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Revealing the evolutionary history and epidemiological dynamics of emerging RNA viral pathogens

หน่วยงาน Edinburgh Research Archive, United Kingdom

รายละเอียด

ชื่อเรื่อง : Revealing the evolutionary history and epidemiological dynamics of emerging RNA viral pathogens
นักวิจัย : Raghwani, Jayna
คำค้น : emerging RNA viruses , viral evolution , molecular phylogenetics , epidemology
หน่วยงาน : Edinburgh Research Archive, United Kingdom
ผู้ร่วมงาน : Rambaut, Andrew , Leigh-Brown, Andrew , Biotechnology and Biological Sciences Research Council (BBSRC)
ปีพิมพ์ : 2555
อ้างอิง : http://hdl.handle.net/1842/5859
ที่มา : -
ความเชี่ยวชาญ : -
ความสัมพันธ์ : Raghwani, J., Rambaut, A., Holmes, E. C., Hang, V. T., Hien, T. T., Farrar, J., Wills, B., Lennon, N. J., Birren, B. W., Henn, M. R., Simmons, C. P., Jun 2011. Endemic dengue associated with the co-circulation of multiple viral lineages and localized density-dependent transmission. PLoS Pathog 7 (6), e1002064. , Raghwani, J., Thomas, X. V., Koekkoek, S. M., Schinkel, J., Molenkamp, R., van de Laar, T. J., Takebe, Y., Tanaka, Y., Mizokami, M., Rambaut, A., Pybus, O. G., Nov 2012. The origin and evolution of the unique hcv circulating recombinant form 2k/1b. J Virol 86 (4), 2212-2220. , Smith, G. J. D., Vijaykrishna, D., Bahl, J., Lycett, S. J., Worobey, M., Pybus, O. G., Ma, S. K., Cheung, C. L., Raghwani, J., Bhatt, S., Peiris, J. S. M., Guan, Y., Rambaut, A., Jun 2009b. Origins and evolutionary genomics of the 2009 swine-origin h1n1 influenza a epidemic. Nature 459 (7250), 1122-5.
ขอบเขตของเนื้อหา : -
บทคัดย่อ/คำอธิบาย :

Fast-evolving RNA viruses are a leading cause of morbidity and mortality among human and animal populations, contributing significantly to both global health and economic burden. The advent and revolution of high-throughput sequencing has empowered phylogenetic analyses with increasing amounts of temporally and spatially sampled viral data. Moreover, the parallel advancement in molecular evolution and phylogenetic methods has provided investigators with a unique opportunity to gain detailed insight into the evolutionary and epidemiological dynamics of emerging viral pathogens. Using state-of-the-art statistical approaches, this thesis addresses some of the important but controversial questions in viral emergence. Chapter 2 introduces a new framework to quantify and investigate reassortment events in influenza A viruses. By developing a computationally efficient algorithm to calculate the largest common subtree for a pair of tree sets, which are estimated from diffe rent parts of the genome for the same taxa set, the level of phylogenetic incongruency due to reassortment can be appropriately ascertained. Chapters 3, 4 and 5 investigate the evolutionary origins of three diff erent viruses: the novel emergence and cross-species transmission of SARSCoV, the genesis and dissemination of the unique HCV circulating recombinant form, and the ancient divergence of all influenza viruses, respectively. Moreover, Chapter 4 presents an improved statistical framework, which provides more precise evolutionary estimates, by utilizing the hierarchical bayes approach to investigate recombination events in emerging RNA viruses. The last empirical study, presented in Chapter 6, applies the recently developed Bayesian phylogeography models to a large viral sequence dataset sampled from southern Viet Nam to examine the fine-scale spatiotemporal dynamics of endemic dengue in Southeast Asia. The work presented here reflects both the advancements made in sequencing technology and statistical phylogenetics, along with some of the challenges that remain in studying the emergence of fast-evolving RNA viruses. This thesis proposes new and improved solutions to these evolutionary problems, such as incorporating non-vertical evolution (i.e. homologous recombination and reassortment) into the phylodynamic framework, with the aim of facilitating future investigations of emerging viral diseases.

บรรณานุกรม :
Raghwani, Jayna . (2555). Revealing the evolutionary history and epidemiological dynamics of emerging RNA viral pathogens.
    กรุงเทพมหานคร : Edinburgh Research Archive, United Kingdom .
Raghwani, Jayna . 2555. "Revealing the evolutionary history and epidemiological dynamics of emerging RNA viral pathogens".
    กรุงเทพมหานคร : Edinburgh Research Archive, United Kingdom .
Raghwani, Jayna . "Revealing the evolutionary history and epidemiological dynamics of emerging RNA viral pathogens."
    กรุงเทพมหานคร : Edinburgh Research Archive, United Kingdom , 2555. Print.
Raghwani, Jayna . Revealing the evolutionary history and epidemiological dynamics of emerging RNA viral pathogens. กรุงเทพมหานคร : Edinburgh Research Archive, United Kingdom ; 2555.