FluReF, an automated flu virus reassortment finder based on phylogenetic trees

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Glacier-fed streams are the cold, ultra-oligotrophic, and unstable streams that are fed by glacial meltwater. Despite these extreme conditions, they harbour a diverse and abundant microbial diversity that develops into biofilms, covering the boulders and s ...

Influenza is an infectious respiratory illness caused by influenza viruses. Every year, it causes up to one billion cases of disease worldwide. Despite its high disease burden, the transmission pathway of influenza remains subject to debate. There is incre ...

Disclosed herein are peptide-grafted compounds that irreversibly deactivate bacteriophages or influenza virus depending on the peptide and remain safe for bacteria and mammalian cells. The active compounds comprise a core (cyclodextrin or gold nanoparticle ...

In a context of escalating public health challenges, including the rise of chronic diseases, the impact of climate change, and the COVID-19 pandemic, certain populations bear a disproportionate burden. As a result, there is an urgent need to develop public ...

Before the COVID-19 pandemic, viruses were not a major priority for the scientific community. Today, many events have changed the world and the importance of studying viruses, vaccines, and antiviral drugs is fully appreciated. The development of effective ...

Local and global inference methods have been developed to infer structural contacts from multiple sequence alignments of homologous proteins. They rely on correlations in amino acid usage at contacting sites. Because homologous proteins share a common ance ...

Multiple respiratory viruses, including influenza A virus (IAV), can be transmitted via expiratory aerosol particles, and aerosol pH was recently identified as a major factor influencing airborne virus infectivity. Indoors, small exhaled aerosols undergo r ...

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 ...

To mitigate the spread of a viral disease, it is crucial to understand the factors that influence airborne virus transmission. However, the micro-environment to which the virus is exposed in expiratory aerosol particles is highly complex. The relative humi ...

We have reported that CD-6'SLN [6-sialyllactosamine (6'SLN)-modified beta-cyclodextrin (CD)] can be a potential anti-influenza drug because it irreversibly deactivates virions. Indeed, in vivo, CD-6'SLN improved mice survival in an H1N1 infection model eve ...

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 ...

The treatment of colorectal cancer (CRC) is an unmet medical need in absence of early diagnosis. Here, upon characterizing cancer-specific transposable element-driven transpochimeric gene transcripts (TcGTs) produced by this tumor in the SYSCOL cohort, we ...

Despite the structural and functional information contained in the statistical coupling between pairs of residues in a protein, coevolution associated with function is often obscured by artifactual signals such as genetic drift, which shapes a protein's ph ...

In this thesis, we investigate the inverse problem of trees and barcodes from a combinatorial, geometric, probabilistic and statistical point of view. Computing the persistent homology of a merge tree yields a barcode B. Reconstructing a tree from B invol ...

Vibrio cholerae is a well-studied human pathogen that is also a common inhabitant of marine habitats. In both environments, the bacterium is subject to interbacterial competition. A molecular nanomachine that is often involved in such competitive behavior ...

Horizontal gene transfer can trigger rapid shifts in bacterial evolution. Driven by a variety of mobile genetic elements—in particular bacteriophages and plasmids—the ability to share genes within and across species underpins the exceptional adaptability o ...

Respiratory viruses, including influenza virus and SARS-CoV-2, are transmitted by the airborne route. Air filtration and ventilation mechanically reduce the concentration of airborne viruses and are necessary tools for disease mitigation. However, they ign ...

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 ...

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 ...

Influenza viruses are a leading cause of morbidity and mortality worldwide. These air-borne pathogens are able to cross the species barrier, leading to regular seasonal epidemics and sporadic pandemics. Influenza viruses also possess a high genetic variabi ...

FluReF, an automated flu virus reassortment finder based on phylogenetic trees

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The microbial genomics of glacier-fed streams: adaptations to an extreme ecosystem

Inactivation of influenza A virus in expiratory droplets and aerosol particles and the associated physicochemical drivers

Virucidal compounds and use thereof

The role of spatial epidemiology to support public health policies : case studies applied to health promotion, noncommunicable and infectious diseases in the canton of Vaud, Switzerland

Peptide-based virucidal drugs

Impact of phylogeny on structural contact inference from protein sequence data

Inactivation mechanisms of influenza A virus under pH conditions encountered in aerosol particles as revealed by whole-virus HDX-MS

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

Expiratory Aerosol pH is a Driver of the Persistence of Airborne Influenza A Virus

Antiviral Mechanism of Virucidal Sialic Acid Modified Cyclodextrin

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

Transposon-activated POU5F1B promotes colorectal cancer growth and metastasis

Extracting phylogenetic dimensions of coevolution reveals hidden functional signals

From Trees to Barcodes and Back Again: A Combinatorial, Probabilistic and Geometric Study of a Topological Inverse Problem

Single nucleotide polymorphism determines constitutive versus inducible type VI secretion in Vibrio cholerae

Two defence systems eliminate plasmids from seventh pandemic Vibrio cholerae

Expiratory Aerosol pH: The Overlooked Driver of Airborne Virus Inactivation

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

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

Interferon Lambda Delays the Emergence of Influenza Virus Resistance to Oseltamivir