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Phylodynamics of deer tick virus in North America
Virus Evolution, 2023 AbstractThe burden of ticks and the pathogens they carry is increasing worldwide. Powassan virus (POWV; Flaviviridae: Flavivirus), the only known North American tick-borne flavivirus, is of particular concern due to rising cases and the severe morbidity of POWV encephalitis.
Rebekah Mcminn +2 more
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What can phylodynamics bring to animal health research?
Trends in Ecology and Evolution, 2021 International audienceInfectious diseases are a major burden to global economies, and public and animal health. To date, quantifying the spread of infectious diseases to inform policy making has traditionally relied on epidemiological data collected ...
Claire Guinat +2 more
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Update on the Phylodynamics of SADS-CoV [PDF]
Life, 2021 Coronaviruses are known to be harmful and heterogeneous viruses, able to infect a large number of hosts. Among them, SADS-CoV (Swine Acute Diarrhea Syndrome Coronavirus), also known as PEAV (Porcine Enteric Alphacoronavirus), or SeA-CoV (Swine Enteric Alphacoronavirus), is the most recent Alphacoronavirus discovered, and caused several outbreaks ...
Fabio Scarpa +2 more
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Phylodynamics for cell biologists
Science, 2021Ancestry and evolution in cell biology Advances in experimental approaches for single-cell analysis allow in situ sequencing, genomic barcoding, and mapping of cell lineages within tissues and organisms. Large amounts of data have thus accumulated and present an analytical challenge.
T. Stadler, O. G. Pybus, M. P. H. Stumpf
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Development of Phylodynamic Methods for Bacterial Pathogens
Trends in Microbiology, 2021Phylodynamic methods have been essential to understand the interplay between the evolution and epidemiology of infectious diseases. To date, the field has centered on viruses. Bacterial pathogens are seldom analyzed under such phylodynamic frameworks, due to their complex genome evolution and, until recently, a paucity of whole-genome sequence data ...
Danielle J. Ingle +2 more
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Inferring the global phylodynamics of influenza A/H3N2 viruses in Taiwan
Journal of the Formosan Medical Association, 2019 Background/Purpose: Influenza A/H3N2 viruses are characterized by highly mutated RNA genomes. In this study, we focused on tracing the phylodynamics of Taiwanese strains over the past four decades. Methods: All Taiwanese H3N2 HA1 sequences and references
Yu-Nong Gong +2 more
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Modelling tree shape and structure in viral phylodynamics [PDF]
Philosophical Transactions of the Royal Society B: Biological Sciences, 2013 Abstract Epidemiological models have highlighted the importance of population structure in the transmission dynamics of infectious diseases. Using HIV-1 as an example of a model evolutionary system, we consider how population structure affects the shape and the structure of a viral phylogeny in the absence of strong selection at the ...
Simon D W Frost, Erik Volz
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Maximum Likelihood Phylodynamic Analysis
2018Die Anzahl der verfügbaren Genomsequenzen für verschiedene Pathogene hat in den letzten Jahren ausserordentlich zugenommen. Bestehende tradi- tionelle Methoden für die phylodynamische Analyse sind nicht effizient für eine große Anzahl von Sequenzen. Um mit den heute verfügbaren Daten- sätzen umzugehen, sind effiziente Heuristiken notwendig.
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Phylodynamics of Human Coxsackievirus B5
Future Virology, 2014ABSTRACT: Aim: Coxsackievirus B5 is recognized as an important pathogen in aseptic meningitis and hand, foot and mouth disease of children. A new distinctive sublineage of Coxsackievirus B5 associated with outbreak of neurological hand, foot and mouth disease in China was recently reported. Materials & methods: We employed a molecular evolution method
Congjun Hao +4 more
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Phylodynamics of Influenza A Viruses
2015Human populations are constantly exposed to emerging pathogens such as influenza A viruses that result from cross-species transmissions. Generally these sporadic events are evolutionary dead-ends, but occasionally, viruses establish themselves in a new host that offers a novel genomic context to which the virus must adjust to avoid attenuation. However,
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