This dissertation is a tale of two emerging human pathogens. The first is a genus of viruses, orthoebolaviruses, which periodically cause outbreaks in humans in central and western Africa following spillover from animal reservoirs. Outbreaks of orthoebolaviruses have high rates of morbidity and mortality and can cause symptoms ranging from vomiting and diarrhea to hemorrhage. Understanding both how the virus evolves to fit its host as well as how the host reacts to viral infection is paramount to understanding what determines whether an infected patient will die or survive orthoebolavirus infection.
To understand how orthoebolavirus genomic plasticity allows the virus to optimize itself to its host, I analyzed viral genomic sequencing data from two Orthoebolavirus species during serial passage in tissue culture: Ebola virus and Sudan virus. In low-passage Sudan virus, I discovered a true viral quasispecies in which three to four viral genotypes circulated within the same stock. I then examined how that quasispecies reacted when put into a nonhuman primate model (NHP) of infection; unexpectedly, we saw that the mix of genotypes in the challenge stock matched the mix of genotypes seen at clinical endpoint.
To begin to understand what a successful immune response to orthoebolavirus infection entails, I characterized the circulating transcriptomic response in two survival models of Ebola virus disease. In a uniform survival model where NHPs were challenged with Bombali virus, I showed that NHPs have a clear and robust response to infection despite varying symptom severity. In a Taï Forest virus challenge model with ~44% survival, I showed that NHPs that succumb do so in a uniform manner consistent with other models of Ebola virus disease. In contrast, survivors were highly variable in their response to infection: some mimicked the non-survivor response but recovered in time, while others hardly responded at all.
After covering orthoebolavirus genomic plasticity and the host response to infection in the first and second sections, respectively, I will then shift to the other focus of my dissertation work: SARS-CoV-2 and molecular epidemiology. SARS-CoV-2 swept the globe in 2020 following spillover into humans from an animal reservoir in late 2019, and surveillance sequencing of viral genomes early in the pandemic showed the virus was rapidly adapting to its new host. I leveraged this high mutation rate to spin up a molecular epidemiology operation for Boston Medical Center (BMC) and Boston University (BU). From mid-2020 through spring 2022, I catalogued, processed, sequenced, and analyzed samples and viral genomes from over 7,000 SARS-CoV-2 patient swabs. I worked with contact tracing teams, physicians, and infection control from BU and BMC to quantify viral introductions, identify transmission chains, and integrate the genetic linkages with traditional epidemiological data. / 2025-01-11T00:00:00Z
| Identifer | oai:union.ndltd.org:bu.edu/oai:open.bu.edu:2144/47926 |
| Date | 11 January 2024 |
| Creators | Turcinovic, Jacquelyn |
| Contributors | Connor, John H. |
| Source Sets | Boston University |
| Language | en_US |
| Detected Language | English |
| Type | Thesis/Dissertation |
| Rights | Attribution-NonCommercial-NoDerivatives 4.0 International, http://creativecommons.org/licenses/by-nc-nd/4.0/ |
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