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Predictive Factors of Cytomegalovirus Colonic Reactivation in Patients with Active Ulcerative Colitis
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Elements in the 5′ Untranslated Region of Viral RNA Important for HIV Gag Recognition and Cross-Packaging
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First Report of Paralytic Rabies in a Lowland Tapir (Tapirus terrestris) in Argentina
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The In Situ Structure of T-Series T1 Reveals a Conserved Lambda-Like Tail Tip
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Exploring the Contribution of TLR7 to Sex-Based Disparities in Respiratory Syncytial Virus (RSV)-Induced Inflammation and Immunity
Journal Description
Viruses
Viruses
is a peer-reviewed, open access journal of virology, published monthly online by MDPI. The Spanish Society for Virology (SEV), Canadian Society for Virology (CSV), Italian Society for Virology (SIV-ISV), Australasian Virology Society (AVS), Brazilian Society for Virology (BSV) 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 17.1 days after submission; acceptance to publication is undertaken in 2.7 days (median values for papers published in this journal in the second 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:
3.5 (2024);
5-Year Impact Factor:
3.7 (2024)
Latest Articles
A Type I IFN-Inducing Oncolytic Virus Improves NK Cell-Mediated Killing of Tumor Cells In Vitro Through Multiple Mechanisms
Viruses 2025, 17(7), 897; https://doi.org/10.3390/v17070897 (registering DOI) - 25 Jun 2025
Abstract
Natural killer (NK) cell adoptive immunotherapy is a promising therapeutic approach in which NK cells perform targeted lysis of tumor cells. Oncolytic viruses are also effective cancer therapeutic agents due to their ability to selectively target and kill tumor cells. Combination therapies that
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Natural killer (NK) cell adoptive immunotherapy is a promising therapeutic approach in which NK cells perform targeted lysis of tumor cells. Oncolytic viruses are also effective cancer therapeutic agents due to their ability to selectively target and kill tumor cells. Combination therapies that integrate NK cells and oncolytic viruses have been shown to enhance tumor killing compared to individual treatment strategies alone. Using in vitro expanded human NK cells (PM21-NK cells), we tested the relative ability of tumor cells infected with WT parainfluenza virus 5 (PIV5), which is a poor inducer of type 1 interferon (IFN-I), versus PIV5 P/V gene mutant, which is a strong inducer of IFN-I synthesis, to modulate NK cell activities. Both WT and P/V mutant viruses were capable of infecting PM21-NK cells and caused extensive cytopathic effects. Co-culturing of PM21-NK cells with virus-infected tumor cells resulted in spread of WT PIV5 to naïve NK cells, but NK cells were protected from spread of the P/V mutant virus by IFN-I induction. Direct treatment of PM21-NK cells with IFN-I or media from P/V-virus-infected tumor cells enhanced NK cell cytotoxicity, at least in part due to upregulation of the death ligand, TRAIL. IFN-I-treated PM21-NK cells also showed a decrease in IFN-γ secretion, a cytokine we have previously shown to reduce PM21-NK cell tumor killing. Our results highlight multiple mechanisms by which an IFN-I-inducing oncolytic virus can enhance NK-cell-mediated killing of target virus-infected and uninfected tumor cells.
Full article
(This article belongs to the Section General Virology)
Open AccessArticle
The First African Swine Fever Viruses Detected in Wild Boar in Hong Kong, 2021–2023
by
Karina W. S. Tam, Candy C. Y. Lau, Timothy T. L. Ng, Sin Ming Ip, Sin Fat Pun, Amanda Corla, Carrie Batten and Christopher J. Brackman
Viruses 2025, 17(7), 896; https://doi.org/10.3390/v17070896 (registering DOI) - 25 Jun 2025
Abstract
This study represents the first report on the detection and whole-genome sequencing of African swine fever (ASF) viruses in wild boar in Hong Kong in 2021–2023. Wild boar samples collected via an ASF surveillance program by the Agriculture, Fisheries, and Conservation Department were
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This study represents the first report on the detection and whole-genome sequencing of African swine fever (ASF) viruses in wild boar in Hong Kong in 2021–2023. Wild boar samples collected via an ASF surveillance program by the Agriculture, Fisheries, and Conservation Department were tested for ASF viruses (ASFVs) using real-time polymerase chain reaction. ASF-positive carcasses were detected in four cases and hemadsorption, virus isolation, and whole-genome sequencing were conducted. The B646L gene, E183L gene, central variable region within the B602L gene, intergenic region between the I73R and I329L genes, EP420R gene, and multigene family members of the four ASFV strains were compared. The whole-genome phylogenetic relationships were studied. The comparative analysis of the genomes indicates that the ASFVs in these four cases have genetic similarities to Asian genotype II ASFVs, but are genetically distinct from each other, as well as the ASFV previously identified in a domestic pig farm in Hong Kong in 2021.
Full article
(This article belongs to the Collection African Swine Fever Virus (ASFV))
Open AccessArticle
A Single-Cell Perspective on the Effects of Dopamine in the Regulation of HIV Latency Phenotypes in a Myeloid Cell Model
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Liana V. Basova, Wei Ling Lim, Violaine Delorme-Walker, Tera Riley, Kaylin Au, Daniel Siqueira Lima, Marina Lusic, Ronald J. Ellis, Howard S. Fox and Maria Cecilia Garibaldi Marcondes
Viruses 2025, 17(7), 895; https://doi.org/10.3390/v17070895 (registering DOI) - 25 Jun 2025
Abstract
Psychostimulants such as methamphetamine (Meth) induce high dopamine (DA) levels in the brain, which can modify immune cells expressing DA receptors. This is relevant in conditions of infection with the human immunodeficiency virus (HIV), overlapping with substance use. However, the effects of DA
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Psychostimulants such as methamphetamine (Meth) induce high dopamine (DA) levels in the brain, which can modify immune cells expressing DA receptors. This is relevant in conditions of infection with the human immunodeficiency virus (HIV), overlapping with substance use. However, the effects of DA on HIV latency phenotypes are largely unknown. We used single-cell methods and gene network computational analysis to understand these relationships, using the U1 latent promonocyte model to identify signatures of latency and its reversal in the context of DA exposure. Our findings point to mechanisms by which high DA levels in the brains of substance users may impact HIV transcription and neuroinflammation. Our data indicate that latency is maintained along with the expression of histone linkers and components of chromatin organization, with increased metabolic pathways that may lead to pathways in neurodegeneration. DA exposure decreased latency signature genes, histone linkers, and protein-containing complex organization components, unleashing inflammatory pathways and HIV gene transcription. Overall, this work suggests that DA can induce latency reversal through mechanisms that can be harnessed to drive cells. The proposed methods developed here in cell lines can be used to identify latency signatures in other HIV infection systems.
Full article
(This article belongs to the Special Issue HIV and Drugs of Abuse, 4th Edition)
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Open AccessSystematic Review
The Association Between HIV Infection and Carotid Intima-Media Thickness in the Era of Antiretroviral Therapy: A Meta-Analysis
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Angelina Nieuwoudt, Kay-Lee E. Strauss, Wendy N. Phoswa and Kabelo Mokgalaboni
Viruses 2025, 17(7), 894; https://doi.org/10.3390/v17070894 (registering DOI) - 25 Jun 2025
Abstract
Atherosclerosis remains a leading cause of mortality globally, and this is worse in people living with HIV (PLHIV). While the administration of antiretroviral therapy (ART) in this population has significant benefits, it is essential to acknowledge that it also has some undesired effects.
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Atherosclerosis remains a leading cause of mortality globally, and this is worse in people living with HIV (PLHIV). While the administration of antiretroviral therapy (ART) in this population has significant benefits, it is essential to acknowledge that it also has some undesired effects. This study investigated the impact of ART on carotid intima-media thickness (CIMT) in PLHIV as a marker of early atherosclerosis. A literature search was conducted on the PubMed, Scopus, and EBSCOhost databases from 1 January 1987 to 30 May 2025. The methodological quality of the studies was assessed using the Newcastle–Ottawa scale. Data were analyzed using a meta-analysis web tool and reported as the mean difference (MD) and 95% confidence intervals (CIs). Twenty-seven studies, which included 3250 PLHIV on ART and 1542 who were ART-naive, were relevant. The mean age was 41.26 in ART and 39.91 years. The results showed a higher CIMT in PLHIV on ART compared to the ART-naive group, MD = 0.03 mm, 95% CI (0.02 mm to 0.04 mm), p < 0.0001; I2 = 96.9%. Subgroup analysis showed that the inclusion of studies conducted on male participants only, those with a sample size of one hundred, and those with a moderate risk of bias contributed to heterogeneity. The results suggest there is an increased risk of atherosclerosis in PLHIV on ART.
Full article
(This article belongs to the Section Human Virology and Viral Diseases)
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Open AccessArticle
Expression and Localization of a New Parvovirus-Derived Protein in the Guinea Pig
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Camila E. Osega, Fernando J. Bustos, Francisca C. Bronfman, Robert J. Gifford and Gloria Arriagada
Viruses 2025, 17(7), 893; https://doi.org/10.3390/v17070893 - 25 Jun 2025
Abstract
Endogenous viral elements (EVEs) are genomic sequences derived from viruses. Some EVEs have open reading frames (ORFs) that can express co-opted proteins in their host. Furthermore, some EVEs that are expressed as proteins have become part of cellular genes that are fusions of
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Endogenous viral elements (EVEs) are genomic sequences derived from viruses. Some EVEs have open reading frames (ORFs) that can express co-opted proteins in their host. Furthermore, some EVEs that are expressed as proteins have become part of cellular genes that are fusions of hosts and EVE sequences. Endogenous parvoviral elements (EPVs) are highly represented in mammalian genomes, and some of them contain ORFs and can be expressed as proteins. We have shown that an EPV containing an ORF is part of the guinea pig gene enRep-M9l. This gene is broadly transcribed in vivo, indicating that it can be translated into a protein. By generating antibodies against the enRep coding sequence of the enRep-M9l ORF, we showed that the protein enRep-M9l is expressed in vivo and in the guinea pig-derived cell line JH4. By immunofluorescence and in situ proximity ligation assays, we observed that enRep-M9l protein has a cytoplasmic localization near microtubules. The results of this study suggest that the guinea pig EPV-derived protein enRep-M9l is a microtubule-associated protein. To our knowledge, this is the second demonstration that an EPV-derived protein is expressed in vivo.
Full article
(This article belongs to the Collection Parvoviridae)
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Open AccessArticle
Trends in the Mortality, Deaths, and Aetiologies of Lower Respiratory Infections Among 204 Countries from 1991 to 2021: An Updated Systematic Study
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Meichen Li, Min Liu and Jue Liu
Viruses 2025, 17(7), 892; https://doi.org/10.3390/v17070892 - 25 Jun 2025
Abstract
Lower respiratory infections (LRIs) persist as a major global health threat. This study analyses the 1991–2021 trends in LRI mortality, deaths, and aetiologies across 204 countries using Global Burden of Disease 2021 data, aiming to evaluate the disease burden of LRIs and provide
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Lower respiratory infections (LRIs) persist as a major global health threat. This study analyses the 1991–2021 trends in LRI mortality, deaths, and aetiologies across 204 countries using Global Burden of Disease 2021 data, aiming to evaluate the disease burden of LRIs and provide evidence-based guidance for prevention strategies. To quantify the temporal trends, the annual percentage change was estimated (EAPC) using linear regression modeling. Globally, the ASMR for LRI decreased by an average of 2.29% annually (95% CI: 2.16–2.42%). While ASMR decreased in 20 of the GBD regions, mortality rates in Southern Latin America increased (EAPC = 1.32, 95% CI: 0.98–1.67). The LRI burden remains the heaviest in low SDI regions and sub-Saharan Africa. LRIs continue to cause high mortality in children and the elderly. Mortality in children decreased rapidly, while mortality in the elderly declined more slowly. Streptococcus pneumoniae was the leading cause of LRI-related deaths, followed by Staphylococcus aureus and Klebsiella pneumoniae. LRIs remain a leading cause of global mortality, especially in low SDI regions, and among children and the elderly. Future research on LRIs and the development of effective prevention and control strategies are essential to reduce the disease burden of LRIs.
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(This article belongs to the Section General Virology)
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Open AccessArticle
Mathematical Modeling of Andrographolide Therapy Effects and Immune Response in In Vivo Dynamics of SARS-CoV-2 Infection
by
Panittavee Yarnvitayalert and Teerapol Saleewong
Viruses 2025, 17(7), 891; https://doi.org/10.3390/v17070891 - 25 Jun 2025
Abstract
This study explores the viral dynamics of SARS-CoV-2 infection within host cells by incorporating the pharmacological effects of andrographolide—a bioactive compound extracted from Andrographis paniculata, renowned for its antiviral, anti-inflammatory, and immunomodulatory properties. Through the application of mathematical modeling, the interactions among
[...] Read more.
This study explores the viral dynamics of SARS-CoV-2 infection within host cells by incorporating the pharmacological effects of andrographolide—a bioactive compound extracted from Andrographis paniculata, renowned for its antiviral, anti-inflammatory, and immunomodulatory properties. Through the application of mathematical modeling, the interactions among the virus, host cells, and immune responses are simulated to provide a comprehensive analysis of viral behavior over time. Two distinct models were employed to assess the impact of varying andrographolide dosages on viral load, target cell populations, and immune responses. One model revealed a clear dose–response relationship, whereas the other indicated that additional biological or pharmacological factors may modulate drug efficacy. Both models demonstrated stability, with basic reproductive numbers (R0) suggesting the potential for viral propagation in the absence of effective therapeutic interventions. This study emphasizes the significance of understanding the pharmacokinetics (PK) and pharmacodynamics (PD) of andrographolide to optimize its therapeutic potential. The findings also underscore the necessity for further investigation into the compound’s absorption, distribution, metabolism, and excretion (ADME) characteristics, as well as its prospective applications in the treatment of not only COVID-19 but also other viral infections. Overall, the results lay a foundational framework for future experimental research and clinical trials aimed at refining andrographolide dosing regimens and improving patient outcomes.
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(This article belongs to the Section Coronaviruses)
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Open AccessCommunication
Broad-Spectrum Antiviral Activity of Pyridobenzothiazolone Analogues Against Respiratory Viruses
by
Elisa Feyles, Tommaso Felicetti, Irene Arduino, Massimo Rittà, Andrea Civra, Luisa Muratori, Stefania Raimondo, David Lembo, Giuseppe Manfroni and Manuela Donalisio
Viruses 2025, 17(7), 890; https://doi.org/10.3390/v17070890 - 24 Jun 2025
Abstract
Cell-based phenotypic screening of a privileged in-house library composed of pyridobenzothiazolone (PBTZ) analogues was conducted against representative viruses responsible for common respiratory tract infections in humans, i.e., respiratory syncytial virus (RSV), human coronavirus type OC43 (HCoV-OC43), and influenza virus type A (IFV-A). We
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Cell-based phenotypic screening of a privileged in-house library composed of pyridobenzothiazolone (PBTZ) analogues was conducted against representative viruses responsible for common respiratory tract infections in humans, i.e., respiratory syncytial virus (RSV), human coronavirus type OC43 (HCoV-OC43), and influenza virus type A (IFV-A). We identified a compound with broad-spectrum inhibitory activity against multiple strains of RSV, HCoV, and IFV, with EC50 values in the low micromolar range and cell-independent activity. Its antiviral activity and cytocompatibility were confirmed in a fully differentiated 3D model of the bronchial epithelium mimicking the in vivo setting. The hit compound enters cells and localizes homogeneously in the cytosol, inhibiting replicative phases in a virus-specific manner. Overall, the selected PBTZ represents a good starting point for further preclinical development as a broad-spectrum antiviral agent that could address the continuous threat of new emerging pathogens and the rising issue of antiviral resistance.
Full article
(This article belongs to the Special Issue Advances in Small-Molecule Viral Inhibitors)
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Open AccessArticle
Anti-Herpes Simplex Virus (Wild-Type and Drug-Resistant) Properties of Herbal KerraTM, KSTM, and MinozaTM
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Chaleampol Loymunkong, Kiattawee Choowongkomon, Chukkris Heawchaiyaphum, Nutchanat Chatchawankanpanich, Chamsai Pientong, Tipaya Ekalaksananan and Jureeporn Chuerduangphui
Viruses 2025, 17(7), 889; https://doi.org/10.3390/v17070889 - 24 Jun 2025
Abstract
Commercial herbal compounds are a main attractive target to explore for a novel drug for the treatment of HSV. This study investigated the anti-HSV infectivity of extracts derived from the Thai commercial herbals KerraTM, KSTM, and MinozaTM.
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Commercial herbal compounds are a main attractive target to explore for a novel drug for the treatment of HSV. This study investigated the anti-HSV infectivity of extracts derived from the Thai commercial herbals KerraTM, KSTM, and MinozaTM. Wild-type HSV-1 KOS, HSV-2, and drug-resistant HSV-1 dxpIII were used to investigate any inhibitory effects of these extracts. A plaque formation assay was performed to investigate the effects of all extracts. The viral ICP4, UL30, gD, and gB and cellular IL1β, IL6, STAT3, and NFKB1 expression levels were evaluated. The KerraTM, KSTM, and MinozaTM extracts at 50–200 μg/mL significantly inhibited HSV-1 KOS and dxpIII infection in the post-entry step, whereas only MinozaTM could not reduce plaque formation of HSV-2. In addition, ICP4, UL30, and gD mRNAs and gB protein were significantly decreased in KerraTM- and KSTM-treated cells. Furthermore, IL1B, IL6, STAT3, and NFKB1 expression was upregulated in KerraTM- and KSTM-treated cells. KerraTM and KSTM could be agents against HSV infection, especially the HSV acyclovir (ACV)-resistant strain. From the docking result and drug-likeness prediction, 2-Methoxy-9H-xanthen-9-one, piperine, and sargassopenilline D found in KerraTM, KSTM, and MinozaTM show high binding energy closely resembling ACV, and are desirable as drug-like characteristics.
Full article
(This article belongs to the Section Viral Immunology, Vaccines, and Antivirals)
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Open AccessArticle
Genomic Characterization and Molecular Epidemiology of Tusaviruses and Related Novel Protoparvoviruses (Family Parvoviridae) from Ruminant Species (Bovine, Ovine and Caprine) in Hungary
by
Fruzsina Tóth, Péter Pankovics, Péter Urbán, Róbert Herczeg, Ervin Albert, Gábor Reuter and Ákos Boros
Viruses 2025, 17(7), 888; https://doi.org/10.3390/v17070888 - 24 Jun 2025
Abstract
Tusavirus 1 of species Protoparvovirus incertum 1 (family Parvoviridae) was first identified in humans and later in small ruminants (caprine and ovine). This study reports the full-length coding sequences (~4400–4600 nt) of three novel tusavirus-related protoparvoviruses from ovine (“misavirus”, PV540792), for the
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Tusavirus 1 of species Protoparvovirus incertum 1 (family Parvoviridae) was first identified in humans and later in small ruminants (caprine and ovine). This study reports the full-length coding sequences (~4400–4600 nt) of three novel tusavirus-related protoparvoviruses from ovine (“misavirus”, PV540792), for the first time bovine (“sisavirus”, PV540793) and subsequently from caprine (“gisavirus” PV540850/51) fecal samples, using next-generation sequencing (NGS) and PCR techniques. Their NS1, VP1 and VP2 proteins shared 61–63% amino acid identities with each other and with tusaviruses, suggesting these three viruses belong to three novel species in the genus Protoparvovirus. Phylogenetic analyses placed them with tusaviruses on a separate main branch, implying a shared origin among these most likely ruminant protoparvoviruses. A small-scale epidemiological investigation on 318 ruminant enteric samples using novel generic NS1 primers found misavirus in 14/51 (27.5%) ovine and sisavirus in 19/203 (9.4%) bovine samples from multiple Hungarian farms. Tusavirus was present in 5/51 (9.8%) ovine and 15/62 (24.2%) caprine samples, all from one farm. The highest prevalences for all three viruses were found in animals aged 2–12 months, though sporadic cases were also found in other age groups. Partial NS and VP sequence-based phylogenetic trees showed virus-specific lineages for misa-, sisa-, gisa- and tusaviruses, with various strains forming sub-lineages. These findings suggest the presence of multiple genotypes and/or members of additional species, which was supported by a VP sequence-based hierarchical cluster analysis. The study’s viruses were mostly phylogenetically separated by host; however, two bovine sisavirus strains with diverse phylogenetic localizations in the NS (belonging to bovine sisaviruses) and VP1 trees (distantly related to ovine misaviruses) could indicate previous (interspecies?) recombination events.
Full article
(This article belongs to the Special Issue Advances in Endemic and Emerging Viral Diseases in Livestock)
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Open AccessArticle
Short Assessment for People with Human Immunodeficiency Virus (HIV) Aged 50 Years or Older: Essential Tests from Comprehensive Geriatric Assessment
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Jordi Puig, Pau Satorra, Ana Martínez, Sandra González, Roberto Güerri-Fernández, Itziar Arrieta-Aldea, Isabel Arnau, Anna Prats, Vira Buhiichyk, Cristian Tebe and Eugenia Negredo
Viruses 2025, 17(7), 887; https://doi.org/10.3390/v17070887 - 24 Jun 2025
Abstract
Background: Comprehensive geriatric assessments (CGAs) are necessary to address the needs of people with human immunodeficiency virus infection (PWH) aged ≥ 50 years and ensure that they receive high-quality care. We aimed to identify the most effective tests from an extensive CGA to
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Background: Comprehensive geriatric assessments (CGAs) are necessary to address the needs of people with human immunodeficiency virus infection (PWH) aged ≥ 50 years and ensure that they receive high-quality care. We aimed to identify the most effective tests from an extensive CGA to develop a short CGA. Methods: This observational, cross-sectional, and analytical study was conducted in three phases: (1) describing PWH aged ≥ 50 and matched controls; (2) jointly analyzing data to identify the most effective tests from the original CGA and develop a short version; and (3) applying the short CGA separately to both groups. Results: The most effective tests—the Lawton scale, SPPB, Barber questionnaire, Pittsburgh Sleep Quality Index, and Cognitive Complaints questionnaire—were used to create a short CGA. It identified abnormalities in 77% of PWH flagged by the full CGA, though 65% with the normal short CGA results had at least one abnormal result in the full version. Most false negatives were due to the excluded Hearing-Dependent Activities scale. Conclusions: These findings represent an initial step toward developing a short CGA for an easy and rapid identification of PWH aged ≥ 50, beyond a frailty assessment, who may benefit from early clinical management.
Full article
(This article belongs to the Special Issue Cascade of Care for HIV, Hepatitis and Sexually Transmitted Infections)
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Open AccessArticle
Designing Sandwich ELISA with Broadly Reactive Anti-Nucleocapsid Monoclonal Antibodies to Detect Bat-Borne Merbecoviruses
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Kong Yen Liew, Yaju Wang, Sneha Sree Mullapudi, Dinah binte Aziz, Wenjie Fan, Min Luo, Paul Anantharajah Tambyah and Yee-Joo Tan
Viruses 2025, 17(7), 886; https://doi.org/10.3390/v17070886 - 24 Jun 2025
Abstract
At least three betacoronaviruses have spilled over from bats to humans and caused severe diseases, highlighting the threat of zoonotic transmission. Thus, it is important to enhance surveillance capabilities by developing tools capable of detecting a broad spectrum of bat-borne betacoronaviruses. Three monoclonal
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At least three betacoronaviruses have spilled over from bats to humans and caused severe diseases, highlighting the threat of zoonotic transmission. Thus, it is important to enhance surveillance capabilities by developing tools capable of detecting a broad spectrum of bat-borne betacoronaviruses. Three monoclonal antibodies (mAbs) targeting the nucleocapsid (N) protein were generated using recombinant N proteins from severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) and Middle East Respiratory Syndrome Coronavirus (MERS-CoV). The cross-reactivities of these mAbs were evaluated against a panel of betacoronaviruses. Sandwich ELISAs (sELISAs) were subsequently developed to detect bat-borne betacoronaviruses that have high zoonotic potential. Among the mAbs, 7A7 demonstrated the broadest cross-reactivity, recognizing betacoronaviruses from the Sarbecovirus, Merbecovirus and Hibecovirus subgenera. The first sELISA, based on mAbs 7A7 and 6G10, successfully detected N protein in all clinical swab samples from COVID-19 patients with cycle threshold (Ct) values < 25, achieving 75% positivity overall (12/16). Using this as a reference, a second sELISA was established by pairing mAb 7A7 with mAb 8E2, which binds to multiple merbecoviruses. This assay detected the N protein of two merbecoviruses, namely the human MERS-CoV and bat-borne HKU5-CoV, at high sensitivity and has a limit of detection (LOD) that is comparable to the first sELISA used successfully to detect COVID-19 infection. These broadly reactive mAbs could be further developed into rapid antigen detection kits for surveillance in high-risk populations with close contact with wild bats to facilitate the early detection of potential zoonotic spillover events.
Full article
(This article belongs to the Special Issue Emerging Microbes, Infections and Spillovers, 2nd Edition)
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Open AccessArticle
IRF4 Mediates Immune Evasion to Facilitate EBV Transformation
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Ling Wang, Culton R. Hensley, Jahan Rifat, Adam D. Walker, Katharine Ning, Jonathan P. Moorman, Zhi Q. Yao and Shunbin Ning
Viruses 2025, 17(7), 885; https://doi.org/10.3390/v17070885 - 24 Jun 2025
Abstract
The lymphocyte-specific transcription factor interferon regulatory factor 4 (IRF4) is a key player in immune evasion in cancers, with the complex mechanism(s) being barely understood. In this study, we have focused on the role of IRF4 in regulating T cell functions through its
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The lymphocyte-specific transcription factor interferon regulatory factor 4 (IRF4) is a key player in immune evasion in cancers, with the complex mechanism(s) being barely understood. In this study, we have focused on the role of IRF4 in regulating T cell functions through its transcriptional regulation of programmed death 1 (PD1) and its ligand PD1 ligand 1 (PD-L1), which were identified as IRF4 transcriptional targets in multi-omics analysis. We have shown that IRF4 transcriptionally regulates both PD1 and PD-L1, promoting immune suppression in the context of Epstein–Barr virus (EBV) infection. Co-culturing EBV+ JiJoye lymphoma cells with CD4+ T cells or with peripheral blood mononuclear cells (PBMCs) downregulates CD4+ T cell functions, but the depletion of IRF4 in EBV+ JiJoye lymphoma cells reduces PD1 and PD-L1 expression, and partially restores CD4+ T cell functions. Moreover, CD4+ T cell depletion from PBMCs enhances EBV transformation, and EBV has a greater efficiency in transforming PBMCs from HIV patients with impaired CD4+ T cell functions. These findings support the role of IRF4 in immune evasion by upregulating PD1/PD-L1 during EBV transformation, and that functional CD4+ T cells are essential for limiting EBV transformation.
Full article
(This article belongs to the Section Viral Immunology, Vaccines, and Antivirals)
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Open AccessReview
The Role of Autophagy in HIV Infection and Immunological Recovery of ART-Treated PLWH
by
Mayara Sabino Leite de Oliveira Duarte, Wlisses Henrique Veloso de Carvalho-Silva and Rafael Lima Guimarães
Viruses 2025, 17(7), 884; https://doi.org/10.3390/v17070884 - 23 Jun 2025
Abstract
Human immunodeficiency virus (HIV) is responsible for acquired immunodeficiency syndrome (AIDS), a condition characterized by the depletion of CD4+ T lymphocytes, which predisposes individuals to opportunistic infections and, ultimately, death. Although antiretroviral therapy (ART) has substantially improved clinical outcomes, certain limitations persist. Notably,
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Human immunodeficiency virus (HIV) is responsible for acquired immunodeficiency syndrome (AIDS), a condition characterized by the depletion of CD4+ T lymphocytes, which predisposes individuals to opportunistic infections and, ultimately, death. Although antiretroviral therapy (ART) has substantially improved clinical outcomes, certain limitations persist. Notably, 15–30% of individuals undergoing ART achieve viral suppression but fail to restore adequate CD4+ T cell counts, being defined as immunological non-responders (INR) and remaining at increased risk of disease progression to AIDS. The impaired immune recovery in INRs is attributed to insufficient production and/or excessive destruction of CD4+ T lymphocytes, which can be modulated by autophagy process. This evolutionarily conserved mechanism is fundamental to lymphocyte development and activation as well as to programmed cell death pathways such as apoptosis, necroptosis, ferroptosis, and pyroptosis. These pathways are essential for understanding the impaired immune reconstitution observed in people living with HIV, whose inability to maintain immune homeostasis contributes to accelerated disease progression. This review explores the interplay between autophagy, HIV, and cell death mechanisms, highlighting its relevance in immunological recovery under ART and its potential as a therapeutic target.
Full article
(This article belongs to the Special Issue Molecular Mechanisms and Clinical Manifestations of Persistent Viral Infections)
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Open AccessArticle
Phospholipase PLA2G16 Accelerates the Host Interferon Signaling Pathway Response to FMDV
by
Bingjie Sun, Xiaodong Qin, Taoqing Zhang, Sujie Dong, Yinbo Ye, Changying Wang, Yan Zhang, Rongzeng Hao, Yi Ru, Hong Tian and Haixue Zheng
Viruses 2025, 17(7), 883; https://doi.org/10.3390/v17070883 - 23 Jun 2025
Abstract
PLA2G16 is a member of the phospholipase A2 family that catalyzes the generation of lysophosphatidic acids (LPAs) and free fatty acids (FFAs) from phosphatidic acid. Previously, PLA2G16 was found to be a host factor for picornaviruses. Here, we discovered that the Foot-and-Mouth Disease
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PLA2G16 is a member of the phospholipase A2 family that catalyzes the generation of lysophosphatidic acids (LPAs) and free fatty acids (FFAs) from phosphatidic acid. Previously, PLA2G16 was found to be a host factor for picornaviruses. Here, we discovered that the Foot-and-Mouth Disease Virus (FMDV) infection led to an elevation in PLA2G16 transcription. We established PLA2G16 overexpression and knockdown cell lines in PK-15 cells to investigate the potential role of PLA2G16 in FMDV infection. Our findings revealed that during FMDV infection, PLA2G16-overexpressing cells had increased levels of phosphorylated STAT1 and the interferon-stimulating factors ISG15 and ISG56. In PLA2G16-overexpressing cells, p-STAT1 was observed at higher levels and earlier than in wild-type cells. Subsequent research demonstrated that PLA2G16 specifically promoted an antiviral innate immune response against FMDV. The host could detect the early release of FMDV viral nucleic acid in PLA2G16-overexpressing cells and trigger the interferon signaling pathway. Additionally, we discovered that the supernatants of PLA2G16-overexpressing cells stimulated the production of higher levels of ISG56 and phosphorylated STAT1. This suggests that PLA2G16-overexpressing cells can activate the innate immune pathway of uninfected cells after FMDV infection.
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(This article belongs to the Special Issue Vaccines and Antiviral Drugs Against Viral Diseases in Domestic Animals)
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Open AccessReview
Machine Learning and Artificial Intelligence for Infectious Disease Surveillance, Diagnosis, and Prognosis
by
Brandon C. J. Cheah, Creuza Rachel Vicente and Kuan Rong Chan
Viruses 2025, 17(7), 882; https://doi.org/10.3390/v17070882 - 23 Jun 2025
Abstract
Advances in high-throughput technologies, digital phenotyping, and increased accessibility of publicly available datasets offer opportunities for big data to be applied in infectious disease surveillance, diagnosis, treatment, and outcome prediction. Artificial intelligence (AI) and machine learning (ML) have emerged as promising tools to
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Advances in high-throughput technologies, digital phenotyping, and increased accessibility of publicly available datasets offer opportunities for big data to be applied in infectious disease surveillance, diagnosis, treatment, and outcome prediction. Artificial intelligence (AI) and machine learning (ML) have emerged as promising tools to analyze complex clinical and molecular data. However, it remains unclear which AI or ML models are most suitable for infectious disease management, as most existing studies use non-scoping literature reviews to recommend AI and ML models for data analysis. This scoping literature review thus examines the ML models and applications that are most relevant for infectious disease management, with a proposed actionable workflow for implementing ML models in clinical practice. We conducted a literature search on PubMed, Google Scholar, and ScienceDirect, including papers published in English between January 2020 and April 2024. Search keywords included AI, ML, public health, surveillance, diagnosis, prognosis, and infectious disease, to identify published studies using AI and ML in infectious disease management. Studies without public datasets or lacking descriptions of the ML models were excluded. This review included a total of 77 studies applied in surveillance, prognosis, and diagnosis. Different types of input data from infectious disease surveillance, clinical diagnosis, and prognosis required different ML and AI models to achieve the maximum performance in infectious disease management. Our findings highlight the potential of Explainable AI and ensemble learning models to be more broadly applicable in different aspects of infectious disease management, which can be integrated in clinical workflows to improve infectious disease surveillance, diagnosis, and prognosis. Explainable AI and ensemble learning models can be suitably used to achieve high accuracy in prediction. However, as most of the studies have not been validated in different cohorts, it remains unclear whether these ML models can be broadly applicable to different populations. Nonetheless, the findings encourage deploying ML and AI to complement clinicians and augment clinical decision-making.
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(This article belongs to the Section General Virology)
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COVID-19 and a Tale of Three Drugs: To Repurpose, or Not to Repurpose–That Was the Question
by
Chris R. Triggle and Ross MacDonald
Viruses 2025, 17(7), 881; https://doi.org/10.3390/v17070881 - 23 Jun 2025
Abstract
On 11 March 2020, the World Health Organisation (WHO) declared a global pandemic caused by the SARS-CoV-2 coronavirus that earlier in February 2020 the WHO had named COVID-19 (coronavirus disease 2019). There were neither drugs nor vaccines that were known to be effective
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On 11 March 2020, the World Health Organisation (WHO) declared a global pandemic caused by the SARS-CoV-2 coronavirus that earlier in February 2020 the WHO had named COVID-19 (coronavirus disease 2019). There were neither drugs nor vaccines that were known to be effective against the virus, stimulating an urgent worldwide search for treatments. An evaluation of existing drugs by ‘repurposing’ was initiated followed by a transition to de novo drug discovery. Repurposing of an already approved drug may accelerate the introduction of that drug into clinical use by circumventing early, including preclinical studies otherwise essential for a de novo drug and reducing development costs. Early in the pandemic three drugs were identified as repurposing candidates for the treatment of COVID-19: (i) hydroxychloroquine, an anti-malarial also used to treat rheumatoid arthritis and lupus; (ii) ivermectin, an antiparasitic approved for both human and veterinary use; (iii) remdesivir, an anti-viral originally developed to treat hepatitis C. The scientific evidence, both for and against the efficacy of these three drugs as treatments for COVID-19, vied with public demand and politicization as unqualified opinions clashed with evidence-based medicine. To quote Hippocrates, “There are in fact two things, science and opinion; the former begets knowledge, the latter ignorance”.
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(This article belongs to the Section Coronaviruses)
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The Differential Expression of the JAK/STAT Pathway in Breast Cancer Cells Transfected with Human Papillomavirus Oncogenes
by
Stephanie Loureiro Leão, Gabriel Rômulo Parente da Silva, Daffany Luana dos Santos, Bianca de França São Marcos, Pedro Henrique Bezerra Fontes, Beatriz Eda de Oliveira Isídio, Isabelle Silva Simões, Elisa Fotin Genn Barros, David Beltrán Lussón, Joelson Germano Crispim, Lígia Rosa Sales Leal, Anna Jéssica Duarte Silva, Vanessa Emanuelle Pereira Santos and Antonio Carlos de Freitas
Viruses 2025, 17(7), 880; https://doi.org/10.3390/v17070880 - 23 Jun 2025
Abstract
Breast cancer is among the most prevalent and deadly types of cancer worldwide. Viral infections have been investigated as contributing factors in breast carcinogenesis, including infections by high-risk genotypes of human papillomavirus (HPV). Although viral DNA has been detected in breast tumors, the
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Breast cancer is among the most prevalent and deadly types of cancer worldwide. Viral infections have been investigated as contributing factors in breast carcinogenesis, including infections by high-risk genotypes of human papillomavirus (HPV). Although viral DNA has been detected in breast tumors, the role of HPV activity in this type of cancer remains poorly understood. HPV oncogenes interact with various host genes, including those involved in the JAK/STAT signaling pathway. This pathway is associated with the regulation of gene expression related to the tumor microenvironment, and understanding how HPV oncogenes interact with JAK/STAT components may provide insights into the relationship between the virus and breast cancer development. In this study, we assessed the differential expression of the JAK/STAT pathway in MDA-MB-231 cells individually transfected with the E5, E6, and E7 oncogenes of HPV16. The results revealed downregulation of STAT4 in the presence of the E5, E6, and E7 oncogenes. Notably, cells transfected with E5 alone exhibited upregulation of JAK2, STAT3, and STAT6, whereas transfection with E6 and E7 resulted in their downregulation. These findings highlight the underexplored role of the E5 oncogene in contrast to the more extensively studied E6 and E7. Our results support the hypothesis that HPV oncogenes actively modulate the expression of genes involved in the tumor microenvironment in breast cancer.
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(This article belongs to the Special Issue Viral Oncogenes)
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Open AccessEditorial
Retrointegration2023—Papers from the 7th International Conference on Retroviral Integration
by
Alan N. Engelman, Duane P. Grandgenett, Goedele N. Maertens, Kristine E. Yoder and Mamuka Kvaratskhelia
Viruses 2025, 17(7), 879; https://doi.org/10.3390/v17070879 - 23 Jun 2025
Abstract
The integration of retroviral DNA into host chromosomal DNA is a landmark event that demarcates the transition from the early steps of virus replication to post-integration gene expression and the assembly of new virus particles [...]
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(This article belongs to the Special Issue The 7th International Conference on Retroviral Integration)
Open AccessArticle
Long-Term Follow-Up of Patients with West Nile Neuroinvasive Disease
by
Nataša Nikolić, Branko Milošević, Stojanović Miloš, Ljubisavljević Mila, Ivana Milošević, Nikola Mitrović, Jovan Malinić, Ana Filipović, Nevena Todorović, Uroš Karić, Boris Jegorović, Miloš Šabanović, Ivana Gmizić, Branko Beronja and Jasmina Poluga
Viruses 2025, 17(7), 878; https://doi.org/10.3390/v17070878 - 23 Jun 2025
Abstract
Human West Nile virus (WNV) infection is usually asymptomatic. Less than 1% of patients develop neuroinvasive disease (WNND) which may result in permanent neurological impairment. The aim of this study was to assess the functional and cognitive status of patients with WNND approximately
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Human West Nile virus (WNV) infection is usually asymptomatic. Less than 1% of patients develop neuroinvasive disease (WNND) which may result in permanent neurological impairment. The aim of this study was to assess the functional and cognitive status of patients with WNND approximately one year after the onset of symptoms. This prospective observational cohort study involved patients with WNND. Patients’ functional and cognitive abilities one year post-infection were assessed by telephone interviews using the Modified Rankin Scale (mRS), Barthel Index, and Telephone Interview for Cognitive Status. Sixty-two participants were analyzed. All patients had encephalitis, and 7 (11.3%) also had acute flaccid paresis/paralysis (AFP). At discharge, 40 (64.5%) patients had no or minimal neurological deficit (mRS 0–1), and 14 (22.6%) were functionally dependent (mRS 3–5). One year later, 52 (83.9%) patients were functionally independent (mRS 0–2), none was severely dependent (Barthel index 0–60), and 50 (90.9%) had a Barthel index score of 91–100. Among 14 functionally dependent patients at discharge, 3 (21.4%) remained functionally dependent one year later. During the follow-up, 7 (11.3%) patients died. No significant difference was observed in the fatality rate between patients with and without AFP, mRS 3–5 at discharge, or age over 65. The most common persistent symptoms were muscle weakness, walking instability, and issues with focus and memory. Using TICS, it was found that 33/55 patients (60%) had unimpaired and 2 (3.6%) had moderately or severely impaired cognitive status. The long-term prognosis after WNV encephalitis is satisfying. The majority of patients reached functional independence and 60% had unimpaired cognitive status.
Full article
(This article belongs to the Section Human Virology and Viral Diseases)

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