Application of Omics in Virus Research

A special issue of Microorganisms (ISSN 2076-2607). This special issue belongs to the section "Virology".

Deadline for manuscript submissions: 31 May 2025 | Viewed by 1412

Special Issue Editor


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Guest Editor
College of Animal Sciences, Jilin University, Changchun 130062, China
Interests: porcine circovirus (PCV); pseudorabies virus (PRV); porcine epidemic diarrhea virus (PEDV); porcine deltacoronavirus (PDCoV); SeACoV (swine enteric alphacoronavirus)/SADS-CoV (swine acute diarrhea syndrome coronavirus); other emerging or re-emerging viruses; vaccine; antibody
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Special Issue Information

Dear Colleagues,

A virus is an important intracellular parasite that can replicate and spread by regulating the host's gene expression and using substances within the cell. Furthermore, the interactions between the host and the virus play vital roles in inhibiting virus infections or causing pathogenic changes in the host. However, these interactions are complex and form an extensive interactive network. Therefore, the analysis of a single biomolecule or protein is not very useful for studying the pathogenic and infection mechanisms of viruses.

Omics, including genomics, proteomics, metabolomics, transcriptomics, and immunomics, offer new perspectives for exploring the pathogenesis of human or animal diseases by analyzing large amounts of data that represent an entire set of some kind, especially an entire set of molecules, such as proteins, lipids, or metabolites, in a cell, organ, or organism. In recent decades, significant progress has been made in elucidating the pathogenicity and infection of viruses through omics research. In this Special Issue, we aim to present the latest data and papers on the application of omics in virus research. Articles that integrate omics analysis with experimental verification are especially well-suited for this Special Issue. We welcome both original research articles and reviews.

Prof. Dr. Linzhu Ren
Guest Editor

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Keywords

  • omics
  • genomics
  • proteomics
  • metabolomics
  • transcriptomics
  • immunomics
  • virus

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Published Papers (1 paper)

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Research

16 pages, 1720 KiB  
Article
Association of Liver Damage and Quasispecies Maturity in Chronic HCV Patients: The Fate of a Quasispecies
by Josep Gregori, Marta Ibañez-Lligoña, Sergi Colomer-Castell, Carolina Campos, Damir García-Cehic and Josep Quer
Microorganisms 2024, 12(11), 2213; https://doi.org/10.3390/microorganisms12112213 - 31 Oct 2024
Viewed by 987
Abstract
Viral diversity and disease progression in chronic infections, and particularly how quasispecies structure affects antiviral treatment, remain key unresolved issues. Previous studies show that advanced liver fibrosis in long-term viral infections is linked to higher rates of antiviral treatment failures. Additionally, treatment failure [...] Read more.
Viral diversity and disease progression in chronic infections, and particularly how quasispecies structure affects antiviral treatment, remain key unresolved issues. Previous studies show that advanced liver fibrosis in long-term viral infections is linked to higher rates of antiviral treatment failures. Additionally, treatment failure is associated with high quasispecies fitness, which indicates greater viral diversity and adaptability. As a result, resistant variants may emerge, reducing retreatment effectiveness and increasing the chances of viral relapse. Additionally, using a mutagenic agent in monotherapy can accelerate virus evolution towards a flat-like quasispecies structure. This study examines 19 chronic HCV patients who failed direct-acting antiviral (DAA) treatments, using NGS to analyze quasispecies structure in relation to fibrosis as a marker of infection duration. Results show that HCV evolves towards a flat-like quasispecies structure over time, leading also to advanced liver damage (fibrosis F3 and F4/cirrhosis). Based on our findings and previous research, we propose that the flat-like fitness quasispecies structure is the final stage of any quasispecies in chronic infections unless eradicated. The longer the infection persists, the lower the chances of achieving a cure. Interestingly, this finding may also be applicable to other chronic infection and drug resistance in cancer. Full article
(This article belongs to the Special Issue Application of Omics in Virus Research)
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