Publications related to Viral quasispecies

Comparison of Three Viral Nucleic Acid Preamplification Pipelines for Sewage Viral Metagenomics

Viral metagenomics is a useful tool for detecting multiple human viruses in urban sewage. However, more refined protocols are required for its effective use in disease surveillance. In this study, we investigated the performance of three different preampli ...

2024

Ligand concentration determines antiviral efficacy of silica multivalent nanoparticles

Francesco Stellacci, Quy Ong Khac, Xufeng Xu, Heyun Wang, Paulo Henrique Jacob Silva, Rémi Andréa La Polla

We have learned from the recent COVID-19 pandemic that the emergence of a new virus can quickly become a global health burden and kill millions of lives. Antiviral drugs are essential in our fight against viral diseases, but most of them are virus-specific ...

Academic Press Inc Elsevier Science2023

Viral Genetic Determinants of Prolonged Respiratory Syncytial Virus Infection Among Infants in a Healthy Term Birth Cohort

Jacques Fellay, Thomas Junier, Zhi Ming Xu, Dylan Lawless

Background. Respiratory syncytial virus (RSV) is associated with acute respiratory infection. We sought to identify RSV variants associated with prolonged infection. ...

OXFORD UNIV PRESS INC2023

PSGL-1 is an evolutionarily conserved antiviral restriction factor

Ying Liu, Chao Jiang

The arms race between viruses and their hosts shaped the evolutionary history and the genome composition of both parties. Restriction factors are the first-line antiviral effectors encoded by the host genomes and are often conserved through evolution to pr ...

AMER SOC MICROBIOLOGY2023

Multivalent Virucidal Antivirals: Synthesis, Mechanisms of Action, and Immune-stimulating Effects

Yong Zhu

Viruses initiate invasion by binding to cell surface glycoproteins. Materials mimicking the carbohydrate motifs of these glycoproteins, such as heparan sulfate (HS) and sialic acid (SA) can block viral attachment and inhibit the infection. Multivalent disp ...

EPFL2023

Susceptibility of enveloped and non-enveloped viruses to ultraviolet light-emitting diode (UV-LED) irradiation and implications for virus inactivation mechanisms

Shotaro Torii

Ultraviolet (UV) light-emitting diodes (UV-LEDs), a disinfection technology, efficiently inactivate pathogens in water. However, the assessment of UV-LED treatment and the mechanisms of UV inactivation on viruses (especially enveloped viruses) are limited. ...

ROYAL SOC CHEMISTRY2023

Phylogenetic estimation of the viral fitness landscape of HIV-1 set-point viral load

Jacques Fellay, Luca Ferretti

Set-point viral load (SPVL), a common measure of human immunodeficiency virus (HIV)-1 virulence, is partially determined by viral genotype. Epidemiological evidence suggests that this viral property has been under stabilising selection, with a typical opti ...

OXFORD UNIV PRESS2022

Viral diversity is linked to bacterial community composition in alpine stream biofilms

Tom Ian Battin, Hannes Markus Peter, Paraskevi Pramateftaki, Meriem Bekliz

Biofilms play pivotal roles in fluvial ecosystems, yet virtually nothing is known about viruses in these communities. Leveraging an optimized sample-to-sequence pipeline, we studied the spatiotemporal turnover of dsDNA viruses associated with stream biofil ...

Springer2022

Effect of wastewater treatment and environmental exposure on an enterovirus population

Odile Marie Clotilde Hervás de Nalda-Larivé

The presence of viruses in recreational water can present a risk for human health and wastewater effluent is a source of virus in the environment. Their persistence in the environment influences their probability to find a new host. Studies have shown that ...

EPFL2022

Genotype-Dependent Kinetics of Enterovirus Inactivation by Free Chlorine and Ultraviolet (UV) Irradiation

Tamar Kohn, Shotaro Torii

Inactivation kinetics of enterovirus by disinfection is often studied using a single laboratory strain of a given genotype. Environmental variants of enterovirus are genetically distinct from the corresponding laboratory strain, yet it is poorly understood ...

2022

Polyanionic Amphiphilic Dendritic Polyglycerols as Broad-Spectrum Viral Inhibitors with a Virucidal Mechanism

Francesco Stellacci, Valeria Cagno, Matteo Gasbarri

Heparin has been known to be a broad-spectrum inhibitor of viral infection for almost 70 years, and it has been used as a medication for almost 90 years due to its anticoagulant effect. This nontoxic biocompatible polymer efficiently binds to many types of ...

American Chemical Society2022

Electrochemical sensors for the detection of SARS-CoV-2 virus

Somanath Jagannath, Neeraj Kumar

Coronavirus (COVID-19), a deadly pandemic has spread worldwide and created many global health issues. Though methods of its detection are being continuously developed for the early detection and monitoring of COVID-19, still there is need for more novel me ...

ELSEVIER SCIENCE SA2022

Highly Potent Host-Specific Small-Molecule Inhibitor of Paramyxovirus and Pneumovirus Replication with High Resistance Barrier

Gerardo Turcatti, Marc Chambon, Damiano Banfi, Jonathan Patrice Vesin

Multiple enveloped RNA viruses of the family Paramyxoviridae and Pneumoviridae, like measles virus (MeV), Nipah virus (NiV), canine distemper virus (CDV), or respiratory syncytial virus (RSV), are of high clinical relevance. Each year a huge number of live ...

AMER SOC MICROBIOLOGY2021

On the exploration of novel methodological approaches for immunogen design: case studies in influenza and hepatitis C

Andreas Scheck

Proteins are fundamental components in biological systems and crucial for a variety of biological functions. Over the last decades, significant progress in structural biology has facilitated the study of proteins and their interactions with molecular partn ...

EPFL2021

A high-content image-based drug screen of clinical compounds against cell transmission of adenovirus

Gerardo Turcatti, Fabien Kuttler

Human adenoviruses (HAdVs) are fatal to immuno-suppressed individuals, but no effective anti-HAdV therapy is available. Here, we present a novel image-based high-throughput screening (HTS) platform, which scores the full viral replication cycle from virus ...

2020

Biological fluid dynamics of airborne COVID-19 infection

Andrea Rinaldo

We review the state of knowledge on the bio-fluid dynamic mechanisms involved in the transmission of the infection from SARS-CoV-2. The relevance of the subject stems from the key role of airborne virus transmission by viral particles released by an infect ...

2020

Heritability of the HIV-1 reservoir size and decay under long-term suppressive ART

Jacques Fellay, Chenjie Wan

The HIV-1 reservoir is the major hurdle to curing HIV-1. However, the impact of the viral genome on the HIV-1 reservoir, i.e. its heritability, remains unknown. We investigate the heritability of the HIV-1 reservoir size and its long-term decay by analyzin ...

Nature Research2020

HIV host genomics in the era of effective antiretroviral therapy

Christian Axel Wandall Thorball

The introduction and widespread use of antiretroviral therapy against Human Immunodefi-ciency Virus (HIV) has had a remarkable effect on disease progression and the longevity of infected individuals. However, the establishment of a latent viral reservoir a ...

EPFL2020

Alternative interaction sites in the influenza A virus nucleoprotein mediate viral escape from the importin-alpha 7 mediated nuclear import pathway

Jaume Bonet Martinez, Sebastian Beck

Influenza A viruses are able to adapt to restrictive conditions due to their high mutation rates. Importin-alpha 7 is a component of the nuclear import machinery required for avian-mammalian adaptation and replicative fitness in human cells. Here, we eluci ...

WILEY2019

Benchmarking protocols for the metagenomic analysis of stream biofilm viromes

Tom Ian Battin, Hannes Markus Peter, Jade Brandani, Massimo Bourquin, Meriem Bekliz

Viruses drive microbial diversity, function and evolution and influence important biogeochemical cycles in aquatic ecosystems. Despite their relevance, we currently lack an understanding of their potential impacts on stream biofilm structure and function. ...

PeerJ2019