Viruses

8 pages, 670 KiB

Open AccessCommunication

A Strand-Specific Quantitative RT-PCR Method for Detecting vRNA, cRNA, and mRNA of H7N9 Avian Influenza Virus in a Mouse Model

by Bo Wang, Guangwen Wang, Yi-han Wang, Xuwei Liu, Manman Li, Huihui Kong, Hualan Chen, Li Jiang and Chengjun Li

Viruses 2025, 17(7), 1007; https://doi.org/10.3390/v17071007 - 17 Jul 2025

Abstract

Avian influenza virus (AIV) remains a persistent threat to both the poultry industry and human health. Among the AIV subtypes posing public health threats, H7N9 AIV is responsible for five epidemic waves of human infection in China. Here, a detection system based on [...] Read more.

Avian influenza virus (AIV) remains a persistent threat to both the poultry industry and human health. Among the AIV subtypes posing public health threats, H7N9 AIV is responsible for five epidemic waves of human infection in China. Here, a detection system based on a mouse model was established, which can simultaneously and quantitatively analyze the dynamic changes in the viral genomic RNA (vRNA), complementary RNA (cRNA), and messenger RNA (mRNA) of H7N9 AIV by using reverse transcription primers with tag sequences to reverse transcribe the three species of RNAs into corresponding cDNA templates, which are then absolutely quantified using the TaqMan quantitative PCR method. This system specifically targets the PB2 and NA genes and, for the first time, enables a spatiotemporal analysis of all three viral RNA species within an animal model. Our results revealed that H7N9 AIV exhibits characteristic replication kinetics, with all three species of viral RNAs showing a rapid increase followed by a certain degree of decline. This system offers a powerful tool for us to further advance our understanding of the replication dynamics of AIV in mice. Full article

(This article belongs to the Special Issue Influenza and Other Respiratory Viruses: Prevention, Diagnosis, Treatment: 2nd Edition)

35 pages, 2652 KiB

Open AccessReview

Non-Coding RNAs and Immune Evasion in Human Gamma-Herpesviruses

by Tablow S. Media, Laura Cano-Aroca and Takanobu Tagawa

Viruses 2025, 17(7), 1006; https://doi.org/10.3390/v17071006 - 17 Jul 2025

Abstract

Herpesviruses are DNA viruses that evade the immune response and persist as lifelong infections. Human gamma-herpesviruses Epstein–Barr virus (EBV) and Kaposi’s sarcoma herpesvirus (KSHV) are oncogenic; they can lead to cancer. Oncogenic viruses are responsible for 10–15% of human cancer development, which can [...] Read more.

Herpesviruses are DNA viruses that evade the immune response and persist as lifelong infections. Human gamma-herpesviruses Epstein–Barr virus (EBV) and Kaposi’s sarcoma herpesvirus (KSHV) are oncogenic; they can lead to cancer. Oncogenic viruses are responsible for 10–15% of human cancer development, which can have poor prognoses. Non-coding RNAs (ncRNAs) are RNAs that regulate gene expression without encoding proteins, and are being studied for their roles in viral immune evasion, infection, and oncogenesis. ncRNAs are classified by their size, and include long non-coding RNAs, microRNAs, and circular RNAs. EBV and KSHV manipulate host ncRNAs, and encode their own ncRNAs, regulating host processes and immune responses. Viral ncRNAs regulate host functions by post-transcriptionally modifying host RNAs, and by serving as mimics of other host RNAs, promoting immune evasion. ncRNAs in gamma-herpesvirus infection are also important for tumorigenesis, as dampening immune responses via ncRNAs can upregulate pro-tumorigenic pathways. Emerging topics such as RNA modifications, target-directed miRNA degradation, competing endogenous RNA networks, and lncRNA/circRNA–miRNA interactions provide new insights into ncRNA functions. This review compares ncRNAs and the mechanisms of viral immune evasion in EBV and KSHV, while also expanding on recent developments in the roles of ncRNAs in immune evasion, viral infection, and oncogenesis. Full article

(This article belongs to the Special Issue Understanding the Oncogenesis of Human Herpesviruses through Their Critical Comparisons)

14 pages, 958 KiB

Open AccessArticle

Serum sICAM-1 and Galectin-3 Levels in Diabetic Patients with COVID-19

by Busra Karahan, Dogan Nasir Binici, Omer Karasahin, Sibel İba Yilmaz, Ahmet Kiziltunc and Filiz Mercantepe

Viruses 2025, 17(7), 1005; https://doi.org/10.3390/v17071005 - 17 Jul 2025

Abstract

Introduction: This study aimed to evaluate the diagnostic and prognostic value of soluble intercellular adhesion molecule-1 (sICAM-1) and galectin-3 in patients with type 2 diabetes mellitus (T2D) diagnosed with coronavirus disease 2019 (COVID-19). Participants and Method: This prospective observational study included 45 adult [...] Read more.

Introduction: This study aimed to evaluate the diagnostic and prognostic value of soluble intercellular adhesion molecule-1 (sICAM-1) and galectin-3 in patients with type 2 diabetes mellitus (T2D) diagnosed with coronavirus disease 2019 (COVID-19). Participants and Method: This prospective observational study included 45 adult patients (≥18 years) with T2D and confirmed COVID-19 who were followed in the Infectious Diseases and Clinical Microbiology departments between May and June 2022. The control group consisted of 45 healthy volunteers without chronic illness who were presented to the internal medicine outpatient clinic. In addition to routine laboratory biomarkers assessed at hospital admission, the serum levels of sICAM-1 and galectin-3 were measured via ELISA kits. Results: The median age of the patients was 66 years (range: 41–77), and 23 (51.1%) were male. Hypertension was the most common comorbidity in addition to diabetes. Compared with those in the control group, the serum levels of both galectin-3 and sICAM-1 were significantly elevated in patients with COVID-19 and T2D (p < 0.001). However, there was no significant difference in galectin-3 or sICAM-1 levels between survivors and nonsurvivors (p = 0.240 and p = 0.266, respectively). Conclusion: Galectin-3 and sICAM-1 demonstrated stronger diagnostic utility than conventional biomarkers in T2D patients with COVID-19. The elevated levels of these markers may reflect the underlying systemic inflammation observed in diabetic patients with COVID-19. The strong correlation between galectin-3 and sICAM-1 suggests a potential link in their inflammatory regulation, although causality cannot be inferred. Full article

(This article belongs to the Special Issue COVID-19 Complications and Co-infections)

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9 pages, 207 KiB

Open AccessArticle

Innovating Quality Control and External Quality Assurance for HIV-1 Recent Infection Testing: Empowering HIV Surveillance in Lao PDR

by Supaporn Suparak, Kanokwan Ngueanchanthong, Petai Unpol, Siriphailin Jomjunyoung, Wipawee Thanyacharern, Sirilada Pimpa Chisholm, Nitis Smanthong, Pojaporn Pinrod, Thitipong Yingyong, Phonepadith Xangsayarath, Sinakhone Xayadeth, Virasack Somoulay, Theerawit Tasaneeyapan, Somboon Nookhai, Archawin Rojanawiwat and Sanny Northbrook

Viruses 2025, 17(7), 1004; https://doi.org/10.3390/v17071004 - 17 Jul 2025

Abstract

Quality assurance programs are critical to ensuring the consistency and reliability of point-of-care surveillance test results. In 2022, we launched Laos’ inaugural quality control (QC) and external quality assessment (EQA) program for national HIV recent infection surveillance. Our study aims to implement the [...] Read more.

Quality assurance programs are critical to ensuring the consistency and reliability of point-of-care surveillance test results. In 2022, we launched Laos’ inaugural quality control (QC) and external quality assessment (EQA) program for national HIV recent infection surveillance. Our study aims to implement the first QC and EQA program for national HIV recent infection surveillance in Laos, utilizing non-infectious dried tube specimens (DTS) for quality control testing. This initiative seeks to monitor and assure the quality of HIV infection surveillance. We employed the Asante HIV-1 Rapid Test for Recent Infection (HIV-1 RTRI) point-of-care kit, using plasma specimens from the Thai Red Cross Society to create dried tube specimens (DTS). The DTS panels, including HIV-1 negative, HIV-1 recent, and HIV-1 long-term samples, met ISO 13528:2022 standards to ensure homogeneity and stability. These panels were transported from the Thai National Institute of Health (Thai NIH) to the Laos National Center for Laboratory and Epidemiology (NCLE) and subsequently shipped to 12 remote laboratories at ambient temperature. The laboratory results were electronically transmitted to Thai NIH 15 days after receiving the panel for performance analysis. The concordance results with the sample types were scored, and laboratories that achieved 100% concordance across all sample panels were considered to have satisfactorily met the established standards. Almost all laboratories demonstrated satisfactory results with 100% concordance across all sample panels during all three rounds of QC: 11 out of 12 (92%) in June, 10 out of 12 (83%) in July, and 11 out of 12 (91%) in August. The two rounds of EQA performed in June and August 2022 were satisfied by 8 out of 11 (72%) and 5 out of 10 (50%) laboratories, respectively. QC and EQA monitoring identified errors such as testing protocol mistakes and insufficient DTS panel dissolution, leading to improvements in HIV recency testing quality. Laboratories that reported errors were corrected and implemented further preventive actions. The QC and EQA program for HIV-1 RTRI identified errors in HIV recent infection testing. Implementing a specialized QC and EQA program for DTS marks a significant advancement in improving the accuracy and consistency of HIV recent infection surveillance. Continuous assessment is vital for addressing recurring issues. Full article

(This article belongs to the Section Human Virology and Viral Diseases)

22 pages, 652 KiB

Open AccessReview

Laboratory Diagnosis of Hendra and Nipah: Two Emerging Zoonotic Diseases with One Health Significance

by Shaun van den Hurk, Aurelle Yondo and Binu T. Velayudhan

Viruses 2025, 17(7), 1003; https://doi.org/10.3390/v17071003 - 17 Jul 2025

Abstract

Hendra virus (HeV) and Nipah virus (NiV) are two highly pathogenic RNA viruses with zoonotic potential, which can cause severe diseases with high mortality rates (50–100%) in humans and animals. Given this context, these viruses are classified as Biosafety Level 4 (BSL-4) pathogens, [...] Read more.

Hendra virus (HeV) and Nipah virus (NiV) are two highly pathogenic RNA viruses with zoonotic potential, which can cause severe diseases with high mortality rates (50–100%) in humans and animals. Given this context, these viruses are classified as Biosafety Level 4 (BSL-4) pathogens, thus limiting research studies. Despite the high case fatalities, there are currently no human vaccines available for either virus, owing in part to the limitations in research and hesitancy in funding. In the absence of widespread vaccination, diagnostic tests are crucial for the rapid identification of cases and disease surveillance. This review synthesizes current knowledge on the epidemiology, transmission dynamics, and pathogenesis of NiV and HeV to contextualize a detailed assessment of the available diagnostic tools. We examined molecular and serological assays, including RT-PCR, ELISA, and LAMP, highlighting sample sources, detection windows, and performance. Diagnostic considerations across human and animal hosts are discussed, with emphasis on outbreak applicability and field-readiness, given the need for diagnostic assays that are suitable for use in low-income areas. Further development of diagnostic assays, including isothermal amplification tests and other next-generation approaches, is recommended to fill the gap in rapid, point-of-care diagnostics. Full article

(This article belongs to the Section Human Virology and Viral Diseases)

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18 pages, 1324 KiB

Open AccessReview

Age Matters: Key Contributors to Interferon Toxicity in Infants During Influenza Virus Infection

by Abigail P. Onufer and Alison J. Carey

Viruses 2025, 17(7), 1002; https://doi.org/10.3390/v17071002 - 17 Jul 2025

Abstract

Respiratory viral infections are a leading cause of early childhood hospitalizations in the United States. Neonatal immune responses are reliant on innate mechanisms during the first few months of life. Interferons (IFNs) are a key component of this response. These antiviral cytokines are [...] Read more.

Respiratory viral infections are a leading cause of early childhood hospitalizations in the United States. Neonatal immune responses are reliant on innate mechanisms during the first few months of life. Interferons (IFNs) are a key component of this response. These antiviral cytokines are produced early in infection and aid in viral control and clearance. Although generally considered protective in the setting of respiratory viral infections, the recent literature has suggested that IFNs may exacerbate disease. In the process of promoting an antiviral environment, IFNs impede cell proliferation, contribute to pulmonary barrier disruption, and generate reactive oxygen species. This is not tolerated in the rapidly developing neonatal lung. Therefore, IFNs contribute to pathogenesis in the influenza-infected neonate. This review focuses on the potential mechanisms that drive IFN-induced toxicity in neonates and prospective therapeutics to mitigate this toxicity. Full article

(This article belongs to the Special Issue Interferon Signaling in Viral Pathogenesis)

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12 pages, 2134 KiB

Open AccessArticle

Genomic Epidemiology of SARS-CoV-2 in Ukraine from May 2022 to March 2024 Reveals Omicron Variant Dynamics

by Anna Iaruchyk, Jason Farlow, Artem Skrypnyk, Serhii Matchyshyn, Alina Kovalchuk, Iryna Demchyshyna, Mykhailo Rosada, Aron Kassahun Aregay and Jarno Habicht

Viruses 2025, 17(7), 1000; https://doi.org/10.3390/v17071000 - 17 Jul 2025

Abstract

In Ukraine, SARS-CoV-2 detection and national genomic surveillance have been complicated by full-scale war, limited resources, and varying levels of public health infrastructure impacted across the country. Following the Spring of 2022, only a paucity of data have been reported describing the prevalence [...] Read more.

In Ukraine, SARS-CoV-2 detection and national genomic surveillance have been complicated by full-scale war, limited resources, and varying levels of public health infrastructure impacted across the country. Following the Spring of 2022, only a paucity of data have been reported describing the prevalence and variant dynamics of SARS-CoV-2 in the country. Comparative whole genome analysis has overtaken diagnostics as the new gold standard for detecting and tracing emerging variants while showing utility to rapidly inform diagnostics, vaccine strategies, and health policy. Herein, we provide an updated report characterizing the dynamics and prevalence of SARS-CoV-2 in Ukraine from 1 May 2022 to 31 March 2024. The present study extends previous reports for disease incidence Waves 1–4 in Ukraine with the addition herein of Waves 5, 6, and 7, occurring from August to November 2022 (Wave 5), February to May 2023 (Wave 6), and October 2023 to January 2024 (Wave 7). During the study period, the national Case Fatality Rate (CFR) fluctuated between 0.46% and 1.74%, indicating a consistent yet modest rate when compared to the global average. The epidemiological dynamics of Variants of Concern (VOCs) in Ukraine reflected global patterns over this period, punctuated by the rise of the BA.5 lineage and its subsequent replacement by the Omicron subvariants XBB and JN.1. Our analysis of variant dispersal patterns revealed multiple potential spatiotemporal introductions into Ukraine from Europe, Asia, and North America. Our results highlight the importance of ongoing genomic surveillance to monitor variant dynamics and support global efforts to control and mitigate COVID-19 disease risks as new variants arise. Full article

(This article belongs to the Section Coronaviruses)

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17 pages, 5794 KiB

Open AccessArticle

A More Rapid Method for Culturing LUHMES-Derived Neurons Provides Greater Cell Numbers and Facilitates Studies of Multiple Viruses

by Adam W. Whisnant, Stephanie E. Clark, José Alberto Aguilar-Briseño, Lorellin A. Durnell, Arnhild Grothey, Ann M. Miller, Steven M. Varga, Jeffery L. Meier, Charles Grose, Patrick L. Sinn, Jessica M. Tucker, Caroline C. Friedel, Wendy J. Maury, David H. Price and Lars Dölken

Viruses 2025, 17(7), 1001; https://doi.org/10.3390/v17071001 - 16 Jul 2025

Abstract

The ability to study mature neuronal cells ex vivo is complicated by their non-dividing nature and difficulty in obtaining large numbers of primary cells from organisms. Thus, numerous transformed progenitor models have been developed that can be routinely cultured, then scaled, and differentiated [...] Read more.

The ability to study mature neuronal cells ex vivo is complicated by their non-dividing nature and difficulty in obtaining large numbers of primary cells from organisms. Thus, numerous transformed progenitor models have been developed that can be routinely cultured, then scaled, and differentiated to mature neurons. In this paper, we present a new method for differentiating one such model, the Lund human mesencephalic (LUHMES) dopaminergic neurons. This method is two days faster than some established protocols, results in nearly five times greater numbers of mature neurons, and involves fewer handling steps that could introduce technical variability. Moreover, it overcomes the problem of cell aggregate formation that commonly impedes high-resolution imaging, cell dissociation, and downstream analysis. While recently established for herpes simplex virus type 1, we demonstrate that LUHMES neurons can facilitate studies of other herpesviruses, as well as RNA viruses associated with childhood encephalitis and hemorrhagic fever. This protocol provides an improvement in the generation of large-scale neuronal cultures, which may be readily applicable to other neuronal 2D cell culture models and provides a system for studying neurotrophic viruses. We named this method the Streamlined Protocol for Enhanced Expansion and Differentiation Yield, or SPEEDY, method. Full article

(This article belongs to the Section Human Virology and Viral Diseases)

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13 pages, 489 KiB

Open AccessArticle

Seroprevalence of Equine Influenza Virus Antibodies in Horses from Four Localities in Colombia

by Juliana Gonzalez-Obando, Jeiczon Jaimes-Dueñez, Angélica Zuluaga-Cabrera, Jorge E. Forero, Andrés Diaz, Carlos Rojas-Arbeláez and Julian Ruiz-Saenz

Viruses 2025, 17(7), 999; https://doi.org/10.3390/v17070999 - 16 Jul 2025

Abstract

Equine influenza is a highly contagious disease caused by the equine influenza virus (EIV). The occurrence of EIV outbreaks in America is associated with low levels of vaccination coverage. In Colombia, no seroprevalence evaluation has been carried out to estimate the distribution of [...] Read more.

Equine influenza is a highly contagious disease caused by the equine influenza virus (EIV). The occurrence of EIV outbreaks in America is associated with low levels of vaccination coverage. In Colombia, no seroprevalence evaluation has been carried out to estimate the distribution of the virus within the country. Our aim was to perform a sero-epidemiological survey of equine influenza infections and to identify associated risk factors in horses from four departments of Colombia. Serological testing was carried out by using an ELISA for the detection of IgG antibodies against the influenza A virus. The evaluation of epidemiological variables, clinical manifestations, and vaccination history was carried out through the application of a data collection instrument. Among the 385 horses analyzed, 27% of the samples tested positive, with a higher prevalence in Study 1 from horses with respiratory symptoms (40.4%) than in Study 2 from horses without clinical signs (16.1%). Only horses housed in stables had higher odds of testing positive. The study also revealed that unvaccinated horses were 68% less likely to test positive than vaccinated horses were. This research highlights a significant gap in vaccination coverage and the presence of antibodies even in asymptomatic horses. Management factors such as activity type and housing should be considered when strategies for EIV prevention are developed. Full article

(This article belongs to the Special Issue Viral Diseases of Livestock and Diagnostics, 2nd Edition)

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15 pages, 4342 KiB

Open AccessReview

Spatiotemporal Distribution and Risk Factors of African Swine Fever Outbreak Cases in Uganda for the Period 2010–2023

by Eddie M. Wampande, Robert Opio, Simon P. Angeki, Corrie Brown, Bonto Faburay, Rose O. Ademun, Kenneth Ssekatawa, David D. South, Charles Waiswa and Peter Waiswa

Viruses 2025, 17(7), 998; https://doi.org/10.3390/v17070998 - 16 Jul 2025

Abstract

This paper describes the spatiotemporal distribution and risk factors of African Swine Fever (ASF) in Uganda for the period of 2010 through 2023. The study utilized a comprehensive dataset from monthly reports (2010–2023) from District Veterinary Officers (DVOs), the Ministry of Agriculture, Animal [...] Read more.

This paper describes the spatiotemporal distribution and risk factors of African Swine Fever (ASF) in Uganda for the period of 2010 through 2023. The study utilized a comprehensive dataset from monthly reports (2010–2023) from District Veterinary Officers (DVOs), the Ministry of Agriculture, Animal Industry and Fisheries (MAAIF), and the Food and Agriculture Organization, Uganda. Using GPS coordinates, ASF cases were mapped using QGIS to show ASF distribution and spread in Uganda. Moran’s I analysis was used to delineate clusters of ASF. A total of 1521 ASF cases were recorded. The data show that cases of ASF were disseminated throughout the country, with more cases of ASF documented in the central region and border districts (hotspots for ASF), and few cases were reported in Acholi, Karamoja, and Lango, Ankole, West Nile, and Kigezi sub-regions. The time series analysis revealed incidences of ASF disease occurring year-round; notable peak cases were observed in some districts, and districts with ≥30,000 pigs reported higher cases of ASF. The Moran’s I (≥1) analysis showed that ASF is either aggregated (p = 0.01), especially in central districts bordering Tanzania and lake shores, or sporadic in occurrence. The disease was present in 66% of the districts, with ASF occurring throughout the year. More cases were aggregated in central and border districts and districts with large pig populations (≥30,000). Sporadic cases were reported in districts bordering the DRC, Sudan, Kenya, the lake shores, Karamoja, Acholi, and Lango sub-regions. Full article

(This article belongs to the Section Animal Viruses)

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10 pages, 405 KiB

Open AccessArticle

Soluble Neuropilin-1 as a Marker for Distinguishing Bacterial and Viral Sepsis in Critically Ill Patients—A Prospective, Multicenter, Observational Study

by Fabian Perschinka, Georg Franz Lehner, Timo Mayerhöfer, Frank Hartig, Birgit Zassler, Johannes Bösch, Dietmar Fries, Romuald Bellmann and Michael Joannidis

Viruses 2025, 17(7), 997; https://doi.org/10.3390/v17070997 - 16 Jul 2025

Abstract

Sepsis causes millions of deaths each year. Rapid, targeted therapy can reduce mortality rates. Both bacterial and viral pathogens can trigger sepsis, but the utility of commonly used inflammatory markers for differentiation remains controversial. Moreover, little is known about the time courses of [...] Read more.

Sepsis causes millions of deaths each year. Rapid, targeted therapy can reduce mortality rates. Both bacterial and viral pathogens can trigger sepsis, but the utility of commonly used inflammatory markers for differentiation remains controversial. Moreover, little is known about the time courses of alternative inflammatory parameters. The aim of this prospective, two-center observational study was to investigate the differences in the course of soluble Neuropilin-1 (sNRP-1) levels between bacterial and viral sepsis over a 7-day period. To be included, adult patients had to meet the SEPSIS-3 criteria and be diagnosed with either a bacterial or viral pathogen. Immunosuppressed patients were excluded. While IL-6, PCT, and CRP levels decreased consistently over time, sNRP-1 levels remained elevated in the bacterial group throughout the entire ICU stay. PCT (p < 0.001) and CRP (p = 0.016) levels were significantly associated with the course of sNRP-1. The AUC of sNRP-1 was 0.777 for discriminating between bacterial and viral infections on day 1. sNRP-1 remained stable and significantly higher in bacterial than in viral infections. Furthermore, the AUC values for discrimination ranged from acceptable to good, depending on the day of the ICU stay. sNRP-1 may serve as a potential tool to differentiate between bacterial and viral pathogens in sepsis. Full article

(This article belongs to the Special Issue Viral Sepsis: Pathogenesis, Diagnostics and Therapeutics)

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27 pages, 32257 KiB

Open AccessArticle

Characterization of a STAT-1 Knockout Mouse Model for Machupo Virus Infection and Pathogenesis

by Stephanie R. Monticelli, Ana I. Kuehne, Russell R. Bakken, Susan R. Coyne, Kenise D. Lewis, Jo Lynne W. Raymond, Xiankun Zeng, Joshua B. Richardson, Zebulon Lapoint, Jennifer L. Williams, Christopher P. Stefan, Jeffrey R. Kugelman, Jeffrey W. Koehler and Andrew S. Herbert

Viruses 2025, 17(7), 996; https://doi.org/10.3390/v17070996 - 16 Jul 2025

Abstract

Machupo virus (MACV), a member of the Arenaviridae family and causative agent of Bolivian hemorrhagic fever, results in lethality rates of 25–35% in humans. Mice lacking the signal transducer and activator of transcription 1 (STAT-1^−/−) have previously been shown to succumb [...] Read more.

Machupo virus (MACV), a member of the Arenaviridae family and causative agent of Bolivian hemorrhagic fever, results in lethality rates of 25–35% in humans. Mice lacking the signal transducer and activator of transcription 1 (STAT-1^−/−) have previously been shown to succumb to MACV infection within 7–8 days via the intraperitoneal route. Despite these reports, we observed partial lethality in STAT-1^−/− mice following challenge with wild-type MACV. Serial sampling studies to evaluate the temporal progression of infection and pathologic changes after challenge revealed a two-phase disease course. The first phase was characterized by viral load and pathological lesions in the spleen, liver, and kidney followed by a second, lethal phase, defined by high viral titers and inflammation in the brain and spinal cord resulting in neurological manifestations and subsequent mortality. Tissue adaptation in the brains of challenged STAT-1^−/− mice resulted in a fully lethal model in STAT-1^−/− mice (mouse-adapted; maMACV). A similar two-phase disease course was observed following maMACV challenge, but more rapid dissemination of the virus to the brain and overall pathology in this region was observed. The outcome of these studies is a lethal small rodent model of MACV that recapitulates many aspects of human disease. Full article

(This article belongs to the Section Human Virology and Viral Diseases)

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17 pages, 1237 KiB

Open AccessArticle

Biological, Molecular, and Physiological Characterization of Four Soybean Mosaic Virus Isolates Present in Argentine Soybean Crops

by Mariel Maugeri, Marianela Rodríguez, Nicolas Bejerman, Irma G. Laguna and Patricia Rodríguez Pardina

Viruses 2025, 17(7), 995; https://doi.org/10.3390/v17070995 - 16 Jul 2025

Abstract

Soybean mosaic virus (SMV) causes systemic infections in soybean plants, leading to chlorotic mosaic and significant yield losses. In Argentina, during the 1990s, three isolates were collected in Marcos Juárez (MJ), Manfredi (M), and Northwestern Argentina (NOA), along with the “Planta Vinosa” (PV) [...] Read more.

Soybean mosaic virus (SMV) causes systemic infections in soybean plants, leading to chlorotic mosaic and significant yield losses. In Argentina, during the 1990s, three isolates were collected in Marcos Juárez (MJ), Manfredi (M), and Northwestern Argentina (NOA), along with the “Planta Vinosa” (PV) isolate, which causes severe necrosis in some cultivars. These isolates were freeze-dried and stored at −70 °C for several years. They were recovered by mechanical inoculation and biologically, molecularly, and physiologically characterized for the first time. Three of the four isolates showed low genetic divergence in the P1, CI, and CP genes. Although SMV-NOA and SMV-PV had high nucleotide sequence identity, they differed in pathogenicity, seed mottling, and transmission efficiency by seeds or aphids. SMV-NOA caused early changes in photosystem II quantum efficiency (ɸPSII) and malondialdehyde (MDA) content before symptom expression (BS). After symptom development (LS), SMV-M significantly increased MDA, total soluble sugars, and starch compared to the other isolates. Thus, early changes in ɸPSII and sugars may influence late viral symptoms. Likewise, SMV-MJ induced more severe symptoms in the susceptible Davis cultivar than in Don Mario 4800. Therefore, our results demonstrate genomic, biological, and physiological differences among SMV isolates and variable interactions of SMV-MJ with two soybean cultivars. Full article

(This article belongs to the Special Issue Viral Diseases of Major Crops)

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16 pages, 2021 KiB

Open AccessArticle

The Cytoplasmic Tail of Ovine Herpesvirus 2 Glycoprotein B Affects Cell Surface Expression and Is Required for Membrane Fusion

by Colleen M. Lynch, Maria K. Herndon, McKenna A. Hull, Daniela D. Moré, Katherine N. Baker, Cristina W. Cunha and Anthony V. Nicola

Viruses 2025, 17(7), 994; https://doi.org/10.3390/v17070994 - 16 Jul 2025

Abstract

Ovine herpesvirus 2 (OvHV-2) causes the fatal veterinary disease malignant catarrhal fever (MCF). Fusion is an essential step in the host cell entry of enveloped viruses and is an important target for vaccine development. OvHV-2 cannot be propagated in vitro, so a robust [...] Read more.

Ovine herpesvirus 2 (OvHV-2) causes the fatal veterinary disease malignant catarrhal fever (MCF). Fusion is an essential step in the host cell entry of enveloped viruses and is an important target for vaccine development. OvHV-2 cannot be propagated in vitro, so a robust virus-free cell–cell membrane fusion assay is necessary to elucidate its entry mechanism. OvHV-2 cell–cell fusion requires three conserved herpesviral envelope glycoproteins: gB, gH, and gL. OvHV-2 fusion activity is detectable but low. We hypothesize that enhancing the cell surface expression of gB, which is the core herpesviral fusogen, will increase cell–cell fusion. We generated C-terminal truncation mutants of gB and determined their cell surface expression, subcellular distribution, and fusion activity. Two mutants, including one that lacked the entire cytoplasmic tail domain, failed to function in the cell–cell fusion assay, despite wild-type levels of surface expression. This suggests that the OvHV-2 gB cytoplasmic tail is critical for fusion. A gB mutant truncated at amino acid 847 showed increased surface expression and fusion relative to the wild type. This suggests that the robust fusion activity of gB847 is the result of increased surface expression. gB847 may be used in place of wild-type gB in an improved, more robust OvHV-2 fusion assay. Full article

(This article belongs to the Section Animal Viruses)

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14 pages, 317 KiB

Open AccessArticle

Barriers and Facilitators of Implementation of the Non-Hospital-Based Administration of Long-Acting Cabotegravir Plus Rilpivirine in People with HIV: Qualitative Data from the HOLA Study

by Diana Hernández-Sánchez, Juan M. Leyva-Moral, Julian Olalla, Eugènia Negredo and on behalf of the HOLA Study Group

Viruses 2025, 17(7), 993; https://doi.org/10.3390/v17070993 - 16 Jul 2025

Abstract

Long-acting (LA) antiretroviral therapies for human immunodeficiency virus (HIV), such as injectable formulations of cabotegravir and rilpivirine (CAB+RPV LA), are now available. Considering the limited data on the out-of-hospital administration of this combination, evaluating the implementation strategies needed is essential to support future [...] Read more.

Long-acting (LA) antiretroviral therapies for human immunodeficiency virus (HIV), such as injectable formulations of cabotegravir and rilpivirine (CAB+RPV LA), are now available. Considering the limited data on the out-of-hospital administration of this combination, evaluating the implementation strategies needed is essential to support future clinical efforts. To gather data on barriers and facilitators of implementation for CAB+RPV LA in alternative outpatient facilities, this study used qualitative interviews informed by the Consolidated Framework for Implementation Research (CFIR), with 13 staff participating in the HOLA study (NCT06185452). Data analysis followed qualitative descriptive methods, assisted by Atlas.ti software version 22. The study adhered to the COREQ guidelines. Findings reveal five main factors to consider for implementation: operational and infrastructure adaptations, integrated management of human and organizational resources, need for coordination and follow-up, professional attitudes and work environment, and patient experience and patients’ needs perceived by professionals. This study emphasizes the comprehensive operational and infrastructure adaptations, adequate staff training, and supportive professional environment required for the successful implementation of CAB+RPV LA, while considering patients’ needs throughout the externalization process (trial registration number: NCT06643897). Full article

(This article belongs to the Special Issue Cascade of Care for HIV, Hepatitis and Sexually Transmitted Infections)

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1 pages, 148 KiB

Open AccessRetraction

RETRACTED: Scarpa et al. Zoonotic Paramyxoviruses: Evolution, Ecology, and Public Health Strategies in a Changing World. Viruses 2024, 16, 1688

by Francesco Branda, Grazia Pavia, Alessandra Ciccozzi, Angela Quirino, Nadia Marascio, Giovanni Matera, Chiara Romano, Chiara Locci, Ilenia Azzena, Noemi Pascale, Daria Sanna, Marco Casu, Giancarlo Ceccarelli, Massimo Ciccozzi and Fabio Scarpa

Viruses 2025, 17(7), 992; https://doi.org/10.3390/v17070992 - 16 Jul 2025

Abstract

The journal retracts the article “Zoonotic Paramyxoviruses: Evolution, Ecology, and Public Health Strategies in a Changing World” [...] Full article

(This article belongs to the Special Issue Emerging Zoonotic Paramyxoviruses)

10 pages, 645 KiB

Open AccessArticle

Enterovirus Detection Trends Based on Respiratory Specimens from a Single Tertiary Hospital in Korea (2018–2024): A Retrospective Study Using Multiplex PCR Data

by Jeong Su Han, Sung Hun Jang, Jae-Sik Jeon and Jae Kyung Kim

Viruses 2025, 17(7), 991; https://doi.org/10.3390/v17070991 - 16 Jul 2025

Abstract

Enteroviruses (EVs) cause broad clinical manifestations, particularly in children. Certain serotypes have been implicated in respiratory infections; however, epidemiological studies analyzing EV circulation based on clinical respiratory specimens are limited in Korea. This retrospective study evaluates EV detection patterns in respiratory specimens to [...] Read more.

Enteroviruses (EVs) cause broad clinical manifestations, particularly in children. Certain serotypes have been implicated in respiratory infections; however, epidemiological studies analyzing EV circulation based on clinical respiratory specimens are limited in Korea. This retrospective study evaluates EV detection patterns in respiratory specimens to demonstrate their clinical and epidemiological significance as respiratory pathogens in Korea. Respiratory samples collected from outpatient and hospitalized patients with respiratory symptoms at Dankook University Hospital between 2018 and 2024 were analyzed. EV detection patterns were analyzed by year, season, sex, and age. EVs were detected in 303/6292 respiratory specimens. The highest and lowest positivity rates were in 2018 (8.2%) and 2020 (1.6%), likely due to non-pharmaceutical interventions during the COVID-19 pandemic. The highest positivity rates were in summer and autumn, and in children aged 2–11 years and infants aged 0–1 years. EV positivity did not differ significantly between sexes. Significant differences were identified across years, seasons, and age groups. EVs can be detected in respiratory specimens from symptomatic patients and exhibit a marked seasonal distribution and elevated positivity rates in pediatric populations. Hence, EVs may act as atypical respiratory pathogens, underscoring the need for integrated public health surveillance and seasonal prevention strategies. Full article

(This article belongs to the Special Issue An Update on Enterovirus Research, 2nd Edition)

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21 pages, 1665 KiB

Open AccessReview

Possible Crosstalk and Alterations in Gut Bacteriome and Virome in HIV-1 Infection and the Associated Comorbidities Related to Metabolic Disorder

by Komal Shrivastav, Hesham Nasser, Terumasa Ikeda and Vijay Nema

Viruses 2025, 17(7), 990; https://doi.org/10.3390/v17070990 - 16 Jul 2025

Abstract

Improved antiretroviral therapy (ART) has significantly increased the life expectancy of people living with HIV (PLWH). At the same time, other complications like metabolic syndrome (MetS) are coming up as new challenges to handle. This review aims to explore the emerging evidence of [...] Read more.

Improved antiretroviral therapy (ART) has significantly increased the life expectancy of people living with HIV (PLWH). At the same time, other complications like metabolic syndrome (MetS) are coming up as new challenges to handle. This review aims to explore the emerging evidence of gut microbiome and virome alterations in human immunodeficiency virus-1 (HIV-1) infection and associated metabolic disorders, such as type-2 diabetes (T2DM) and cardiovascular disease (CVD), with a focus on their interplay, contribution to immune dysfunction, and potential as therapeutic targets. We conducted a comprehensive review of the current literature on gut bacteriome and virome changes in HIV-1-infected individuals and those with metabolic comorbidities emphasizing their complex interplay and potential as biomarkers or therapeutic targets. HIV-1 infection disrupts gut microbial homeostasis, promoting bacterial translocation, systemic inflammation, and metabolic dysregulation. Similarly, metabolic disorders are marked by reduced beneficial short-chain fatty acid-producing bacteria and an increase in pro-inflammatory taxa. Alterations in the gut virome, particularly involving bacteriophages, may exacerbate bacterial dysbiosis and immune dysfunction. Conversely, some viral populations have been associated with immune restoration post-ART. These findings point toward a dynamic and bidirectional relationship between the gut virome, bacteriome, and host immunity. Targeted interventions such as microbiome modulation and fecal virome transplantation (FVT) offer promising avenues for restoring gut homeostasis and improving long-term outcomes in PLWH. Full article

(This article belongs to the Special Issue HIV and HTLV Infections and Coinfections)

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17 pages, 3448 KiB

Open AccessArticle

Entry Inhibitors of SARS-CoV-2 Targeting the Transmembrane Domain of the Spike Protein

by Kristin V. Lyles, Shannon Stone, Priti Singh, Lila D. Patterson, Janhavi Natekar, Heather Pathak, Rohit K. Varshnaya, Amany Elsharkawy, Dongning Liu, Shubham Bansal, Oluwafoyinsola O. Faniyi, Sijia Tang, Xiaoxiao Yang, Nagaraju Mulpuri, Donald Hamelberg, Congbao Kang, Binghe Wang, Mukesh Kumar and Ming Luo

Viruses 2025, 17(7), 989; https://doi.org/10.3390/v17070989 - 16 Jul 2025

Abstract

Despite current vaccines and therapeutics targeting SARS-CoV-2, the causative agent of the COVID-19 pandemic, cases remain high causing a burden on health care systems. Spike-protein mediated membrane fusion of SARS-CoV-2 is a critical step in viral entry. Herein, we describe entry inhibitors identified [...] Read more.

Despite current vaccines and therapeutics targeting SARS-CoV-2, the causative agent of the COVID-19 pandemic, cases remain high causing a burden on health care systems. Spike-protein mediated membrane fusion of SARS-CoV-2 is a critical step in viral entry. Herein, we describe entry inhibitors identified by first screening a library of about 160 compounds and then analogue synthesis. Specifically, compound 261 was found to inhibit SARS-CoV-2 infection in a tissue model with IC₅₀ of 0.3 µM. Using NMR, we found that 261 interacts with key residues in the aromatic-rich region of the spike protein directly next to the transmembrane domain. Molecular dynamic simulations of the 261 binding pocket in the spike protein was also mapped to the transmembrane domain, consistent with NMR findings. The amino acids in the binding site are conserved among different coronaviruses known to infect humans; therefore, inhibitors targeting this conserved binding site could be a useful addition to current therapeutics and may have pan-coronavirus antiviral activities. Full article

(This article belongs to the Special Issue Influenza and Other Respiratory Viruses: Prevention, Diagnosis, Treatment: 2nd Edition)

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