Next Article in Journal
A Retrospective Examination of Feline Leukemia Subgroup Characterization: Viral Interference Assays to Deep Sequencing
Previous Article in Journal
Development of a Surrogate Neutralization Assay for Norovirus Vaccine Evaluation at the Cellular Level
Previous Article in Special Issue
The Role of Infected Cell Proliferation in the Clearance of Acute HBV Infection in Humans
Article Menu
Issue 1 (January) cover image

Export Article

Open AccessArticle
Viruses 2018, 10(1), 28; doi:10.3390/v10010028

Quantitative Analysis of Hepatitis C NS5A Viral Protein Dynamics on the ER Surface

1
Goethe Center for Scientific Computing (G-CSC), Goethe Universität Frankfurt, Kettenhofweg 139, 60325 Frankfurt am Main, Germany
2
Ruhr-Universität Bochum, High Performance Computing in the Engineering Sciences, Universitätsstrasse 150, 44801 Bochum, Germany
3
Medivir AB, Department of Biology, Huddinge 141 22, Sweden
4
MRC-University of Glasgow Centre for Virus Research, 464 Bearsden Road, Glasgow G61 1QH, UK
5
Department of Medicine, Institute for Biostatistics and Mathematic Modeling, Goethe Universität Frankfurt, Theodor-Stern-Kai 7, 60590 Frankfurt am Main, Germany
6
Applied Mathematics and Computational Science, Computer, Electrical and Mathematical Science and Engineering Division, King Abdullah University of Science and Technology, KAUST, Thuwal 23955, Saudi Arabia
These authors contributed equally to this work.
*
Author to whom correspondence should be addressed.
Received: 8 November 2017 / Revised: 2 January 2018 / Accepted: 4 January 2018 / Published: 8 January 2018
(This article belongs to the Special Issue Mathematical Modeling of Viral Infections)
View Full-Text   |   Download PDF [7322 KB, uploaded 8 January 2018]   |  

Abstract

Exploring biophysical properties of virus-encoded components and their requirement for virus replication is an exciting new area of interdisciplinary virological research. To date, spatial resolution has only rarely been analyzed in computational/biophysical descriptions of virus replication dynamics. However, it is widely acknowledged that intracellular spatial dependence is a crucial component of virus life cycles. The hepatitis C virus-encoded NS5A protein is an endoplasmatic reticulum (ER)-anchored viral protein and an essential component of the virus replication machinery. Therefore, we simulate NS5A dynamics on realistic reconstructed, curved ER surfaces by means of surface partial differential equations (sPDE) upon unstructured grids. We match the in silico NS5A diffusion constant such that the NS5A sPDE simulation data reproduce experimental NS5A fluorescence recovery after photobleaching (FRAP) time series data. This parameter estimation yields the NS5A diffusion constant. Such parameters are needed for spatial models of HCV dynamics, which we are developing in parallel but remain qualitative at this stage. Thus, our present study likely provides the first quantitative biophysical description of the movement of a viral component. Our spatio-temporal resolved ansatz paves new ways for understanding intricate spatial-defined processes central to specfic aspects of virus life cycles. View Full-Text
Keywords: computational virology; hepatitis C virus (HCV); viral dynamics; within-host viral modelling; parameter estimation; 3D spatio-temporal resolved mathematical models; realistic geometries; (surface) partial differential equations; Finite Volumes; massively parallel multigrid solvers computational virology; hepatitis C virus (HCV); viral dynamics; within-host viral modelling; parameter estimation; 3D spatio-temporal resolved mathematical models; realistic geometries; (surface) partial differential equations; Finite Volumes; massively parallel multigrid solvers
Figures

This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. (CC BY 4.0).

Supplementary material

Scifeed alert for new publications

Never miss any articles matching your research from any publisher
  • Get alerts for new papers matching your research
  • Find out the new papers from selected authors
  • Updated daily for 49'000+ journals and 6000+ publishers
  • Define your Scifeed now

SciFeed Share & Cite This Article

MDPI and ACS Style

Knodel, M.M.; Nägel, A.; Reiter, S.; Vogel, A.; Targett-Adams, P.; McLauchlan, J.; Herrmann, E.; Wittum, G. Quantitative Analysis of Hepatitis C NS5A Viral Protein Dynamics on the ER Surface. Viruses 2018, 10, 28.

Show more citation formats Show less citations formats

Note that from the first issue of 2016, MDPI journals use article numbers instead of page numbers. See further details here.

Related Articles

Article Metrics

Article Access Statistics

1

Comments

[Return to top]
Viruses EISSN 1999-4915 Published by MDPI AG, Basel, Switzerland RSS E-Mail Table of Contents Alert
Back to Top