Clinical and biological insights from viral genome sequencing

CJ Houldcroft, MA Beale, J Breuer - Nature Reviews Microbiology, 2017 - nature.com
Whole-genome sequencing (WGS) of pathogens is becoming increasingly important not
only for basic research but also for clinical science and practice. In virology, WGS is …

Detecting biothreat agents: From current diagnostics to developing sensor technologies

SA Walper, G Lasarte Aragonés, KE Sapsford… - ACS …, 2018 - ACS Publications
Although a fundamental understanding of the pathogenicity of most biothreat agents has
been elucidated and available treatments have increased substantially over the past …

Multiplex PCR method for MinION and Illumina sequencing of Zika and other virus genomes directly from clinical samples

J Quick, ND Grubaugh, ST Pullan, IM Claro, AD Smith… - Nature protocols, 2017 - nature.com
Genome sequencing has become a powerful tool for studying emerging infectious diseases;
however, genome sequencing directly from clinical samples (ie, without isolation and …

Human cytomegalovirus haplotype reconstruction reveals high diversity due to superinfection and evidence of within-host recombination

J Cudini, S Roy, CJ Houldcroft… - Proceedings of the …, 2019 - National Acad Sciences
Recent sequencing efforts have led to estimates of human cytomegalovirus (HCMV)
genome-wide intrahost diversity that rival those of persistent RNA viruses [Renzette N …

Capturing sequence diversity in metagenomes with comprehensive and scalable probe design

HC Metsky, KJ Siddle, A Gladden-Young, J Qu… - Nature …, 2019 - nature.com
Metagenomic sequencing has the potential to transform microbial detection and
characterization, but new tools are needed to improve its sensitivity. Here we present …

Overview of direct-acting antiviral drugs and drug resistance of hepatitis C virus

DK Li, RT Chung - Hepatitis C Virus Protocols, 2019 - Springer
The advent of direct-acting antivirals (DAAs) has brought about a sudden renaissance in the
treatment of chronic hepatitis C virus (HCV) infection with SVR rates now routinely> 90 …

Hybrid capture-based next generation sequencing and its application to human infectious diseases

M Gaudin, C Desnues - Frontiers in microbiology, 2018 - frontiersin.org
Frontiers | Hybrid Capture-Based Next Generation Sequencing and Its Application to Human
Infectious Diseases Skip to main content Top bar navigation Frontiers in Microbiology About us …

Illumina and Nanopore methods for whole genome sequencing of hepatitis B virus (HBV)

AL McNaughton, HE Roberts, D Bonsall… - Scientific reports, 2019 - nature.com
Advancing interventions to tackle the huge global burden of hepatitis B virus (HBV) infection
depends on improved insights into virus epidemiology, transmission, within-host diversity …

Genome-to-genome analysis highlights the effect of the human innate and adaptive immune systems on the hepatitis C virus

MA Ansari, V Pedergnana, C LC Ip, A Magri… - Nature …, 2017 - nature.com
Outcomes of hepatitis C virus (HCV) infection and treatment depend on viral and host
genetic factors. Here we use human genome-wide genotyping arrays and new whole …

A comprehensive genomics solution for HIV surveillance and clinical monitoring in low-income settings

D Bonsall, T Golubchik, M de Cesare… - Journal of clinical …, 2020 - Am Soc Microbiol
Viral genetic sequencing can be used to monitor the spread of HIV drug resistance, identify
appropriate antiretroviral regimes, and characterize transmission dynamics. Despite …