or, les spécificités de cette population sont connues (risque de comorbidité associée, immunosenescence, modifications physiologiques affectant le système rénal, cardiaque, pulmonaire…) et influencent fortement son mode de réponse et sa capacité à supporter un épisode infectieux. A travers l’observation et le suivi de la cohorte ChikOld constituée de 687 sujets âgés de 65 ans ou plus ayant contracté ou non la maladie en 2014, nous avons mis en évidence que les outils d’aide au diagnostic élaborés dans une population d’adultes jeunes avaient des performances médiocres dans la population âgée. Nous avons également pu mettre en évidence que les tableaux cliniques habituellement décrits de la maladie ne sont pas ceux observés le plus fréquemment dans une population de sujets de 65 ans ou plus. Ces observations ont abouti à l’élaboration un outil d’aide au diagnostic (score) spécifique à cette population. De nombreuses questions subsistent concernant cette infection, notamment sur les conséquences à moyen et long terme, sachant les conséquences en phase aiguë et l’existence de formes chroniques. Une étude préliminaire que nous avons conduit suggère l’absence de surmortalité à moyen terme (un an) et la majoration de la dépendance dans les suites d’une infection par le virus du Chikungunya. D’autres travaux seront nécessaires pour caractériser la forme habituelle de la maladie chez les sujets âgés ainsi que pour mieux appréhender les conséquences à moyen et long terme concernant la mortalité et la dépendance. / Chikungunya virus infection is an emergent arthropod-borne alpha-virus transmitted by mosquito bites, and causes fever with debilitating arthritic illness. Chikungunya virus infection is still considered as an emerging public health problem in both tropical and temperate regions. The presence of favourable conditions in temperate regions has enabled propagation of the vector, leading to the emergence of the first autochthonous cases of CHIKV in Europe and the USA. Older people may be particularly concerned about infection during an outbreak. CVhikungunya virus infection prevalence rates are not fully known, and vary from 18% to 48% The use of predictive scores would thus be very helpful in this situation. We have showed that predictive scores developed in young population have poor diagnostic performances in elderly population. In fact, the populations described in observational studies of chikungunya virus infection were predominantly young subjects. Clinical and epidemiological data in older subjects (aged 65 and over) are sparse. The mortality and morbidity related to infection in elderly people is poorly documented. We showed that the usual clinical expression of CHIKV infection is different in elderly subjects (absence of fever, arthralgia or both). We have developed and validated a new Chikungunya virus infection screening score specifically for use in the aged population.Some questions remain, in particular concerning mid- or long-term consequences of infection in elderly people. In a preliminary study, we have showed that the mid-term mortality rate of aged people infected by Chikungunya was lower than that of uninfected aged people.We need to continue our work on this thematic to explore more precisely the consequences of chikungunya virus infection in elderly people (mid- and long-term mortality, loss of autonomy, chronic form…).

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