Journal Description
Viruses
Viruses
is a peer-reviewed, open access journal of virology, published monthly online by MDPI. The American Society for Virology (ASV), Spanish Society for Virology (SEV), Canadian Society for Virology (CSV), Italian Society for Virology (SIV-ISV), Australasian Virology Society (AVS) and others are affiliated with Viruses and their members receive a discount on the article processing charges.
- Open Access— free for readers, with article processing charges (APC) paid by authors or their institutions.
- High Visibility: indexed within Scopus, SCIE (Web of Science), PubMed, MEDLINE, PMC, Embase, PubAg, AGRIS, and other databases.
- Journal Rank: JCR - Q2 (Virology) / CiteScore - Q1 (Infectious Diseases)
- Rapid Publication: manuscripts are peer-reviewed and a first decision is provided to authors approximately 16.1 days after submission; acceptance to publication is undertaken in 2.6 days (median values for papers published in this journal in the first half of 2024).
- Recognition of Reviewers: reviewers who provide timely, thorough peer-review reports receive vouchers entitling them to a discount on the APC of their next publication in any MDPI journal, in appreciation of the work done.
- Companion journal: Zoonotic Diseases.
Impact Factor:
3.8 (2023);
5-Year Impact Factor:
4.0 (2023)
Latest Articles
Is San Diego California on Track to Reach HCV Elimination? A Modeling Analysis of Combination Prevention Strategies
Viruses 2024, 16(12), 1819; https://doi.org/10.3390/v16121819 - 22 Nov 2024
Abstract
In 2020, the Eliminate Hepatitis C Initiative in the county of San Diego (COSD) was launched, a private–public joint endeavor between the COSD and the American Liver Foundation. We use epidemic modeling to assess whether the COSD is on track to reach its
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In 2020, the Eliminate Hepatitis C Initiative in the county of San Diego (COSD) was launched, a private–public joint endeavor between the COSD and the American Liver Foundation. We use epidemic modeling to assess whether the COSD is on track to reach its elimination targets (80% reduction in incidence, 65% reduction in hepatitis C virus (HCV)-related mortality by 2030 compared to 2015) and what intervention scale-up may be required. We adapted a previously developed dynamic, deterministic model of HCV transmission and disease progression among adults in the COSD, stratified by risk, age, gender, and human immunodeficiency virus (HIV) status. The model is calibrated to detailed historical epidemiological data on HCV burden, treatment, and mortality in the COSD. We project HCV infections and mortality under status quo HCV treatment (65%/year among people coinfected with HCV and HIV, 0–5%/year among others) and determine what treatment scale-up among those without HIV is required to achieve HCV elimination, with or without concomitant reductions in injection transmission risk from 2024 onward. We project an increase in new HCV infections in the COSD to 2213 [95% C.I.: 1069–3763] in 2030, a mean 91% relative increase between 2015 and 2030. HCV-related deaths are expected to decrease to 246 [95% C.I.: 180–295] in 2030, a mean relative decrease of 14% compared to 2015. The incidence elimination target could be achieved through increasing HCV treatment among those without HIV to a mean of 60%/year, similar to the level achieved among people coinfected with HCV and HIV. Combination interventions reduce the treatment needed; if injecting risk is reduced by 25%, then treating 48%/year could achieve elimination. The COSD is likely not on track to reach the incidence or mortality targets, but achieving the incidence target is possible if treatment rates overall are scaled-up to rates that have been achieved among people coinfected with HCV and HIV. Elimination is achievable but requires committed funding and expansion of comprehensive testing, linkage, and treatment programs alongside harm reduction initiatives.
Full article
(This article belongs to the Special Issue Hepatitis C Virus Infection among People Who Inject Drugs)
Open AccessArticle
Genotypic Clustering of H5N1 Avian Influenza Viruses in North America Evaluated by Ordination Analysis
by
Patil Tawidian, Mia K. Torchetti, Mary L. Killian, Kristina Lantz, Krista E. Dilione, Jourdan M. Ringenberg, Sarah N. Bevins, Julianna B. Lenoch and Hon S. Ip
Viruses 2024, 16(12), 1818; https://doi.org/10.3390/v16121818 - 22 Nov 2024
Abstract
The introduction of HPAI H5N1 clade 2.3.4.4b viruses to North America in late 2021 resulted in avian influenza outbreaks in poultry, mortality events in many wild bird species, and spillovers into many mammalian species. Reassortment events with North American low-pathogenic virus were identified
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The introduction of HPAI H5N1 clade 2.3.4.4b viruses to North America in late 2021 resulted in avian influenza outbreaks in poultry, mortality events in many wild bird species, and spillovers into many mammalian species. Reassortment events with North American low-pathogenic virus were identified as early as February 2022 and over 100 genotypes have been characterized. Such diversity increases the complexity and time required for monitoring virus evolution. Here, we performed ordination and clustering analyses on sequence data from H5N1 viruses identified in North America between January 2020 and December 2023 to visualize the genotypic diversity of viruses in poultry and wildlife populations. Our results reveal that ordination- and cluster-based approaches can complement traditional phylogenetic analyses specifically for the preliminary assignment of H5N1 viruses to genotypic groups or to identify novel genotypes. Our study expands current knowledge on the genotypic diversity of H5N1 viruses in North America and describes a rapid approach for early virus genotype assignment.
Full article
(This article belongs to the Special Issue Molecular Epidemiology, Evolution, and Transmission of Avian Influenza Viruses)
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Open AccessCorrection
Correction: Konstantopoulos et al. HPV16 E6 Oncogene Contributes to Cancer Immune Evasion by Regulating PD-L1 Expression through a miR-143/HIF-1a Pathway. Viruses 2024, 16, 113
by
Georgios Konstantopoulos, Danai Leventakou, Despoina-Rozi Saltiel, Efthalia Zervoudi, Eirini Logotheti, Spyros Pettas, Korina Karagianni, Angeliki Daiou, Konstantinos E. Hatzistergos, Dimitra Dafou, Minas Arsenakis, Amanda Psyrri and Christine Kottaridi
Viruses 2024, 16(12), 1817; https://doi.org/10.3390/v16121817 - 22 Nov 2024
Abstract
Amanda Psyrri was not included as an author in the original publication [...]
Full article
(This article belongs to the Special Issue Papillomavirus-Induced Oncogenesis: Current Insights and Future Directions)
Open AccessArticle
Isolation and Characterization of a Lytic Phage PaTJ Against Pseudomonas aeruginosa
by
Jiayu Gu, Xinqiao Zhang, Tianlang Liu and Yunxue Guo
Viruses 2024, 16(12), 1816; https://doi.org/10.3390/v16121816 - 21 Nov 2024
Abstract
Pseudomonas aeruginosa is a major global threat to human health, and phage therapy has emerged as a promising strategy for treating infections caused by multidrug-resistant pathogens. In this study, we isolated and characterized a Pseudomonas lytic phage, PaTJ, from wastewater. PaTJ belongs to
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Pseudomonas aeruginosa is a major global threat to human health, and phage therapy has emerged as a promising strategy for treating infections caused by multidrug-resistant pathogens. In this study, we isolated and characterized a Pseudomonas lytic phage, PaTJ, from wastewater. PaTJ belongs to the phage family Mesyanzhinovviridae, and is featured by short latency (30 min) and large burst size (103 PFU per infected cell). Our investigation revealed that PaTJ utilizes the type IV Pili (T4P) as a receptor. Transcriptome analysis of PaTJ infected host at latent stage showed distinct expression patterns of PaTJ encoding genes involved in replication and structure assembly, without expression of the majority of toxic accessory genes responsible for phage release. In addition, host bacteria exhibited specific induction of host metabolism-related genes in response to the PaTJ’s infection. Furthermore, our findings demonstrated the PaTJ’s potential in degrading biofilms. This work sheds light on the multifaceted impact of this lytic phage PaTJ on P. aeruginosa, presenting potential applications in both gene expression modulation and biofilm management.
Full article
(This article belongs to the Section Bacterial Viruses)
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Open AccessReview
Challenges in Global Distribution and Equitable Access to Monkeypox Vaccines
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Nengak P. Danladi, Progress Agboola, Peter Olaniyi, Solomon Eze, Oluwatimilehin Oladapo, Danielle Obiwulu, Olatokun Shamsudeen Akano, Olowoyeye Aishat Adeola, Khaliq Olawale, Azeez Idowu Adiatu and Agboola Peace
Viruses 2024, 16(12), 1815; https://doi.org/10.3390/v16121815 - 21 Nov 2024
Abstract
The monkeypox outbreak has grown beyond the regions in which it was considered endemic. It has spread from central and west Africa to non-endemic regions like Europe, America, and other parts of the world. It has recently been classified as a public health
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The monkeypox outbreak has grown beyond the regions in which it was considered endemic. It has spread from central and west Africa to non-endemic regions like Europe, America, and other parts of the world. It has recently been classified as a public health emergency of international concern. This study evaluated the challenges faced globally and equitable access to monkeypox vaccines. Global competition has been observed in the race to obtain vaccines, with low- and middle-income countries being disadvantaged. Great inequity exists in the distribution of vaccines globally through advance purchase agreements, vaccine stockpiling, vaccine nationalism, the inequitable distribution of existing resources, and insufficient surveillance and reporting mechanisms. To address some of these challenges, there is a need for strengthening the global vaccine manufacturing capacity, targeting countries with elevated risk profiles and limited resources, strengthening surveillance systems, and addressing vaccine hesitancy.
Full article
(This article belongs to the Special Issue Mpox (Monkeypox): From Neglected Tropical Disease to Emerging Global Pathogen)
Open AccessArticle
Surveillance of Norovirus in Nationwide Groundwater Sources in South Korea: A Comprehensive Five-Year Study
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Jung Eun Lee, Jihye Kim, Jihyun Kang, Kyung Seon Bae, Eung-Roh Park and Jeong-Ki Yoon
Viruses 2024, 16(12), 1814; https://doi.org/10.3390/v16121814 - 21 Nov 2024
Abstract
Groundwater is an essential drinking water source for humans. However, improper groundwater management leads to fecal contamination and waterborne diseases caused by viral pathogens. Therefore, this study aimed to investigate norovirus (NoV) contamination by conducting nationwide monitoring over five years (2019–2023). Groundwater samples
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Groundwater is an essential drinking water source for humans. However, improper groundwater management leads to fecal contamination and waterborne diseases caused by viral pathogens. Therefore, this study aimed to investigate norovirus (NoV) contamination by conducting nationwide monitoring over five years (2019–2023). Groundwater samples were analyzed for water quality parameters, indicator microorganisms, NoV prevalence, and viral genotypes. Water quality was assessed for temperature, turbidity, and residual chlorine, whereas microorganisms were analyzed for total coliforms, Escherichia coli, and NoV genotypes. Of the 600 sites, 11 (1.8%) were NoV-positive, irrespective of season or location. Low residual chlorine levels (0.02–0.75 mg/L) were observed, possibly limiting viral inactivation. Total coliforms were detected in only three NoV-positive samples, and E. coli was absent. NoV genotypes were identified as GI.1 and GII.4, with GII.4 being the most frequently detected genotype. The present study demonstrated that periodic monitoring and expanded nationwide efforts are required for effective groundwater management and public health protection.
Full article
(This article belongs to the Section Human Virology and Viral Diseases)
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Open AccessArticle
A Mutation in the Herpes Simplex Virus Type 1 (HSV-1) UL29 Gene is Associated with Anti-Herpesvirus Drugs’ Susceptibility
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Souichi Yamada, Shizuko Harada, Hikaru Fujii, Hitomi Kinoshita, Phu Hoang Anh Nguyen, Miho Shibamura, Tomoki Yoshikawa, Madoka Kawahara, Hideki Ebihara, Masayuki Saijo and Shuetsu Fukushi
Viruses 2024, 16(12), 1813; https://doi.org/10.3390/v16121813 - 21 Nov 2024
Abstract
Herpes simplex virus type 1 (HSV-1) acyclovir (ACV) resistance is acquired by mutations in the viral thymidine kinase (TK) or DNA polymerase (DNApol) genes. We previously obtained an ACV-resistant clone (HSV-1_VZV_TK_clone α) by sequential passages of HSV-1_VZV-TK, a recombinant virus which lacked its
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Herpes simplex virus type 1 (HSV-1) acyclovir (ACV) resistance is acquired by mutations in the viral thymidine kinase (TK) or DNA polymerase (DNApol) genes. We previously obtained an ACV-resistant clone (HSV-1_VZV_TK_clone α) by sequential passages of HSV-1_VZV-TK, a recombinant virus which lacked its endogenous TK activity and instead expressed the varicella-zoster virus (VZV) TK ectopically. HSV-1_VZV_TK_clone α had been generated using an HSV-1_BAC in the presence of increasing concentrations of ACV. The ACV-resistant clone bore normal TK and DNApol genes. Here, we deployed next-generation full-genome sequencing of HSV-1_VZV_TK_clone α and identified a single nucleotide substitution, resulting in a P597L missense mutation in the UL29 gene product, the ICP8 protein. Recombinant HSV-1 encoding a P597L ICP8 protein was generated, and its properties and ability to confer drug resistance were analyzed. No difference in virus growth and UL29 expression was observed between the mutant recombinant, the wild type, and a revertant mutant viral strain, and susceptibility tests of these strains to ACV and other drugs using Vero, HEL, and ARPE19 cells identified that the recombinant UL29 mutant virus was resistant only to ACV. These results indicate that ICP8 may be involved in the anti-herpesvirus drugs’ mechanism of action on HSV-1.
Full article
(This article belongs to the Special Issue Mechanisms of Herpesvirus Resistance)
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Open AccessArticle
Effect of High Temperature Exposure and Laboratory Processing Techniques on the Diagnostic Performance of Dry Swabs for the Detection of African Swine Fever Virus
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Leonard Izzard, David T. Williams and Peter A. Durr
Viruses 2024, 16(12), 1812; https://doi.org/10.3390/v16121812 - 21 Nov 2024
Abstract
One of the key surveillance strategies for the early detection of an African swine fever (ASF) incursion into a country is the sampling of wild or feral pig populations. In Australia, the remote northern regions are considered a risk pathway for ASF incursion
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One of the key surveillance strategies for the early detection of an African swine fever (ASF) incursion into a country is the sampling of wild or feral pig populations. In Australia, the remote northern regions are considered a risk pathway for ASF incursion due to the combination of high numbers of feral pigs and their close proximity to countries where ASF is present. These regions primarily consist of isolated arid rangelands with high average environmental temperatures. A specific objective of this study was to assess whether the exposure of swabs to the high temperatures that may be encountered in outback Australia, over an extended period, would reduce the diagnostic sensitivity (DSe) of real-time PCR (qPCR) to detect ASF virus (ASFV). We found that the extended heat exposure (up to 45 °C) of FLOQSwabs or GenoTube swabs, either prior to blood sampling or post sampling, showed no reduction in the DSe of the ASFV qPCR compared to swabs stored at room temperature (~21 °C). We also assessed an improved DNA extraction method for samples collected using GenoTube swabs to obtain DSe results comparable to FLOQSwabs. Taken together, these experiments demonstrate that dry swabs can provide the basis for an effective low-cost surveillance system for ASF in situations where extended exposure to high environmental temperatures is unavoidable.
Full article
(This article belongs to the Special Issue Early Diagnosis and Surveillance of Transboundary and Emerging Viral Diseases of Animals)
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Open AccessReview
Neuropsychiatric Burden of SARS-CoV-2: A Review of Its Physiopathology, Underlying Mechanisms, and Management Strategies
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Aliteia-Maria Pacnejer, Anca Butuca, Carmen Maximiliana Dobrea, Anca Maria Arseniu, Adina Frum, Felicia Gabriela Gligor, Rares Arseniu, Razvan Constantin Vonica, Andreea Loredana Vonica-Tincu, Cristian Oancea, Cristina Mogosan, Ioana Rada Popa Ilie, Claudiu Morgovan and Cristina Adriana Dehelean
Viruses 2024, 16(12), 1811; https://doi.org/10.3390/v16121811 - 21 Nov 2024
Abstract
The COVID-19 outbreak, caused by the SARS-CoV-2 virus, was linked to significant neurological and psychiatric manifestations. This review examines the physiopathological mechanisms underlying these neuropsychiatric outcomes and discusses current management strategies. Primarily a respiratory disease, COVID-19 frequently leads to neurological issues, including cephalalgia
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The COVID-19 outbreak, caused by the SARS-CoV-2 virus, was linked to significant neurological and psychiatric manifestations. This review examines the physiopathological mechanisms underlying these neuropsychiatric outcomes and discusses current management strategies. Primarily a respiratory disease, COVID-19 frequently leads to neurological issues, including cephalalgia and migraines, loss of sensory perception, cerebrovascular accidents, and neurological impairment such as encephalopathy. Lasting neuropsychological effects have also been recorded in individuals following SARS-CoV-2 infection. These include anxiety, depression, and cognitive dysfunction, suggesting a lasting impact on mental health. The neuroinvasive potential of the virus, inflammatory responses, and the role of angiotensin-converting enzyme 2 (ACE2) in neuroinflammation are critical factors in neuropsychiatric COVID-19 manifestations. In addition, the review highlights the importance of monitoring biomarkers to assess Central Nervous System (CNS) involvement. Management strategies for these neuropsychiatric conditions include supportive therapy, antiepileptic drugs, antithrombotic therapy, and psychotropic drugs, emphasizing the need for a multidisciplinary approach. Understanding the long-term neuropsychiatric implications of COVID-19 is essential for developing effective treatment protocols and improving patient outcomes.
Full article
(This article belongs to the Special Issue Emerging Concepts in SARS-CoV-2 Biology and Pathology 2.0)
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Open AccessArticle
Challenges of BTV-Group Specific Serology Testing: No One Test Fits All
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Antonio Di Rubbo, Kalpana Agnihotri, Timothy R. Bowden, Michelle Giles, Kimberly Newberry, Grantley R. Peck, Brian J. Shiell, Marzieh Zamanipereshkaft and John R. White
Viruses 2024, 16(12), 1810; https://doi.org/10.3390/v16121810 - 21 Nov 2024
Abstract
A newly formatted enzyme-linked immunosorbent assay (ELISA) for the detection of antibodies to bluetongue virus (BTV) was developed and validated for bovine and ovine sera and plasma. Validation of the new sandwich ELISA (sELISA) was achieved with 949 negative bovine and ovine sera
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A newly formatted enzyme-linked immunosorbent assay (ELISA) for the detection of antibodies to bluetongue virus (BTV) was developed and validated for bovine and ovine sera and plasma. Validation of the new sandwich ELISA (sELISA) was achieved with 949 negative bovine and ovine sera from BTV endemic and non-endemic areas of Australia and 752 BTV positive (field and experimental) sera verified by VNT and/or PCR. The test diagnostic sensitivity (DSe) and diagnostic specificity (DSp) were 99.70% and 99.20%, respectively, for bovine sera, and 97.80% and 99.50%, respectively, for ovine sera. Comparable diagnostic performances were noted for the sELISA compared to four competition ELISAs. While the sensitivity of the sELISA remained unaffected by BTV-15 positive sera, the cELISAs were not as sensitive. BTV-15 is endemic to Australia, and early warning depends on sensitive diagnoses of all serotypes: endemic or incurring. The sELISA failed to discriminate against epizootic hemorrhagic disease virus (EHDV) antibodies, the most serologically related orbivirus to BTV. The ACDP cELISA and the IDEXX kit showed cross-reactivity with some EHDV serotypes, with the least cross-reactive being the VMRD and the IDVet kits. Cross-reactivities, however, were also detected in sera raised experimentally from 10 isolates of the 21 known non-BTV orbiviruses. In this case, the sELISA was the least affected, followed equally by the VMRD and IDVet kits, and the IDEXX kit and the ACDP cELISA were the least discriminatory. In addition to exclusivity assessment of the ELISAs, an inclusivity assessment was made for all ELISAs using well characterized reference sera positive for antibodies to all serotypes BTV-1 to BTV-24.
Full article
(This article belongs to the Special Issue Bluetongue, Epizootic Haemorrhagic Disease, and Other Emerging Orbiviruses)
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Open AccessReview
Modulation of Monocyte Effector Functions and Gene Expression by Human Cytomegalovirus Infection
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Matthew S. Planchon, Jay A. Fishman and Joseph El Khoury
Viruses 2024, 16(12), 1809; https://doi.org/10.3390/v16121809 - 21 Nov 2024
Abstract
Monocytes are crucial players in innate immunity. The human cytomegalovirus (CMV) infection has significant impacts on monocyte effector functions and gene expression. CMV, a β-herpesvirus, disrupts key monocyte roles, including phagocytosis, antigen presentation, cytokine production, and migration, impairing their ability to combat pathogens
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Monocytes are crucial players in innate immunity. The human cytomegalovirus (CMV) infection has significant impacts on monocyte effector functions and gene expression. CMV, a β-herpesvirus, disrupts key monocyte roles, including phagocytosis, antigen presentation, cytokine production, and migration, impairing their ability to combat pathogens and activate adaptive immune responses. CMV modulates monocyte gene expression, decreasing their capacity for antigen presentation and phagocytosis while increasing pro-inflammatory cytokine production, which can contribute to tissue damage and chronic inflammation. CMV also alters monocyte migration to sites of infection while promoting trans-endothelial migration, thus aiding viral dissemination. Additionally, the virus affects reactive oxygen species (ROS) production, thereby contributing to end-organ disease associated with CMV infection. Overall, these changes enhance viral persistence during acute infection and facilitate immune evasion during latency. We highlight the clinical significance of these disruptions, particularly in immunocompromised patients such as transplant recipients, where the modulation of monocyte function by CMV exacerbates risks for infection, inflammation, and graft rejection. An understanding of these mechanisms will inform therapeutic strategies to mitigate CMV-related complications in vulnerable populations.
Full article
(This article belongs to the Special Issue Immune Modulation by Human Cytomegalovirus)
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Open AccessSystematic Review
HIV-1 Antiretroviral Drug Resistance in Mozambique: A Systematic Review and Meta-Analysis
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Paloma Gonçalves, Paulo Mascarenhas, Rute Marcelino, Nédio Mabunda, Arne Kroidl, W. Chris Buck, Ilesh Jani, Claudia Palladino and Nuno Taveira
Viruses 2024, 16(12), 1808; https://doi.org/10.3390/v16121808 - 21 Nov 2024
Abstract
This systematic review assessed the prevalence of transmitted and acquired HIV drug resistance (HIVDR) and the associated risk factors in Mozambique. A search of the PubMed, Cochrane, B-On, and Scopus databases up to December 2023 was conducted and included 11 studies with 1118
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This systematic review assessed the prevalence of transmitted and acquired HIV drug resistance (HIVDR) and the associated risk factors in Mozambique. A search of the PubMed, Cochrane, B-On, and Scopus databases up to December 2023 was conducted and included 11 studies with 1118 HIV-1 pol sequences. Drug resistance mutations (DRMs) to NNRTIs were found in 13% of the drug-naive individuals and 31% of those on ART, while NRTI resistance occurred in 5% and 10%, respectively. Dual-class resistance (NNRTI + NRTI) was detected in 2% of the drug-naive and 8% of ART-experienced individuals. DRMs to protease inhibitors (PIs) were found in 2% of the drug-naive and 5% of ART-experienced individuals. The rate of DRMs was significantly higher in Beira than in Maputo, as well as in pediatric patients than in adults and pregnant women. Subtype C predominated (94%) and was associated with lower viral loads and DRM rates as compared to the other subtypes. The high prevalence of DRMs, particularly to NNRTIs and NRTIs, highlights the need for ongoing surveillance and targeted interventions. These findings are critical for optimizing ART regimens and informing public health strategies in Mozambique, with particular attention to regions such as Beira and vulnerable populations such as pediatric patients.
Full article
(This article belongs to the Section Viral Immunology, Vaccines, and Antivirals)
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Open AccessReview
The Known and Unknown of Global Tick-Borne Viruses
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Abulimiti Moming, Yuan Bai, Jun Wang, Yanfang Zhang, Shuang Tang, Zhaojun Fan, Fei Deng and Shu Shen
Viruses 2024, 16(12), 1807; https://doi.org/10.3390/v16121807 - 21 Nov 2024
Abstract
Ticks are crucial vectors for various pathogens associated with human and animal diseases, including viruses. Nevertheless, significant knowledge gaps prevail in our understanding of tick-borne viruses (TBVs). We here examined existing studies on TBVs, uncovering 870 documented virus species across 28 orders, 55
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Ticks are crucial vectors for various pathogens associated with human and animal diseases, including viruses. Nevertheless, significant knowledge gaps prevail in our understanding of tick-borne viruses (TBVs). We here examined existing studies on TBVs, uncovering 870 documented virus species across 28 orders, 55 families, and 66 genera. The discovery history, vector ticks, and hosts of TBVs, as well as the clinical characteristics of TBV-induced diseases, are summarized. In total, 176 tick species from nine tick genera were confirmed as vectors for TBVs. Overall, 105 TBVs were associated with infection or exposure to humans and animals. Of them, at least 40 were identified to cause human or animal diseases. This review addresses the current challenges associated with TBV research, including the lack of knowledge about the identification of novel and emerging TBVs, the spillover potentials from ticks to hosts, and the pathogenicity and infection mechanisms of TBVs. It is expected to provide crucial insights and references for future studies in this field, while specifically focusing on expanding surveys, improving TBV identification and isolation, and enhancing the understanding of TBV–vector–host interactions. All of these findings will facilitate the preparation for preventing and treating diseases caused by emerging and novel TBVs.
Full article
(This article belongs to the Section General Virology)
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Open AccessArticle
A Small-Particle Aerosol Model of Ebolavirus Zaire Infection in Ferrets
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Courtney A. Cohen, Elizabeth E. Zumbrun, James V. Writer, Luke G. Bonagofski, Charles J. Shoemaker, Xiankun Zeng, Candace D. Blancett, Christina E. Douglas, Korey L. Delp, Cheryl L. Taylor-Howell, Brian D. Carey, Suma Ravulapalli, Jo Lynne Raymond, John M. Dye and Andrew S. Herbert
Viruses 2024, 16(12), 1806; https://doi.org/10.3390/v16121806 - 21 Nov 2024
Abstract
The Ebola virus (EBOV) causes severe disease in humans, and animal models are needed to evaluate the efficacy of vaccines and therapeutics. While non-human primate (NHP) and rodent EBOV infection models have been well characterized, there is a growing need for an intermediate
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The Ebola virus (EBOV) causes severe disease in humans, and animal models are needed to evaluate the efficacy of vaccines and therapeutics. While non-human primate (NHP) and rodent EBOV infection models have been well characterized, there is a growing need for an intermediate model. Here, we provide the first report of a small-particle aerosol (AE) EBOV ferret model and disease progression compared with the intramuscular (IM) EBOV ferret model. EBOV infection of ferrets by either route resulted in uniform lethality in 5–6.5 days post infection (dpi) in a dose-dependent manner, with IM-infected ferrets succumbing significantly earlier than AE-infected ferrets. EBOV disease progression differed between AE and IM routes, with significant viremia and presence of virus in target organs occurring earlier in the AE model. In contrast, significant fever, clinical signs of disease, liver pathology, and systemic inflammation occurred earlier in the IM EBOV model. Hepatocellular damage and splenic pathology were noted in both models, while pronounced lung pathology and renal impairment were exclusive to the AE and IM models, respectively. These results demonstrate that small-particle AE and IM ferret EBOV models share numerous common features with NHP and human EBOV infection by these routes and will therefore be useful for the development of vaccine and therapeutic countermeasures.
Full article
(This article belongs to the Section Human Virology and Viral Diseases)
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Open AccessArticle
COVID-19 Vaccinations, Infections, and Outcomes Among 784 People Living with HIV
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Keren Mahlab-Guri, Irina Komarova, Laliv Kadar, Shay Nemet, Ramon Cohen, Sara Radian-Sade, Achiel Tova, Alex Guri, Shira Rosenberg-Bezalel and Daniel Elbirt
Viruses 2024, 16(12), 1805; https://doi.org/10.3390/v16121805 - 21 Nov 2024
Abstract
Introduction: Variants of COVID-19 are responsible for 700 million infections and 7 million deaths worldwide. Vaccinations have high efficiency in preventing infection and secondary benefits of reducing COVID-19 hospital admissions, attenuating disease severity and duration of illness. Conflicting reports were published regarding COVID-19
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Introduction: Variants of COVID-19 are responsible for 700 million infections and 7 million deaths worldwide. Vaccinations have high efficiency in preventing infection and secondary benefits of reducing COVID-19 hospital admissions, attenuating disease severity and duration of illness. Conflicting reports were published regarding COVID-19 among PLWH. Objective: The aim of this study was to evaluate COVID-19 morbidity, hospitalization, and the magnitude of immunological response to sequential BNT 162b2 mRNA vaccines in PLWH regarding demographic and clinical factors. Results: Our retrospective study included 784 PLWH who had at least one anti- SARS-CoV-2 antibody test between March 2021 and October 2021. Half of our patients (392) had CD4 cell counts above 500 cells/µL, 40.2% (315) had 200 < CD4 < 500 cells/µL and only 9.8% (77) had CD4 < 200 cells/µL at their last laboratory workup. The mean age was 50.2 ± 12.2 years. About 90% of our patients were given at least two doses of the BNT 162b2 Pfizer vaccines; about 60% received three doses of the vaccine. About a quarter of our patients (27.6%) had COVID-19 infection. Only six patients required hospital admission. All six patients recovered from COVID-19 infection. Titers of COVID-19 antibodies were lower for patients with CD4 cell counts of less than 200 cells/µL in the first, second, and third serological tests with statistical significance. In a multinomial logistic regression, the influence of other factors such as age, sex, and previous COVID-19 infection on first COVID-19 antibody titers was not significant. Conclusions: PLWH are responsive to COVID-19 vaccines. As was expected, patients with higher CD4 cell counts had higher titers of COVID-19 antibodies and lower hospitalization rate. Age, sex, and previous COVID-19 infection did not significantly affect antibody titers according to our study. Larger prospective studies with control groups are needed to further characterize immunologic response to COVID-19 vaccination among PLWH.
Full article
(This article belongs to the Special Issue The Influence of COVID-19 Pandemic on the Epidemiology of Other Human Viral Infections)
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Open AccessCommunication
Horse Innate Immunity in the Control of Equine Infectious Anemia Virus Infection: A Preliminary Study
by
Giusy Cardeti, Giuseppe Manna, Antonella Cersini, Roberto Nardini, Sergio Rosati, Ramses Reina, Marina Cittadini, Stefania Sittinieri, Alessia Altigeri, Gaetana Anita Marcario and Maria Teresa Scicluna
Viruses 2024, 16(12), 1804; https://doi.org/10.3390/v16121804 - 21 Nov 2024
Abstract
The mechanisms of the innate immunity control of equine infectious anemia virus in horses are not yet widely described. Equine monocytes isolated from the peripheral blood of three Equine infectious anemia (EIA) seronegative horses were differentiated in vitro into macrophages that gave rise
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The mechanisms of the innate immunity control of equine infectious anemia virus in horses are not yet widely described. Equine monocytes isolated from the peripheral blood of three Equine infectious anemia (EIA) seronegative horses were differentiated in vitro into macrophages that gave rise to mixed cell populations morphologically referable to M1 and M2 phenotypes. The addition of two equine recombinant cytokines and two EIA virus reference strains, Miami and Wyoming, induced a more specific cell differentiation, and as for other species, IFNγ and IL4 stimulation polarized horse macrophages respectively towards the M1 and the M2 phenotypes. Infection with EIAV reference strains resulted in a morphological transformation of macrophages compatible with the M1 differentiation pattern. All samples were also analyzed by molecular analyses for equine herpesviruses that could have acted as an interference and were found to be negative. The mRNA expression level of the pro-inflammatory genes MMP13 and IL6 in treated equine monocyte-derived macrophages (eMDMs) was evaluated by a SYBR® Green real-time PCR. In this study, MMP13 represented a reliable target gene to evaluate pro-inflammatory status of macrophages in horses because IFNγ and EIAV infection considerably increased its expression. A more in-depth study of the expression genes of both cytokine-induced and virus-induced markers of eMDM polarization may help us to understand whether these markers in horses are the same as those found in other animal species with similar pathways of innate immunity activation. The identified markers of each macrophage population would allow analysis of the differentiation profiles that could provide information on virus infectivity control in equid populations, envisioning their use in therapeutic strategies.
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(This article belongs to the Special Issue Viral Cycle and Cell Host Interactions of Equine Viruses)
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Open AccessArticle
Phylogenomic Signatures of a Lineage of Vesicular Stomatitis Indiana Virus Circulating During the 2019–2020 Epidemic in the United States
by
Selene Zarate, Miranda Bertram, Case Rodgers, Kirsten Reed, Angela Pelzel-McCluskey, Ninnet Gomez-Romero, Luis L. Rodriguez, Christie Mayo, Chad Mire, Sergei L. Kosakovsky Pond and Lauro Velazquez-Salinas
Viruses 2024, 16(11), 1803; https://doi.org/10.3390/v16111803 - 20 Nov 2024
Abstract
For the first time, we describe phylogenomic signatures of an epidemic lineage of vesicular stomatitis Indiana virus (VSIV). We applied multiple evolutionary analyses to a dataset of 87 full-length genome sequences representing the circulation of an epidemic VSIV lineage in the US between
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For the first time, we describe phylogenomic signatures of an epidemic lineage of vesicular stomatitis Indiana virus (VSIV). We applied multiple evolutionary analyses to a dataset of 87 full-length genome sequences representing the circulation of an epidemic VSIV lineage in the US between 2019 and 2020. Based on phylogenetic analyses, we predicted the ancestral relationship of this lineage with a specific group of isolates circulating in the endemic zone of Chiapas, Mexico. Subsequently, our findings indicate that the lineage diversified into at least four different subpopulations during its circulation in the US. We identified single nucleotide polymorphisms (SNPs) that differentiate viral subpopulations and assessed their potential relevance using comparative phylogenetic methods, highlighting the preponderance of synonymous mutations during the differentiation of these populations. Purifying selection was the main evolutionary force favoring the conservation of this epidemic phenotype, with P and G genes as the main drivers of the evolution of this lineage. Our analyses identified multiple codon sites under positive selection and the association of these sites with specific functional domains at P, M, G, and L proteins. Based on ancestral reconstruction analyses, we showed the potential relevance of some of the sites identified under positive selection to the adaptation of the epidemic lineage at the population level. Finally, using a representative group of viruses from Colorado, we established a positive correlation between genetic and geographical distances, suggesting that positive selection on specific codon positions might have favored the adaptation of different subpopulations to circulation in specific geographical settings. Collectively, our study reveals the complex dynamics that accompany the evolution of an epidemic lineage of VSIV in nature. Our analytical framework provides a model for conducting future evolutionary analyses. The ultimate goal is to support the implementation of an early warning system for vesicular stomatitis virus in the US, enabling early detection of epidemic precursors from Mexico.
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(This article belongs to the Section Animal Viruses)
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Open AccessArticle
Chimeric Virus-like Particles of Physalis Mottle Virus as Carriers of M2e Peptides of Influenza a Virus
by
Elena A. Blokhina, Eugenia S. Mardanova, Anna A. Zykova, Marina A. Shuklina, Liudmila A. Stepanova, Liudmila M. Tsybalova and Nikolai V. Ravin
Viruses 2024, 16(11), 1802; https://doi.org/10.3390/v16111802 - 20 Nov 2024
Abstract
Plant viruses and virus-like particles (VLPs) are safe for mammals and can be used as a carrier/platform for the presentation of foreign antigens in vaccine development. The aim of this study was to use the coat protein (CP) of Physalis mottle virus (PhMV)
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Plant viruses and virus-like particles (VLPs) are safe for mammals and can be used as a carrier/platform for the presentation of foreign antigens in vaccine development. The aim of this study was to use the coat protein (CP) of Physalis mottle virus (PhMV) as a carrier to display the extracellular domain of the transmembrane protein M2 of influenza A virus (M2e). M2e is a highly conserved antigen, but to induce an effective immune response it must be linked to an adjuvant or carrier VLP. Four tandem copies of M2e were either fused to the N-terminus of the full-length PhMV CP or replaced the 43 N-terminal amino acids of the PhMV CP. Only the first fusion protein was successfully expressed in Escherichia coli, where it self-assembled into spherical VLPs of about 30 nm in size. The particles were efficiently recognized by anti-M2e antibodies, indicating that the M2e peptides were exposed on the surface. Subcutaneous immunization of mice with VLPs carrying four copies of M2e induced high levels of M2e-specific IgG antibodies in serum and protected animals from a lethal influenza A virus challenge. Therefore, PhMV particles carrying M2e peptides may become useful research tools for the development of recombinant influenza vaccines.
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(This article belongs to the Special Issue Nanovaccines against Viral Infection)
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Investigation of Polymorphisms Induced by the Solo Long Terminal Repeats (Solo-LTRs) in Porcine Endogenous Retroviruses (ERVs)
by
Cai Chen, Zhanyu Du, Yao Zheng, Hong Chen, Ahmed A. Saleh, Naisu Yang, Mengli Wang, Phiri Azele, Xiaoyan Wang and Chengyi Song
Viruses 2024, 16(11), 1801; https://doi.org/10.3390/v16111801 - 20 Nov 2024
Abstract
Homologous recombination events take place between the 5′ and 3′ long terminal repeats (LTRs) of ERVs, resulting in the generation of solo-LTR, which can cause solo-LTR-associated polymorphism across different genomes. In the current study, specific criteria were established for the filtration of solo-LTRs,
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Homologous recombination events take place between the 5′ and 3′ long terminal repeats (LTRs) of ERVs, resulting in the generation of solo-LTR, which can cause solo-LTR-associated polymorphism across different genomes. In the current study, specific criteria were established for the filtration of solo-LTRs, resulting in an average of 5630 solo-LTRs being identified in 21 genomes. Subsequently, a protocol was developed for detecting solo-LTR polymorphisms in the pig genomes, resulting in the discovery of 927 predicted solo-LTR polymorphic sites. Following verification and filtration processes, 603 highly reliable solo-LTR polymorphic sites were retained, involving 446 solo-LTR presence sites (solo-LTR+) and 157 solo-LTR absence sites (solo-LTR−) relative to the reference genome. Intersection analysis with gene/functional regions revealed that 248 solo-LTR− sites and 23 solo-LTR+ sites overlapped with genes or were in the vicinity of genes or functional regions, impacting a diverse range of gene structures. Moreover, through the utilization of 156 solo-LTR polymorphic sites for population genetic analysis, it was observed that these solo-LTR loci effectively clustered various breeds together, aligning with expectations and underscoring their practical utility. This study successfully established a methodology for detecting solo-LTR polymorphic sites. By applying these methods, a total of 603 high-reliability solo-LTR polymorphic sites were pinpointed, with nearly half of them being linked to genes or functional regions.
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(This article belongs to the Section Animal Viruses)
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Assessment of Bacteriophage Pharmacokinetic Parameters After Intra-Articular Delivery in a Rat Prosthetic Joint Infection Model
by
Jason Young, Mohammad Javad Shariyate, Prateek Misra, Shubham Laiwala, Ara Nazarian and Edward Kenneth Rodriguez
Viruses 2024, 16(11), 1800; https://doi.org/10.3390/v16111800 - 20 Nov 2024
Abstract
Prosthetic joint infections (PJIs) are a serious complication of orthopedic surgery. Bacteriophage (phage) therapy shows promise as an adjunctive treatment but requires further study, particularly in its pharmacokinetics. Consequently, we performed a pharmacokinetic assessment of phage therapy for PJIs using a Staphylococcus epidermidis
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Prosthetic joint infections (PJIs) are a serious complication of orthopedic surgery. Bacteriophage (phage) therapy shows promise as an adjunctive treatment but requires further study, particularly in its pharmacokinetics. Consequently, we performed a pharmacokinetic assessment of phage therapy for PJIs using a Staphylococcus epidermidis Kirschner wire-based prosthesis rat model. We used 52 male Sprague–Dawley rats in four groups: negative controls (no phage, sterile implant), PJI controls (bacteria, no phage), sterile phage (phages given, sterile implant), and PJI (bacteria, phages given). The PJI groups were inoculated with ~106 CFU of S. epidermidis. The groups receiving phage were intra-articularly injected with ~108 PFU of vB_SepM_Alex five days post-implantation. The rats were euthanized between 30 min and 48 h post-injection. The measured phage concentrations between the PJI rats and the sterile controls in periarticular tissues were not significantly different. In a noncompartmental pharmacokinetic analysis, the estimated phage half-lives were under 6 h (combined: 3.73 [IQR, 1.45, 10.07]). The maximum phage concentrations were reached within 2 h after administration (combined: 0.75 [0.50, 1.75]). The estimated phage mean residence time was approximately three hours (combined: 3.04 [1.44, 4.19]). Our study provides a preliminary set of pharmacokinetic parameters that can inform future phage dosing studies and animal models of phage therapy for PJIs.
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(This article belongs to the Special Issue Phage-Bacteria Interplay in Health and Disease, Second Edition)
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