Publications related to Human cytomegalovirus intrahost evolution - a new avenue for understanding and controlling herpesvirus infections

Variational quantum time evolution without the quantum geometric tensor

Giuseppe Carleo, Riccardo Rossi, Julien Sebastian Gacon, Stefan Woerner, Jannes Willy E. Nys

Realand imaginary -time quantum state evolutions are crucial in physics and chemistry for exploring quantum dynamics, preparing ground states, and computing thermodynamic observables. On near -term devices, variational quantum time evolution is a promising ...

Amer Physical Soc2024

Snow-Atmosphere Humidity Exchange at the Ice Sheet Surface Alters Annual Mean Climate Signals in Ice Core Records

Sonja Wahl

Surface processes alter the water stable isotope signal of the surface snow after deposition. However, it remains an open question to which extent surface post-depositional processes should be considered when inferring past climate information from ice cor ...

Amer Geophysical Union2023

Generation of chiral asymmetry via helical magnetic fields

Ruth Durrer, Jennifer Waltraud Schober

It is well known that helical magnetic fields undergo a so-called inverse cascade by which their correlation length grows due to the conservation of magnetic helicity in classical ideal magnetohydro-dynamics (MHD). At high energies above approximately 10 M ...

American Physical Society2020

Linking a mutation to survival in wild mice

Jeffrey David Jensen, Matthieu Foll, Stefan Jean Laurent, Susanne Petra Pfeifer

Adaptive evolution in new or changing environments can be difficult to predict because the functional connections between genotype, phenotype, and fitness are complex. Here, we make these explicit connections by combining field and laboratory experiments i ...

American Association for the Advancement of Science2019

On the Analysis of Intrahost and Interhost Viral Populations: Human Cytomegalovirus as a Case Study of Pitfalls and Expectations

Jeffrey David Jensen, Sebastian Matuszewski, Susanne Petra Pfeifer

Intrahost and interhost assessments of viral diversity are often treated as measures of separate and distinct evolutionary processes, with numerous investigations reporting seemingly incompatible results between the two. For example, in human cytomegalovir ...

American Society for Microbiology2017

Viral genetic variation accounts for a third of variability in HIV-1 set-point viral load in Europe

Jacques Fellay

HIV-1 set-point viral load-the approximately stable value of viraemia in the first years of chronic infection-is a strong predictor of clinical outcome and is highly variable across infected individuals. To better understand HIV-1 pathogenesis and the evol ...

Public Library Science2017

On the relative roles of background selection and genetic hitchhiking in shaping human cytomegalovirus genetic diversity

Jeffrey David Jensen

A central focus of population genetics has been examining the contribution of selective and neutral processes in shaping patterns of intraspecies diversity. In terms of selection specifically, surveys of higher organisms have shown considerable variation i ...

Wiley-Blackwell2016

An Approximate Markov Model for the Wright-Fisher Diffusion and Its Application to Time Series Data

Jeffrey David Jensen, Anna Ferrer Admetlla

The joint and accurate inference of selection and demography from genetic data is considered a particularly challenging question in population genetics, since both process may lead to very similar patterns of genetic diversity. However, additional informat ...

Genetics Society America2016

Limits and patterns of cytomegalovirus genomic diversity in humans

Jeffrey David Jensen, Cornelia Pokalyuk

Human cytomegalovirus (HCMV) exhibits surprisingly high genomic diversity during natural infection although little is known about the limits or patterns of HCMV diversity among humans. To address this deficiency, we analyzed genomic diversity among congeni ...

National Academy of Sciences2015

Release of human cytomegalovirus from latency by a KAP1/TRIM28 phosphorylation switch

Didier Trono, Isabelle Barde, Adamantia Kapopoulou, Benjamin Rauwel, Marco Cassano, Suk Min Jang

Human cytomegalovirus (HCMV) is a highly prevalent pathogen that induces life-long infections notably through the establishment of latency in hematopoietic stem cells (HSC). Bouts of reactivation are normally controlled by the immune system, but can be fat ...

2015

Host miRNA regulation of human cytomegalovirus immediate early protein translation promotes viral latency

Jiri Vanicek

Reactivation of human cytomegalovirus (HCMV) is a significant cause of disease and death in immunocompromised patients underscoring the need to understand how latency is controlled. Here we demonstrate that HCMV has evolved to utilize cellular miRNAs in ce ...

American Society for Microbiology2014

Evolution and selection of river networks: Statics, dynamics, and complexity

Andrea Rinaldo, Amos Maritan

Moving from the exact result that drainage network configurations minimizing total energy dissipation are stationary solutions of the general equation describing landscape evolution, we review the static properties and the dynamic origins of the scale-inva ...

National Academy of Sciences2014

Rapid Intrahost Evolution of Human Cytomegalovirus Is Shaped by Demography and Positive Selection

Jeffrey David Jensen

Populations of human cytomegalovirus (HCMV), a large DNA virus, are highly polymorphic in patient samples, which may allow for rapid evolution within human hosts. To understand HCMV evolution, longitudinally sampled genomic populations from the urine and p ...

Public Library of Science2013

Entropy and order in urban street networks

Nahid Mohajeri Pour Rayeni

Many complex networks erase parts of their geometry as they develop, so that their evolution is difficult to quantify and trace. Here we introduce entropy measures for quantifying the complexity of street orientations and length variations within planar ne ...

Nature Publishing Group2013

Differences in the Concept of Fitness Between Artificial Evolution and Natural Selection

Dario Floreano, Laurent Keller, Pawel Lichocki

Evolutionary algorithms were proposed to automatically find solutions to computational problems, much like evolution discovers new adaptive traits. Lately, they have been used to address challenging questions about the evolution of modularity, the genetic ...

The MIT Press2012

Suppression of immediate-early viral gene expression by herpesvirus-coded microRNAs: Implications for latency

Jiri Vanicek

A quantitative algorithm was developed and applied to predict target genes of microRNAs encoded by herpesviruses. Although there is almost no conservation among microRNAs of different herpesvirus subfamilies, a common pattern of regulation emerged. The alg ...

National Academy of Sciences2008

Direct Observation of Microscopic Solvation at the Surface of Clusters by Ultrafast Photoelectron Imaging

Majed Chergui, Alejandro Gonzalez Gonzalez

We report on microscopic observation of solvation by argon atoms of excited states of an ethylenic-like mol., TDMAE (tetrakis dimethylaminoethylene). Two exptl. methods were used: gas phase dynamics for the observation of the evolution through excited stat ...

2008