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Dissertations / Theses on the topic 'RNA viruses'

Author: Grafiati

Published: 4 June 2021

Last updated: 25 July 2025

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1

Chare, Elizabeth R. "Recombination in RNA viruses and plant virus evolution." Thesis, University of Oxford, 2005. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.433381.

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2

Olabode, Abayomi. "The evolution of RNA viruses." Thesis, University of Manchester, 2017. https://www.research.manchester.ac.uk/portal/en/theses/the-evolution-of-rna-viruses(ac87e71c-e9ce-44c6-8dc1-6adbb01e5efb).html.

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This thesis analyzes the evolutionary trajectories that drive the evolution of several RNA viruses. These viruses have been identified to be the leading causes of viral outbreaks and deaths in humans. Studying the mechanisms influencing their evolution could therefore produce vital information for controlling the spread of these viruses or for their eradication. The availability of huge sequence repositories and advancement in computing and sequencing technologies allows for the development of novel methods for understanding the evolution of viruses even during an on-going outbreak, epidemic o

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3

Choudhury, Md Abu Hasnat Zamil. "Population Dynamics of RNA viruses." Thesis, Queensland University of Technology, 2013. https://eprints.qut.edu.au/60866/1/Md._Choudhury_Thesis.pdf.

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Between 50 and 100 million people are infected with dengue viruses each year and more than 100,000 of these die. Dr Choudhury has demonstrated that populations of dengue viruses in individual patients are genetically and functionally very diverse and that this diversity changes significantly at the time of major outbreaks of disease. The results of his studies may inform strategies which will make dengue vaccines far more effective.

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4

Bakker, Saskia. "RNA packaging and uncoating in simple single-stranded RNA viruses." Thesis, University of Leeds, 2012. http://etheses.whiterose.ac.uk/2801/.

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Simple (non-enveloped) small, positive-sense single-stranded RNA viruses infect hosts from all kingdoms of life. However, their assembly and uncoating processes remain poorly understood. For turnip crinkle virus (TCV), 3D reconstructions by cryoelectron microscopy (cryo-EM) are shown for the native and the expanded form. The expanded form is a putative disassembly intermediate and exhibits pores that are large enough to allow exit of single-stranded RNA. Biochemical experiments revealed the expanded form is protease-sensitive, although the RNA genome remains protected from ribonuclease. Virus

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5

Wain, Louise V. "Origins of diversity of RNA viruses." Thesis, University of Nottingham, 2007. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.440123.

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6

Willcocks, Margaret Mary. "Small RNA viruses associated with diarrhoea." Thesis, University of Newcastle Upon Tyne, 1992. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.287271.

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7

Boz, Mustafa Burak. "Modeling and simulations of single stranded rna viruses." Diss., Georgia Institute of Technology, 2012. http://hdl.handle.net/1853/44815.

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The presented work is the application of recent methodologies on modeling and simulation of single stranded RNA viruses. We first present the methods of modeling RNA molecules using the coarse-grained modeling package, YUP. Coarse-grained models simplify complex structures such as viruses and let us study general behavior of the complex biological systems that otherwise cannot be studied with all-atom details. Second, we modeled the first all-atom T=3, icosahedral, single stranded RNA virus, Pariacoto virus (PaV). The x-ray structure of PaV shows only 35% of the total RNA genome and 8

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8

Li, Tin-wai Olive. "Influenza polymerase subunit compatibility between human H1 and H5 viruses." Click to view the E-thesis via HKUTO, 2009. http://sunzi.lib.hku.hk/hkuto/record/B41896890.

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9

Keese, Paul Konrad. "Structures of viroids and virusoids and their functional significance." Title page, contents and summary only, 1986. http://web4.library.adelaide.edu.au/theses/09PH/09phk268.pdf.

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10

Afsharifar, Alireza. "Characterisation of minor RNAs associated with plants infected with cucumber mosaic virus." Title page, table of contents and abstract only, 1997. http://web4.library.adelaide.edu.au/theses/09PH/09pha2584.pdf.

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Bibliography: leaves 127-138. This thesis studies the minor double stranded RNAs (dsRNA) and single stranded RNAs (ssRNA) which are consistently associated with plants infected with Q strain of cucumber mosaic virus (Q-CMV). The investigations are focused on the structural elucidation of new RNAs which have been observed in single stranded and double stranded RNA profiles of Q strain of CMV.

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11

Wu, Chuang. "Phenotype Inference from Genotype in RNA Viruses." Research Showcase @ CMU, 2014. http://repository.cmu.edu/dissertations/457.

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The phenotype inference from genotype in RNA viruses maps the viral genome/protein sequences to the molecular functions in order to understand the underlying molecular mechanisms that are responsible for the function changes. The inference is currently done through a laborious experimental process which is arguably inefficient, incomplete, and unreliable. The wealth of RNA virus sequence data in the presence of different phenotypes promotes the rise of computational approaches to aid the inference. Key residue identification and genotype-phenotype mapping function learning are two approaches t

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12

Bowden, Gregory David. "Novel acyclic nucleotide phosphonates against RNA viruses." Master's thesis, University of Cape Town, 2012. http://hdl.handle.net/11427/10258.

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Includes bibliographical references.<br>Acyclic nucleotide phosphonates (ANPs) have been used for years as successful anti-viral agents against diseases such as HIV/AIDS and hepatitis while the drug ribavirin is one of the only drugs available for the treatment of RNA-viral infections which mainly affect the developing world. The large and unmet need for anti-RNA viral treatments has prompted this study into the design and synthesis of a range of ANPs, which includes a series of ribavirin-based ANP derivatives. The series of compounds was synthesised from a diisopropyl protected phosphonometho

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13

Ward, Melissa Jayne. "Evolutionary analysis of rapidly evolving RNA viruses." Thesis, University of Edinburgh, 2013. http://hdl.handle.net/1842/11748.

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Recent advances in sequencing technology and computing power mean that we are in an unprecedented position to analyse large viral sequence datasets using state-of-the-art methods, with the aim of better understanding pathogen evolution and epidemiology. This thesis concerns the evolutionary analysis of rapidly evolving RNA viruses, with a focus on avian influenza and the use of Bayesian methodologies which account for uncertainty in the evolutionary process. As avian influenza viruses present an epidemiological and economic threat on a global scale, knowledge of how they are circulating and ev

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14

Li, Tin-wai Olive, and 李天慧. "Influenza polymerase subunit compatibility between human H1 and H5 viruses." Thesis, The University of Hong Kong (Pokfulam, Hong Kong), 2009. http://hub.hku.hk/bib/B41896890.

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15

Chan, Annie Yee-Man. "Interactions between the influenza virus RNA polymerase and cellular RNA polymerase II." Thesis, University of Oxford, 2007. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.670083.

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16

Repass, John F. "Studies of murine coronavirus cis-acting RNA elements that affect RNA synthesis /." Digital version accessible at:, 2000. http://wwwlib.umi.com/cr/utexas/main.

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17

Jenkins, Gareth. "Determinants of the molecular evolution of RNA viruses." Thesis, University of Oxford, 2001. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.365413.

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18

Fusaro, Alice. "Evolutionary dynamics of RNA viruses with zoonotic potential." Doctoral thesis, Università degli studi di Padova, 2014. http://hdl.handle.net/11577/3423562.

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RNA viruses with zoonotic potential represent a public health threat throughout the world. High mutation rates, short generation times and large population sizes are three factors responsible for their high genetic variability and enormous adaptive capacity to new environmental conditions. Understanding the genetic properties and the evolutionary dynamics of RNA viruses with zoonotic potential is crucial to prevent, control, treat and lessen the damage to animal and human health. This thesis investigates the most essential aspects related to the evolution and epidemiology of two widespread zo

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19

Upton, John H. "The role of RNA secondary structure in replication of Nodamura virus RNA2." To access this resource online via ProQuest Dissertations and Theses @ UTEP, 2009. http://0-proquest.umi.com.lib.utep.edu/login?COPT=REJTPTU0YmImSU5UPTAmVkVSPTI=&clientId=2515.

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20

Croci, R. "RNA DEPENDENT RNA POLYMERASE: A VALUABLE TARGET TO BLOCK VIRAL REPLICATION IN SINGLE-STRANDED (+)SENSE RNA VIRUSES." Doctoral thesis, Università degli Studi di Milano, 2014. http://hdl.handle.net/2434/243352.

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The (+)strand RNA viruses include a very large group of viruses that cause epidemic diseases in humans, including dengue fever and gastroenteritis. The human (+)RNA viruses include Flaviviruses (FV) and Norovirus (NV). Both encode for proteins essential for viral replication, such as the RNA dependent RNA polymerase (RdRp). Since human cells lack RdRp, it appears as one of the most promising targets for antivirals development. I worked on the identification of new non-nucleotide inhibitors against FV and NV, using RdRp as the main target. In this context, suramin and NF023 have been identifie

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21

Zeng, Yingying. "Modeling and structural studies of single-stranded RNA viruses." Diss., Georgia Institute of Technology, 2013. http://hdl.handle.net/1853/47630.

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My research focuses on structures of the genomes of single-stranded RNA viruses. The first project is concerned with the sequence and secondary structure of HIV-1 RNA. Based on the secondary structure that Watts et al. determined, I performed a series of analysis and the results suggested that the abundance of Adenosines at the wobble position of the codons leads to an unusual structure with numerous unpaired nucleotides. The findings indicated how the virus balances evolutionary pressures on the genomic RNA secondary structure against pressures on the sequence of the viral proteins. The secon

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22

Kok, Tuckweng. "Early events in the replication cycle of human immunodeficiency virus /." Title page, contents and abstract only, 1998. http://web4.library.adelaide.edu.au/theses/09PH/09phk79.pdf.

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Thesis (Ph. D.)--University of Adelaide, Dept. of Microbiology & Immunology, 1998.<br>Copy of author's previously published article on back end-paper. Includes bibliographical references (leaves 105-158).

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23

Exline, Colin Michael Stoltzfus C. Martin. "The positive regulation of HIV-1 Vif mRNA splicing is required for efficient virus replication." [Iowa City, Iowa] : University of Iowa, 2009. http://ir.uiowa.edu/etd/356.

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24

Rosskopf, John J. "CIS-acting signals for replication of Nodamura virus RNA1." To access this resource online via ProQuest Dissertations and Theses @ UTEP, 2009. http://0-proquest.umi.com.lib.utep.edu/login?COPT=REJTPTU0YmImSU5UPTAmVkVSPTI=&clientId=2515.

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25

Topley, Elize Lindsay. "Molecular detection and characterisation of RNA viruses of honeybees." Thesis, University of the Western Cape, 2009. http://etd.uwc.ac.za/index.php?module=etd&action=viewtitle&id=gen8Srv25Nme4_6220_1298349602.

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<p>Propagation methods for honeybee viruses have not changed since these viruses were discovered. There are no suitable cell lines or cell culture techniques available for honeybee viruses. Honeybee viruses have to be manually injected with virus in order for the virus to multiply and be extracted. With the presence of inapparent viruses which could co-infect pupae, a method for pure virus propagations needs to be found. Recombinant baculovirus systems have been used extensively to produce foreign proteins from different viruses using vectors and recombinant technology. In this chapter we inse

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26

Hershan, Almonther A. "Identification and analysis of conserved structures in RNA viruses." Thesis, University of Essex, 2012. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.572803.

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The family Picornaviridae includes many important human pathogens. RNA structures play important roles in picornavirus molecular biology and recent evidence suggests that these are more extensive than previously thought. In this project we identified a number of potential RNA structures in picornavirus genomes and started to analyse one of these structures. The work focussed on human parechoviruses (HPe V). The structure of the HPe V 5' untranslated region (UTR) was analysed by obtaining several new sequences and using an alignment of 60 sequences to identify covariant changes. This allowed th

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27

Naylor, Martin. "The effects of salicylic acid on RNA plant viruses." Thesis, University of Cambridge, 1999. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.624519.

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28

Wang, Andrew C. "Recombination of Two RNA Viruses: Red Clover Necrotic Mosaic Virus and Carnation Ringspot Virus." Thesis, The University of Arizona, 2010. http://hdl.handle.net/10150/146250.

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In this research project, two plant RNA viruses, Red clover necrotic mosaic virus (RCNMV) and Carnation Ringspot Virus (CRSV) were studied and two recombinants were created using RNA1 of RCNMV and RNA2 of CRSV (R1+C2) for one recombinant and RNA2 of RCNMV and RNA1 of CRSV (C1+R2) for the other recombinant. Nicotiana clevelandii and Nicotiana benthamiana were inoculated with the wild types and the two recombinants. The tissues of the plants were extracted for total RNA and a reverse transcription polymerase chain reaction was performed on the total RNA. Using specific primers, the RCNMV wild ty

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29

Talló, Parra Marc 1992. "Circular RNAs : from host RNA molecules to novel broad-spectrum antivirals." Doctoral thesis, Universitat Pompeu Fabra, 2019. http://hdl.handle.net/10803/668309.

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La rellevància clínica dels virus transmesos per mosquits, com el virus del dengue (DENV), el virus del zika (ZIKV), el virus del chikungunya (CHIKV) i el virus del Nil Occidental (WNV), ha augmentat dràsticament durant els darrers anys, provocant un problema de salut global. Actualment, no hi ha cap tractament disponible ni cap vacuna efectiva per tractar aquestes infeccions. Tots aquests virus causen infeccions agudes que han de ser tractades ràpidament després de l’aparició dels símptomes inicials perquè els medicaments siguin efectius. Tot i això, el diagnòstic precoç continua sent un rept

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30

Killip, Marian J. "RNA virus modulation of IFN, PI3K and apoptosis." Thesis, St Andrews, 2009. http://hdl.handle.net/10023/777.

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31

Phosiwa, Maanda Noaxe. "Molecular characterization of a porcine picobirnavirus RNA-dependent RNA polymerase." Diss., Pretoria : [s.n.], 2009. http://upetd.up.ac.za/thesis/available/etd-07152009-175205/.

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32

Ford, Robert John. "The roles of RNA in the assembly and disassembly of single-stranded RNA icosahedral viruses." Thesis, University of Leeds, 2012. http://etheses.whiterose.ac.uk/4135/.

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Single-stranded, positive-sense icosahedral viruses are major pathogens in every kingdom of life. Despite this, their capsid assembly and uncoating mechanisms remain poorly understood. This work describes these processes in two model systems; satellite tobacco necrosis virus and turnip crinkle virus. For satellite tobacco necrosis virus, several aptamers were previously raised against the coat protein, where each aptamer folded into stem-loops displaying the motif AXXA. Aptamer B3 contained the strongest sequence similarity to the cognate genome, including a 10/10 contiguous stretch. Capsid as

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33

Treutler, Eva [Verfasser], and Peter [Akademischer Betreuer] Beyer. "Untersuchungen zur Isolierung von eps-RNA-Polymerase-Komplexen des Hepatitis-B-Viruses durch RNA-Affinitätsreinigung." Freiburg : Universität, 2012. http://d-nb.info/1123472637/34.

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34

Wright, Sam Mathew. "Structural and biophysical studies of RNA-dependent RNA polymerases." Thesis, University of Oxford, 2010. http://ora.ox.ac.uk/objects/uuid:d5c2a16d-e1e2-4c22-aca5-70f72aa96853.

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RNA-dependent RNA polymerases (RdRps) play a vital role in the life cycle of RNA viruses, being responsible for genome replication and mRNA transcription. In this thesis viral RdRps (vRdRps) of dsRNA bacteriophage phi6 (phi6 RdRp) and Severe Acute Respiratory Syndrome (SARS) coronavirus [non structural protein 12 (NSP-12)] are studied. For SARS polymerase NSP-12, a library-based screening method known as ESPRIT (Expression of Soluble Protein by Random Incremental Truncation) was employed in an attempt to isolate domains of NSP-12 that express solubly in Escherichia coli (E. coli) and are there

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35

Rohozinski, J. "Studies of velvet tobacco mottle virus RNA replication by enzyme-template complexes in extracts from infected leaves /." Title page, contents and summary only, 1985. http://web4.library.adelaide.edu.au/theses/09PH/09phr738.pdf.

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36

Worobey, Michael. "The occurrence and impact of viral recombination." Thesis, University of Oxford, 2002. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.249612.

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37

Liu, Yuan Yi. "A study of a satellite RNA from arabis mosaic nepovirus." Thesis, University of Oxford, 1992. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.335830.

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38

Short, James Roswell. "An investigation into the replication biology of Helicoverpa armigera stunt virus." Thesis, Rhodes University, 2011. http://hdl.handle.net/10962/d1004026.

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Tetraviruses are a family of small non-enveloped positive sense RNA viruses that exclusively infect members of the order Lepidoptera. Their replication biology is poorly studied because, with the exception of Providence virus (PrV), tetraviruses are unable to replicate in tissue culture cells. The overall aim of the research described in this thesis was to develop a fundamental understanding of the replication of tetraviruses, focussing on the site of replication within host cells and in particular, the subcellular localisation of the viral replicase. Helicoverpa armigera stunt virus (HaSV, Ge

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39

Bamford, Anona Isabelle. "Interactions between cytotoxic effector cells and bovine parainfluenza type 3 virus." Thesis, Queen's University Belfast, 1994. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.241326.

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40

Williams, Claire Amy. "The role of RNA helicases in HIV-1 replication." Thesis, University of Cambridge, 2012. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.610047.

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41

Palasingam, Kampan. "Homologous Recombination in Q-Beta Rna Bacteriophage." Thesis, University of North Texas, 1992. https://digital.library.unt.edu/ark:/67531/metadc500683/.

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Q-Beta phage RNAs with inactivating insertion (8 base) or deletion (17 base) mutations within their replicase genes were transfected into Escherichia coli spheroplasts containing QB replicase provided in trans by a resident plasmid. Replicase-defective (Rep~) Q3 phage produced by these spheroplasts were unable to form plaques on cells lacking this plasmid. When individual Rep~ phage were isolated and grown to high titer in cells containing plasmid derived Q3 replicase, revertant Q3 phage (Rep'), with the original mutation (insertion or deletion) repaired, were obtained at a frequency of ca. 1

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42

McCauley, Sephen Jude. "The annotation and evolutionary analysis of overlapping CDS in ssRNA viral genomes." Thesis, University of Oxford, 2007. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.670151.

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43

Dudas, Gytis. "Inference of evolutionary and ecological processes from reticulate evolution in RNA viruses." Thesis, University of Edinburgh, 2016. http://hdl.handle.net/1842/20442.

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RNA viruses have the fastest evolutionary rates amongst protein-coding organisms on the planet. Ease of sequencing, advanced techniques of analysis and global health and economic concerns have all contributed to the recognition of RNA viruses as a robust research platform. Phylogenetic methods have been at the forefront of analytical techniques used to understand the dynamics of RNA viruses - during natural circulation in populations and in individual hosts, within epidemics, across species barriers and over billions of years that viruses have been around. Most of the work presented in this th

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44

Nanfack, Minkeu Ferdinand. "Interaction of novel natural RNA viruses with Anopheles malaria vectors." Electronic Thesis or Diss., Sorbonne université, 2018. https://accesdistant.sorbonne-universite.fr/login?url=https://theses-intra.sorbonne-universite.fr/2018SORUS442.pdf.

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Les moustiques sont colonisés par un virome très peu étudié. Comme les bactéries, le virome influence probablement la biologie et l'immunité des populations de moustiques vecteurs, mais les modèles expérimentaux sont rares. Nous avons récemment découvert deux nouveaux virus chez le virome des vecteurs sauvages du paludisme, anophèles et des colonies d’Anopheles coluzzii : Anopheles C virus (AnCV) et Anopheles cypovirus (AnCPV). L’un ou les deux virus sont présents dans toutes les colonies de laboratoire d’An. gambiae et An. coluzzii. La prévalence des virus varie en fonction des stades du mous

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45

Walter, Cheryl Tracy. "Development of experimental systems for studying the biology of Nudaurelia capensis ß virus." Thesis, Rhodes University, 2005. http://hdl.handle.net/10962/d1004007.

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After 20 years, Nudaurelia ß virus (NßV) was re-isolated from a population of Nudaurelia capensis larvae exhibiting similar symptoms to those described in 1974 for a tetravirus infection. NßV is a member of the Tetraviridae, a family of positive sense insect RNA viruses that exclusively infect Lepidopteran insects. In addition to NbV, there was evidence that the insects were infected with another small RNA virus. SDS-PAGE and Western analysis revealed two proteins (p56 and p58), that cross-reacted with anti-NbV antibodies. Transmission Electron Microscopy (TEM) analysis showed the presence of

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46

Wahyuni, Wiwiek Sri. "Variation among cucumber mosaic virus (CMV) isolates and their interaction with plants." Title page, contents and summary only, 1992. http://web4.library.adelaide.edu.au/theses/09PH/09phw137.pdf.

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Includes appendix containing journal publications co-authored by the author. Includes bibliographical references (leaves 130-151). Eighteen strains of Cucumber mosaic virus, including forteen from Australia, two from the USA, and two from Japan were used in this study.

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47

Williams, Rhys Harold Verdon George. "Further studies on the structure and function of the cucumber mosaic virus genome : a thesis submitted to the University of Adelaide, South Australia for the degree of Doctor of Philosophy." 1988, 1988. http://web4.library.adelaide.edu.au/theses/09PH/09phw7261.pdf.

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48

Hengrung, Narin. "Structure of the RNA-dependent RNA polymerase from influenza C virus." Thesis, University of Oxford, 2014. http://ora.ox.ac.uk/objects/uuid:694e16a6-f94e-4375-a1f9-7e250aea7343.

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The influenza virus causes a disease that kills approximately 500,000 people worldwide each year. Influenza is a negative-sense RNA virus that encodes its own RNA-dependent RNA polymerase. This protein (FluPol) carries out both genome replication and viral transcription. Therefore, like the L-proteins of non-segmented negative-sense RNA (nsRNA) viruses, FluPol also contains mRNA capping and polyadenylation functionality. In FluPol, capping is achieved by snatching cap structures from cellular mRNAs, so requiring cap-binding and endonuclease activities. This makes FluPol a substantial machine.

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49

Liu, Chunyu. "Quinic Acid-Mediated Induction of Hypovirulence and a Hypovirulence-Associated Double-Stranded RNA in Rhizoctonia Solani." Fogler Library, University of Maine, 2001. http://www.library.umaine.edu/theses/pdf/LiuC2001.pdf.

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50

Rajendran, KS. "Dissecting the functions of carmovirus replicase proteins dissecting the functions of carmovirus tombusvirus replicase proteins dissecting." Lexington, Ky. : [University of Kentucky Libraries], 2004. http://lib.uky.edu/ETD/ukyplpa2004d00150/Rajendra.pdf.

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Thesis (Ph. D.)--University of Kentucky,2004.<br>Title from document title page (viewed Oct. 12, 2004). Document formatted into pages; contains ix, 111 p. : ill. Includes abstract and vita. Includes bibliographical references (p. 97-110).

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