Phylogenetic and phylodynamic approaches to understanding and combating the early SARS-CoV-2 pandemic

SW Attwood, SC Hill, DM Aanensen… - Nature Reviews …, 2022 - nature.com
Determining the transmissibility, prevalence and patterns of movement of severe acute
respiratory syndrome coronavirus 2 (SARS-CoV-2) infections is central to our understanding …

Progress and challenges in virus genomic epidemiology

V Hill, C Ruis, S Bajaj, OG Pybus, MUG Kraemer - Trends in Parasitology, 2021 - cell.com
Genomic epidemiology, which links pathogen genomes with associated metadata to
understand disease transmission, has become a key component of outbreak response …

[HTML][HTML] Real-time genomic surveillance for enhanced control of infectious diseases and antimicrobial resistance

MJ Struelens, C Ludden, G Werner, V Sintchenko… - Frontiers in …, 2024 - frontiersin.org
This article advocates for mobilizing pathogen genomic surveillance to contain and mitigate
health threats from infectious diseases and antimicrobial resistance (AMR), building upon …

Closed-loop insulin delivery versus sensor-augmented pump therapy in older adults with type 1 diabetes (ORACL): a randomized, crossover trial

SA McAuley, S Trawley, S Vogrin, GM Ward… - Diabetes …, 2022 - diabetesjournals.org
OBJECTIVE To assess the efficacy and safety of closed-loop insulin delivery compared with
sensor-augmented pump therapy among older adults with type 1 diabetes. RESEARCH …

SARS-CoV-2 mouse adaptation selects virulence mutations that cause TNF-driven age-dependent severe disease with human correlates

SM Bader, JP Cooney, D Sheerin, G Taiaroa… - Proceedings of the …, 2023 - pnas.org
The diversity of COVID-19 disease in otherwise healthy people, from seemingly
asymptomatic infection to severe life-threatening disease, is not clearly understood. We …

Platform for isolation and characterization of SARS-CoV-2 variants enables rapid characterization of Omicron in Australia

A Aggarwal, AO Stella, G Walker, A Akerman… - Nature …, 2022 - nature.com
Genetically distinct variants of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-
2) have emerged since the start of the COVID-19 pandemic. Over this period, we developed …

SARS-CoV-2 Omicron: evasion of potent humoral responses and resistance to clinical immunotherapeutics relative to viral variants of concern

A Aggarwal, AO Stella, G Walker, A Akerman… - medrxiv, 2021 - medrxiv.org
Genetically distinct viral variants of severe acute respiratory syndrome coronavirus 2 (SARS-
CoV-2) have been recorded since January 2020. Over this time global vaccine programs …

AusTrakka: fast-tracking nationalized genomics surveillance in response to the COVID-19 pandemic

T Hoang, AG da Silva, AV Jennison… - Nature …, 2022 - nature.com
The COVID-19 pandemic has driven demand for integrated genomics, resulting in fast-
tracked development of AusTrakka, Australia's pathogen genomics platform. This facilitated …

SARS-CoV-2 infection results in immune responses in the respiratory tract and peripheral blood that suggest mechanisms of disease severity

W Zhang, BY Chua, KJ Selva, L Kedzierski… - Nature …, 2022 - nature.com
Respiratory tract infection with SARS-CoV-2 results in varying immunopathology underlying
COVID-19. We examine cellular, humoral and cytokine responses covering 382 immune …

Multi-site implementation of whole genome sequencing for hospital infection control: a prospective genomic epidemiological analysis

NL Sherry, CL Gorrie, JC Kwong, C Higgs… - The Lancet Regional …, 2022 - thelancet.com
Background Current microbiological methods lack the resolution to accurately identify
multidrug-resistant organism (MDRO) transmission, however, whole genome sequencing …