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Identification and Characterization of MmuPV1 Causing Papillomatosis Outbreak in an Animal Research Facility -
Potential for Core Fucose-Targeted Therapy Against HBV Infection of Human Normal Hepatocytes -
Broadly Sarbecovirus-Neutralizing Antibodies Induced by Ancestral SARS-CoV-2 Infection -
Dysregulation of microRNAs in the Brains of Mice Infected with Powassan Virus -
Immune Responses and Replication of Rescued Torque Teno Virus (TTSuV1) in Mice
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, and other databases.
- Journal Rank: JCR - Q2 (Virology) / CiteScore - Q1 (Virology/Infectious Diseases)
- Rapid Publication: manuscripts are peer-reviewed and a first decision is provided to authors approximately 18.6 days after submission; acceptance to publication is undertaken in 2.5 days (median values for papers published in this journal in the first half of 2025).
- 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
Characterizing the Bat Virome of Vietnam: A Systematic Review of Viral Diversity and Zoonotic Potential
Viruses 2025, 17(12), 1532; https://doi.org/10.3390/v17121532 (registering DOI) - 22 Nov 2025
Abstract
Bats have been identified as reservoir hosts for an exceptional diversity of viruses, including multiple taxa of high zoonotic concern. Over a hundred bat species inhabit Vietnam, which, combined with significant biodiversity, carry high risk of zoonotic spillover due to dense human–animal interfaces,
[...] Read more.
Bats have been identified as reservoir hosts for an exceptional diversity of viruses, including multiple taxa of high zoonotic concern. Over a hundred bat species inhabit Vietnam, which, combined with significant biodiversity, carry high risk of zoonotic spillover due to dense human–animal interfaces, extensive wildlife trade, and proximity to recent outbreak epicenters. This review systematically synthesizes data on the bat virome in Vietnam and neighboring Southeast Asian countries, assessing viral diversity, host species involvement, and zoonotic potential. By prioritizing virus groups with established zoonotic capacity and pandemic potential, the systematic search identified studies reporting viruses from 32 families across 13 bat families. Based on the WHO 2024 risk classification, seven of these viral families were categorized as high-risk, three as medium-risk, and twelve as low-risk. The comparatively higher viral diversity reported in neighboring countries suggests that the current study likely represents an underestimation of the true virome present in Vietnamese bat populations. We emphasize the urgent need for expanded virological studies integrating metagenomic sequencing, serological surveys, and ecological modeling to improve early detection of emerging threats, as the comparatively higher viral diversity reported in neighboring countries suggests existing research likely represents an underestimation of the true virome present in Vietnamese bat populations. Strengthening regional collaboration is critical for establishing proactive pandemic prevention strategies in this high-risk zoonotic hotspot.
Full article
(This article belongs to the Section General Virology)
Open AccessArticle
New Circulating Variants of SARS-CoV-2 in Asturias During the Period (2022–2024)
by
José María González-Alba, Zulema Pérez Martínez, Susana Rojo-Alba, Cristina Ochoa Varela, Juan Gómez de Oña, Mercedes Rodríguez Pérez, Santiago Melón García and Marta Elena Álvarez-Argüelles
Viruses 2025, 17(12), 1531; https://doi.org/10.3390/v17121531 (registering DOI) - 22 Nov 2025
Abstract
The ability of a virus to adapt is key to its survival, and this is achieved through mutation, which allows the virus to change and adapt to new environments. To capture the full extent of SARS-CoV-2 diversity in Asturias, samples obtained from nasopharyngeal
[...] Read more.
The ability of a virus to adapt is key to its survival, and this is achieved through mutation, which allows the virus to change and adapt to new environments. To capture the full extent of SARS-CoV-2 diversity in Asturias, samples obtained from nasopharyngeal swabs were characterised using whole-genome sequencing. Between 2020 and July 2024, a total of 4001 sequences were analysed and 5302 mutations were identified. An increase in the positivity rate was observed between 2022 and 2024 in children under 1 year of age. During this period, 55 new circulating variants belonging to 41 pangolin lineages were detected: 24 originated throughout the world and 31 in Asturias (10 detected only in the region, 8 in the rest of Spain, and 13 around the world). A total of 31 new non-synonymous mutations were fixed in the viral population 250 ± 46 (93–620) days after their appearance. During seasonal SARS-CoV-2 circulation, surveillance systems developed during the pandemic continue to detect new indigenous and imported variants without indicating an increase in severity.
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(This article belongs to the Section Human Virology and Viral Diseases)
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Open AccessBrief Report
Delayed Emergence of Norovirus GII.17 in Finland: Foodborne Outbreaks Reported During the 2024/25 Season
by
Haider Al-Hello, Ruska Rimhanen-Finne and Carita Savolainen-Kopra
Viruses 2025, 17(12), 1530; https://doi.org/10.3390/v17121530 - 21 Nov 2025
Abstract
During the 2024/25 season, Finland experienced a delayed emergence of norovirus genotype GII.17, which had already become prevalent in several European countries and the United States during the previous season, 2023/24. In Finland, GII.17 was confirmed in three foodborne outbreaks and five sporadic
[...] Read more.
During the 2024/25 season, Finland experienced a delayed emergence of norovirus genotype GII.17, which had already become prevalent in several European countries and the United States during the previous season, 2023/24. In Finland, GII.17 was confirmed in three foodborne outbreaks and five sporadic cases, marking the highest number of detections to date. These cases were geographically distributed across southern, western, and northern Finland, indicating widespread circulation. Retrospective analysis of national surveillance data from 2014 to 2025 revealed that GII.17 had been detected sporadically in earlier years but never at this scale. The emergence of GII.17 coincided with a continued presence of GII.4 [P16], the previously dominant genotype. Phylogenetic analysis showed that Finnish GII.17 strains clustered with recent international strains, suggesting introduction from abroad. The findings highlight the importance of sustained genotyping and international surveillance to detect emerging norovirus variants and inform public health preparedness in Finland.
Full article
(This article belongs to the Special Issue Viruses Associated with Gastroenteritis)
Open AccessArticle
Regional, Age, and Sex Patterns of Hepatitis C Virus Infection in Russia: Insights from a 42,000-Participant Serosurvey
by
Victor A. Manuylov, Vladimir A. Gushchin, Vladimir P. Chulanov, Olga V. Isaeva, Denis A. Kleymenov, Andrei A. Pochtovyi, Elena P. Mazunina, Evgeniia N. Bykonia, Irina N. Tragira, Yana V. Simakova, Sergey V. Netesov, Artem P. Tkachuk, Tatyana A. Semenenko, Alexander L. Gintsburg, Karen K. Kyuregyan and Mikhail I. Mikhailov
Viruses 2025, 17(12), 1529; https://doi.org/10.3390/v17121529 - 21 Nov 2025
Abstract
Identifying population groups at greatest risk of hepatitis C virus (HCV) infection is essential for targeting screening and treatment. We analyzed the seroprevalence of antibodies to HCV (anti-HCV) and HCV RNA in serum samples from 37,291 conditionally healthy volunteers collected between 2018 and
[...] Read more.
Identifying population groups at greatest risk of hepatitis C virus (HCV) infection is essential for targeting screening and treatment. We analyzed the seroprevalence of antibodies to HCV (anti-HCV) and HCV RNA in serum samples from 37,291 conditionally healthy volunteers collected between 2018 and 2022, and from 4764 individuals sampled in 2008, totaling 42,055 participants. In 2018–2022, anti-HCV prevalence varied by region, ranging from 1.1 to 1.4% in Belgorod, Moscow, and St. Petersburg to 1.8–2.1% in Dagestan, Tatarstan, Novosibirsk, Tyva, and southern Yakutia, and reaching 3.4–5.2% in Khabarovsk and the Arctic zone of Yakutia. In 2008, prevalence in Moscow, Rostov, Sverdlovsk, Tyva, and Yakutia ranged from 1.7% to 3.3%. A significant decline over time was observed: from a mean of 2.6 ± 0.5% in 2008 to 1.9 ± 0.1% in 2018–2022 (p < 0.01). In recent years, men were more frequently anti-HCV-positive than women (2.5 ± 0.2% vs. 1.5 ± 0.2%, p < 0.01), whereas no sex differences were noted in 2008. The age of a sharp prevalence increase shifted from the 20–29 cohort in 2008 to the 30–39 cohort in 2018–2022. Based on the demographic structure, we estimate ~3.23 million anti-HCV carriers in Russia. HCV RNA was detectable in only one-third of seropositive individuals, identifying them as candidates for antiviral therapy. Thus, in contemporary Russia, men aged over 30 years have the highest risk of HCV infection and should be prioritized for targeted screening.
Full article
(This article belongs to the Special Issue Advancing Hepatitis Elimination: HBV, HDV, and HCV)
Open AccessReview
Mounting Evidence for an Expanded Host Range of Influenza B Viruses
by
Marios Koutsakos, Rhys H. Parry and Michelle Wille
Viruses 2025, 17(12), 1528; https://doi.org/10.3390/v17121528 - 21 Nov 2025
Abstract
Influenza B viruses (IBV) belong to the family of Orthomyxoviridae and circulate annually in humans causing respiratory illness. Although they are considered an exclusively human pathogen, there is evidence of IBV infections in animals, including wildlife, companion animals and livestock. In addition, metagenomic
[...] Read more.
Influenza B viruses (IBV) belong to the family of Orthomyxoviridae and circulate annually in humans causing respiratory illness. Although they are considered an exclusively human pathogen, there is evidence of IBV infections in animals, including wildlife, companion animals and livestock. In addition, metagenomic studies have identified novel orthomyxoviruses in amphibians and fish that appear related to IBV, suggesting influenza viruses, including IBV, have been associated with vertebrates across their evolutionary history. In this review, we summarise our current knowledge of potential IBV and IBV-like infections in animals. These collectively suggest that the ecology of IBV extends beyond humans and warrants further investigations.
Full article
(This article belongs to the Special Issue Influenza Viruses in Wildlife 2025)
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Open AccessArticle
The Viruses of Botrytis cinerea and Beyond: Molecular Characterization of RNA Viruses and Retroplasmids
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Huang Huang, Jiasen Cheng, Yanping Fu, Qing Cai, Yang Lin, Tao Chen, Bo Li, Xiao Yu, Xueqiong Xiao, Daohong Jiang and Jiatao Xie
Viruses 2025, 17(12), 1527; https://doi.org/10.3390/v17121527 - 21 Nov 2025
Abstract
Over the past five years, research has progressively revealed a rich diversity of RNA viruses in Botrytis cinerea. In this study, we identified nine RNA viruses from the viromes of three B. cinerea strains, including five mitoviruses, one umbra-like virus, and three
[...] Read more.
Over the past five years, research has progressively revealed a rich diversity of RNA viruses in Botrytis cinerea. In this study, we identified nine RNA viruses from the viromes of three B. cinerea strains, including five mitoviruses, one umbra-like virus, and three partitiviruses. Among these, Sclerotinia sclerotiorum partitivirus 1 (SsPV1) was artificially introduced in a previous study. Excluding SsPV1, we cloned the other two partitiviruses and confirmed that both belong to Gammapartitivirus and contain three genomic segments, with dsRNA3 as an RNA satellite. In addition to RNA viruses, we discovered 12 retroplasmids in the three B. cinerea strains. These retroplasmids utilize the mitochondrial genetic codes and only encode a single open reading frame, which is predicted to produce a reverse transcriptase. It is also well known that mitoviruses use the mitochondrial genetic codes to encode their RNA-dependent RNA polymerase. Given the similarities between mitoviruses and retroplasmids in several aspects, we suggest that the mycovirus community could consider whether retroplasmids should be included within the conceptual scope of viruses. Furthermore, this study calls on researchers to pay attention to mobile genetic elements beyond typical RNA viruses, such as the retroplasmids reported here. Additionally, it underscores the importance of using single-spore or single-protoplast isolation methods in mycoviral studies to maintain a consistent genetic and viral background when investigating viral effects on the fungal host.
Full article
(This article belongs to the Collection Mycoviruses)
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Open AccessReview
Mpox: Exploring Epidemiology, Disease Outcomes, and Preventative Vaccination Among People with HIV During the Ongoing Outbreaks
by
Chloe Orkin, Ralph Torgler, Rebecca Dawson, Ian W. Holloway and Christian Hoffmann
Viruses 2025, 17(12), 1526; https://doi.org/10.3390/v17121526 - 21 Nov 2025
Abstract
Human mpox, caused by the mpox virus, is a reemerging viral zoonosis that has gained global attention due to recent Clade IIb outbreaks outside of Africa, as well as ongoing Clade Ia and Ib outbreaks in the Democratic Republic of Congo (DRC) and
[...] Read more.
Human mpox, caused by the mpox virus, is a reemerging viral zoonosis that has gained global attention due to recent Clade IIb outbreaks outside of Africa, as well as ongoing Clade Ia and Ib outbreaks in the Democratic Republic of Congo (DRC) and surrounding regions. Since the start of these outbreaks in 2022, approximately 160,000 people have been affected across more than 100 countries. People with human immunodeficiency virus (HIV; hereafter referred to as PWH) have been disproportionately affected, accounting for approximately 50% of all cases. Mpox is typically a self-limiting illness causing smallpox-like symptoms lasting 2–4 weeks, which can cause significant pain and morbidity. People with uncontrolled or advanced HIV face an elevated risk of severe mpox, secondary complications, and worse outcomes. Vaccination with second- and third-generation vaccinia-based smallpox vaccines has emerged as an important tool in mpox prevention, alongside behavioural modification to mitigate risk. However, only the third-generation, live-attenuated, non-replicating vaccine, modified vaccinia Ankara (MVA-BN [Bavarian Nordic]), is approved for use in PWH. Real-world estimates suggest that two doses of MVA-BN administered as pre-exposure prophylaxis confers vaccine effectiveness in the range of 66–90%. Additionally, MVA-BN has been widely demonstrated to have an acceptable safety profile. This narrative review explores the changing epidemiology, clinical manifestations, and outcomes of mpox in PWH. We also summarise evidence from the Clade IIb outbreaks on the effectiveness and safety of MVA-BN among PWH. Despite progress in our understanding, knowledge gaps persist regarding vaccine performance in individuals with advanced immunosuppression. Furthermore, due to the emergent nature of outbreaks in the DRC and surrounding areas, limited information is available regarding implications for PWH in the context of Clade Ia and Ib. We aim to provide healthcare providers, community stakeholders, and researchers with a foundational understanding of mpox in PWH and the role of MVA-BN in mpox prevention among this group, while highlighting areas of uncertainty. These insights may be helpful in the planning of future research and to inform strategies for the prevention and management of mpox among PWH, particularly those with advanced or uncontrolled HIV.
Full article
(This article belongs to the Special Issue Mpox (Monkeypox): From Neglected Tropical Disease to Emerging Global Pathogen)
Open AccessArticle
Viral Respiratory Infections in Djibouti: Insights from Two Years of Pilot Surveillance
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Hamda Omar Assoweh, Mohamed Houmed Aboubaker, Mamadou Malado Jallow, Sahal Darar Dirir, Issa Gnasse, Filsan Daher Aouled, Daouda Diallo, Amina Ahmed Ibrahim, Ndaraw Diack, Mouchtak Nabil Ahmed, Ndongo Dia and Makhtar Camara
Viruses 2025, 17(12), 1525; https://doi.org/10.3390/v17121525 - 21 Nov 2025
Abstract
Viral respiratory infections (VRIs) remain a leading cause of global morbidity and mortality. In Djibouti, diagnostic capacity for respiratory viruses is extremely limited, and little is known about the epidemiology of VRIs in the country. To address this gap, we conducted a prospective
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Viral respiratory infections (VRIs) remain a leading cause of global morbidity and mortality. In Djibouti, diagnostic capacity for respiratory viruses is extremely limited, and little is known about the epidemiology of VRIs in the country. To address this gap, we conducted a prospective study aimed at monitoring and describing the epidemiological and virological features of VRIs over a two-year period in Djibouti. The study was carried out between January 2023 and December 2024 in seven healthcare centers. Nasopharyngeal and/or oropharyngeal swabs were collected from consenting patients presenting with influenza-like illness (ILI) or acute respiratory infections (ARI). VRIs were diagnosed using a multiplex real-time reverse transcription polymerase chain reaction (rRT-PCR) assay targeting 16 respiratory viruses. Among the 647 samples tested, at least one respiratory virus was detected in 133 (20.6%). Influenza (6.6%), rhinovirus (5.9%), and SARS-CoV-2 (3.4%) were the most frequently detected pathogens. Adult aged 26–50 years (40.8%) were the most affected, followed by those aged 15–25 years (30.4%). None of the respiratory viruses displayed a clear seasonal pattern. These findings demonstrate the co-circulation of multiple respiratory viruses among ILI/ARI patients in Djibouti and provide the first baseline data to inform national surveillance strategies. The results underscore the need to strengthen routine laboratory-based surveillance, enhance diagnostic capacity, and integrate molecular monitoring into national public health policies for better preparedness against emerging respiratory threats.
Full article
(This article belongs to the Section Human Virology and Viral Diseases)
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Open AccessArticle
Pathogenesis and Transmissibility of Middle East Respiratory Syndrome Coronaviruses of African Origin in Alpacas
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Richard A. Bowen, Airn Hartwig, Anneliese Bruening, Audrey Walker and Malik Peiris
Viruses 2025, 17(11), 1524; https://doi.org/10.3390/v17111524 - 20 Nov 2025
Abstract
The Middle East respiratory syndrome coronavirus (MERS-CoV) remains a highly significant threat to global public health. Dromedary camels are the zoonotic source of human infection. All cases of zoonotic Middle East respiratory syndrome (MERS) have occurred in Middle Eastern countries despite MERS-CoV infection
[...] Read more.
The Middle East respiratory syndrome coronavirus (MERS-CoV) remains a highly significant threat to global public health. Dromedary camels are the zoonotic source of human infection. All cases of zoonotic Middle East respiratory syndrome (MERS) have occurred in Middle Eastern countries despite MERS-CoV infection of camels being widespread in Africa. This disparity in the geographic burden of the disease may be due to genomic differences between MERS-CoV circulating in Middle Eastern countries (clades A and B) versus those infecting camels in Africa (clade C), although the precise genetic determinants of virulence remain to be elucidated. The objective of the studies reported here was to evaluate differences in the magnitude of virus shedding and in transmissibility of clades A/B and C viruses using alpacas as a surrogate for dromedary camels. We found that two of three African-origin, clade C strains of MERS-CoV induced very reduced levels of virus shedding and were transmitted inefficiently to contact control animals as compared to one other clade C virus and representative viruses from clade A and B. Lower virus titers in the nasopharynx may be associated with lower zoonotic transmission and human disease severity and may explain the observed epidemiology of MERS-CoV in Africa where zoonotic disease appears rare. These results add to our understanding of the transmission of different lineages of MERS CoV in camelids and zoonotic transmission.
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(This article belongs to the Section Coronaviruses)
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Open AccessArticle
Epstein–Barr Virus Load in the Saliva of Patients with Oropharyngeal Cancer—Could It Have Prognostic Significance?
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Karol Paradowski, Magdalena Góralczyk, Bartłomiej Drop, Mirosław Jarosz and Małgorzata Polz-Dacewicz
Viruses 2025, 17(11), 1523; https://doi.org/10.3390/v17111523 - 20 Nov 2025
Abstract
The discovery of EBV over 60 years ago was a breakthrough in understanding the development of many cancers, including head and neck cancers, but many processes remain to be explained. Scientists, looking for new biomarkers, have recently been paying a lot of attention
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The discovery of EBV over 60 years ago was a breakthrough in understanding the development of many cancers, including head and neck cancers, but many processes remain to be explained. Scientists, looking for new biomarkers, have recently been paying a lot of attention to salivary EBV DNA load. Oral EBV DNA load may indicate not only EBV lytic replication activity but also potentially correlate with EBV-related disease progression. Numerous studies indicate that saliva may be an alternative clinical material for both early diagnosis and prognosis of head and neck cancer (HNC). Therefore, we assessed salivary EBV DNA in oropharyngeal cancer patients (OPSCC). We observed that the EBV DNA level was higher in the group of EBV-positive OPSCC than in EBV-negative subjects and was also higher in more advanced clinical stages. In addition, the salivary EBV DNA load was positively correlated with the concentration of anti-EBV antibodies, MMP3, MMP9, and NF-κB. The ROC analysis confirmed the diagnostic accuracy of salivary EBV DNA load. Our preliminary results indicate the usefulness of determining EBV DNA load in saliva as a non-invasive prognostic biomarker in EBV-positive oropharyngeal cancer, but confirmation in larger cohort studies is required.
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(This article belongs to the Special Issue Molecular Biomarkers for Viral Infection)
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Open AccessArticle
Development of a Mass Antiviral Screening System Using Viral Hemorrhagic Septicemia Virus as an RNA Surrogate and Activity Confirmation with a Fish Rhabdovirus
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Ji Woo Shin, Su Yeon Kim, Min Jeong Kim, Taek-Kyun Lee and Tae-Jin Choi
Viruses 2025, 17(11), 1522; https://doi.org/10.3390/v17111522 - 20 Nov 2025
Abstract
With emerging viruses and drug resistance on the rise, the discovery and development of innovative antiviral substances and agents are necessary for the effective treatment and control of viral outbreaks. Surrogate viruses are safer alternatives used in research to mimic dangerous or hard-to-culture
[...] Read more.
With emerging viruses and drug resistance on the rise, the discovery and development of innovative antiviral substances and agents are necessary for the effective treatment and control of viral outbreaks. Surrogate viruses are safer alternatives used in research to mimic dangerous or hard-to-culture viruses. They enable efficient, ethical, and cost-effective screening of antiviral compounds. In this study, we used a recombinant viral hemorrhagic septicemia virus (rVHSV) expressing enhanced green fluorescent protein as a surrogate for RNA viruses for the high-throughput screening of antiviral agents. An optimized mixture of viruses and EPC host cells was distributed in 96-well plates containing chemical compounds or plant extracts for screening. Using this system, 44,642 chemical compounds and 8104 plant and marine organism extracts were tested; 140 candidates were selected from primary screening, and 8 compounds and 5 plant extracts were further selected based on the selectivity index (SI), representing the ratio of the cytotoxic concentration (CC50) to the inhibition concentration (IC50). Among these, compound 3, which had the highest SI value of 1046, was further tested, considering in vitro activity against VHSV and another fish rhabdovirus, snakehead rhabdovirus (SHRV).
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(This article belongs to the Section Viral Immunology, Vaccines, and Antivirals)
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Open AccessArticle
Five Years of COVID-19 in Tocantins, Brazil: Epidemiology, Vaccination Impact, and SARS-CoV-2 Genomic Dynamics (2020–2025)
by
Olivia de Souza da Conceição, Ueric José Borges de Souza, Franciano Dias Pereira Cardoso, Evgeni Evgeniev Gabev, Bergmann Morais Ribeiro, Gil Rodrigues dos Santos, Renisson Neponuceno de Araújo Filho, Marcos Gontijo da Silva, Fernando Rosado Spilki and Fabrício Souza Campos
Viruses 2025, 17(11), 1521; https://doi.org/10.3390/v17111521 - 20 Nov 2025
Abstract
The coronavirus disease 2019 (COVID-19) pandemic in Tocantins, Brazil, exhibited distinct phases between 2020 and 2025, with high mortality concentrated in 2020–2021 and subsequent stabilization at residual levels. Using epidemiological data, statistical modeling, and genomic surveillance, we show that the crisis peaked in
[...] Read more.
The coronavirus disease 2019 (COVID-19) pandemic in Tocantins, Brazil, exhibited distinct phases between 2020 and 2025, with high mortality concentrated in 2020–2021 and subsequent stabilization at residual levels. Using epidemiological data, statistical modeling, and genomic surveillance, we show that the crisis peaked in 2021, coinciding with the circulation of Gamma and Delta, when health system capacity was severely strained. From 2022 onwards, the spread of Omicron led to record incidence but proportionally low mortality, reflecting accumulated immunity, vaccination, and improved clinical management. Vaccination represented the turning point, reducing hospitalizations and deaths by over 90% and driving a clear decoupling between incidence and severity. Interrupted time-series and generalized additive model (GAM) analyses confirmed sustained reductions in transmission and severity associated with mass immunization. Genomic sequencing of 3941 severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) genomes identified 166 lineages and successive variant replacements, culminating in the predominance of LP.8.1.4 in 2025. To our knowledge, this is one of the few integrated, long-term analyses (2020–2025) combining epidemiological and genomic data, capturing the full succession of variants up to LP.8.1.4 and highlighting Tocantins as a strategic “variant corridor” linking Brazil’s North and Central-West regions. These findings underscore the dual role of vaccination and genomic surveillance in shaping the epidemic trajectory and the importance of sustaining both strategies to mitigate future health crises.
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(This article belongs to the Section Coronaviruses)
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Open AccessCorrection
Correction: Agundis-Tinajero et al. Deep Learning-Based Automatic Segmentation and Analysis of Mitochondrial Damage by Zika Virus and SARS-CoV-2. Viruses 2025, 17, 1272
by
Brianda Alexia Agundis-Tinajero, Miguel Ángel Coronado-Ipiña, Ignacio Lara-Hernández, Rodrigo Aparicio-Antonio, Anita Aguirre-Barbosa, Gisela Barrera-Badillo, Nidia Aréchiga-Ceballos, Irma López-Martínez, Claudia G Castillo, Vanessa Labrada-Martagón, Mauricio Comas-García and Aldo Rodrigo Mejía-Rodríguez
Viruses 2025, 17(11), 1520; https://doi.org/10.3390/v17111520 - 20 Nov 2025
Abstract
In the original publication [1], Figure 1b was previously published by the authors in the PLoS One, but the citation (reference 14) was inadvertently omitted [...]
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Open AccessObituary
Tribute to Philippe Gasque (1966–2024): From Complement Biology to Alphavirus Pathogenesis and Chikungunya Research
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Wildriss Viranaïcken, Gregorie Lebeau, Hoarau Jean-Jacques and Pascale Krejbich-Trotot
Viruses 2025, 17(11), 1519; https://doi.org/10.3390/v17111519 - 20 Nov 2025
Abstract
The passing of Professor Philippe Gasque on 11 July 2024 marked the loss of a prominent figure in immunology and infectious disease research [...]
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(This article belongs to the Section General Virology)
Open AccessArticle
Isolation and Characterization of a Novel Thermostable Bacteriophage Targeting Multi-Drug-Resistant Salmonella Enteritidis
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Salman A. Almashtoub, Gabriel H. Fares, Tasnime A. Abdo Ahmad, Sara Barada, Ahmad Turk, Dayana Shoukair, Ghassan M. Matar and Esber S. Saba
Viruses 2025, 17(11), 1518; https://doi.org/10.3390/v17111518 - 19 Nov 2025
Abstract
(1) Background: The emergence of multidrug-resistant (MDR) Salmonella enterica poses a major threat to global public health, underscoring the urgent need for alternative therapeutic strategies. Bacteriophages represent a promising alternative due to their high specificity and potent ability to lyse MDR strains. (2)
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(1) Background: The emergence of multidrug-resistant (MDR) Salmonella enterica poses a major threat to global public health, underscoring the urgent need for alternative therapeutic strategies. Bacteriophages represent a promising alternative due to their high specificity and potent ability to lyse MDR strains. (2) Methods: In this study, we isolated a novel MDR Salmonella Enteritidis-targeting bacteriophage from Lebanese sewage and characterized its host range, thermal and pH stability, and infection dynamics. Whole-genome sequencing was performed using Illumina technology to determine its genetic features and taxonomic classification. (3) Results: the bacteriophage was classified within the genus Jerseyvirus and the class Caudoviricetes with a 43 kb dsDNA genome encoding 66 open reading frames (ORFs). It demonstrated remarkable thermal stability, retaining infectivity after prolonged incubation at 65 °C, and showed a broad host range. The phage formed large, clear plaques, displayed rapid adsorption (>97% within 3 min), a short latent period (20 min), and a burst size of ~32 PFU per cell. Genome analysis revealed no lysogeny, virulence, or resistance genes, confirming its strictly lytic nature and supporting its potential use as a biocontrol agent. (4) Conclusions: These findings identify SA01 as a novel, strictly lytic, and thermally stable bacteriophage with strong potential as a biocontrol agent against multidrug-resistant Salmonella Enteritidis. Its broad host range suggests potential activity also against other Salmonella enterica serovars, supporting its applicability in food safety and biotechnology.
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(This article belongs to the Special Issue Dual Nature of Bacteriophages: Friends or Enemies in Food Industry?)
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Open AccessArticle
Cytokine and Antibody Isotype Responses in Vaccinated Healthcare Workers with SARS-CoV-2 Breakthrough Infections
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Miguel Ángel Fernández-Rojas, Tanya Plett-Torres, Guillermina Ávila, Mirza Romero-Valdovinos, Ana María Salazar, Monserrat Sordo, Mariana Chávez-Vargas, Cesar Josué Coeto Ángeles, Mayra Cruz-Rivera, Carlos Santiago-Olivares, Juan Pablo Ramírez Hinojosa, Pablo Maravilla, Patricia Ostrosky-Wegman, Fela Mendlovic and Ana Flisser
Viruses 2025, 17(11), 1517; https://doi.org/10.3390/v17111517 - 19 Nov 2025
Abstract
Background: Healthcare workers (HCWs) are at high risk of breakthrough SARS-CoV-2 infections despite complete vaccination schedules. There are gaps in our understanding of the specific antibody isotypes and cytokine profiles produced during an infection following vaccination. In this study, we evaluated SARS-CoV-2−
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Background: Healthcare workers (HCWs) are at high risk of breakthrough SARS-CoV-2 infections despite complete vaccination schedules. There are gaps in our understanding of the specific antibody isotypes and cytokine profiles produced during an infection following vaccination. In this study, we evaluated SARS-CoV-2−specific antibody isotypes and their association with cytokine production in HCWs with breakthrough infections. Methods: Serum samples from 114 HCWs were analyzed for antibody isotypes against the nucleoprotein (NCP) and the receptor binding domain (RBD) of the spike protein, as well as for a panel of 13 cytokines. Results: Vaccinated SARS-CoV-2+ HCWs showed a higher prevalence of anti-SARS-CoV-2 antibodies against NCP (IgM = 93.8%, IgG = 93.8%, IgA = 28.1%) and RBD (IgM = 46.9%, IgG = 100%, IgA = 90.6%). A specific IgM response to NCP was more frequent in vaccinated SARS-CoV-2+ individuals, whereas IgA responses were predominantly specific for RBD. Both pro- and anti-inflammatory cytokines were elevated in vaccinated HCWs with breakthrough infections compared with unvaccinated and uninfected individuals. Interestingly, infected IgG+ HCWs with IgM specific for both NCP and RBD exhibited significantly higher IL-8, IL-6, TNF-α, IFN-γ, IL-2, IL-10, and TGF-β concentrations. Conclusion. Our data show that breakthrough infections in vaccinated HCWs induce a robust pro-and anti-inflammatory cytokine profile, which is associated with a broader IgM response directed against both NCP and RBD.
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(This article belongs to the Special Issue Coronaviruses Pathogenesis, Immunity, and Antivirals (2nd Edition))
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Open AccessArticle
Network Dynamics and Evolutionary Drivers of HIV Drug Resistance in Eastern China, from 2022 to 2024
by
Dongqing Cao, Hui Xing, Yi Feng, Jiafeng Zhang, Liangkang Zhou, Zhuojing Jiang, Jinkun Chen and Tingting He
Viruses 2025, 17(11), 1516; https://doi.org/10.3390/v17111516 - 19 Nov 2025
Abstract
The increasing prevalence of HIV drug resistance poses a significant challenge. This study aimed to investigate the epidemiological dynamics and molecular characteristics of pretreatment drug resistance (PDR) and acquired drug resistance in Shaoxing, Eastern China. Methods: From 2022 to 2024, 571 newly diagnosed
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The increasing prevalence of HIV drug resistance poses a significant challenge. This study aimed to investigate the epidemiological dynamics and molecular characteristics of pretreatment drug resistance (PDR) and acquired drug resistance in Shaoxing, Eastern China. Methods: From 2022 to 2024, 571 newly diagnosed HIV-infected individuals and 119 individuals with antiretroviral treatment failure were enrolled. Molecular transmission networks and Bayesian analysis were employed to identify key drug-resistant clusters and trace their origins. Results: The overall PDR prevalence was 14.4% (85/571). PDR to non-nucleoside reverse transcriptase inhibitors (NNRTIs) was 9.8% (56/571), significantly higher than to NRTIs (1.1%, 6/571) and PIs (3.7%, 21/571) (χ2 = 50.014, p < 0.001). Molecular network analysis identified large clusters harboring K103N and Q58E resistance mutations within the CRF07_BC subtype. Bayesian analysis estimated their introduction into Shaoxing from Guangdong Province around 2016 and 2017, respectively. Integrated network analysis revealed close linkages between virological failure and newly diagnosed cases, highlighting the role of treatment failure in resistance transmission. Conclusion: Targeted interventions against specific subtypes and transmission clusters, alongside continuous resistance surveillance, are essential to curb the spread of drug-resistant HIV and optimize ART regimens.
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(This article belongs to the Special Issue Molecular Insights into HIV-1 Infection)
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Open AccessArticle
West Nile Virus Pilot Screening in Field-Collected Aedes japonicus (Theobald, 1901): An Update of Species Distribution in Poland, 2025
by
Paweł Niemiec, Jowita Samanta Niczyporuk, Wojciech Kozdruń, Agnieszka Stolarek, Łukasz Mielczarek, Kamil Słomczyński, Kacper Barszcz, Paweł Kuziora, Grzegorz Jarosiewicz, Alicja Jarosz, Andrzej Józef Woźnica, Grzegorz Zaleśny, Mariusz Gwardjan, Gabriela Ochała-Gierek and Marcin Gierek
Viruses 2025, 17(11), 1515; https://doi.org/10.3390/v17111515 - 19 Nov 2025
Abstract
(1) Background: The Asian bush mosquito Aedes japonicus is an invasive species in Europe, including Poland. Given its laboratory-confirmed competence for West Nile virus (WNV) transmission and its detection as a WNV vector in field-collected mosquitoes, this study investigated whether Polish Aedes japonicus
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(1) Background: The Asian bush mosquito Aedes japonicus is an invasive species in Europe, including Poland. Given its laboratory-confirmed competence for West Nile virus (WNV) transmission and its detection as a WNV vector in field-collected mosquitoes, this study investigated whether Polish Aedes japonicus harbor WNV and aimed to update knowledge on its distribution in Poland. (2) Methods: In September 2024, 137 adult Aedes japonicus were collected from three suburban sites in Poland (Kielce, Mikołów, Kraków). Specimens were screened for WNV using RT-PCR and rRT-PCR. Additionally, unpublished records of Aedes japonicus were compiled to update the species’ distribution. (3) Results: No WNV genetic material was detected in field-collected mosquitoes in Poland. By 2025, Aedes japonicus had been recorded in half of Polish voivodeships, with most observations in Małopolskie, Śląskie, and Łódzkie. The largest adult populations occurred in Kielce. Ecological traits in Poland matched European and US data, including larval development in artificial containers, preference for suburban and forested habitats, and peak adult activity in late summer. (4) Conclusions: Although WNV was not detected, the rapid spread of Aedes japonicus in Poland underlines the need for continued monitoring of its distribution, population dynamics, and potential role in WNV transmission.
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(This article belongs to the Section Human Virology and Viral Diseases)
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Antenatal Screening for HTLV-1 and -2 Among Pregnant Women in Grenada: Combined Seroprevalence, Trends, and Public Health Implications (2015–2024)
by
Sherry-Ann N. Joseph, Christine Richards, Yusuf Yakubu, Achut Malur and Tonia Frame
Viruses 2025, 17(11), 1514; https://doi.org/10.3390/v17111514 - 19 Nov 2025
Abstract
The prevalence of Human T-cell Lymphotropic Virus (HTLV) infections in Grenada has not been published since 2013. This study aimed to determine the combined seroprevalence and trends in HTLV-1 and HTLV-2 among pregnant women in Grenada from 2015 to 2024. Data were analyzed
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The prevalence of Human T-cell Lymphotropic Virus (HTLV) infections in Grenada has not been published since 2013. This study aimed to determine the combined seroprevalence and trends in HTLV-1 and HTLV-2 among pregnant women in Grenada from 2015 to 2024. Data were analyzed to determine the overall combined seroprevalence, observed trends, and public health implications over time. Data obtained from the Ministry of Health, Grenada, were analyzed to determine and compare the annual combined seroprevalence rate and the prevalence by age group and by health district during 2015–2024. Every pregnant woman included in the analysis was tested for HTLV-1 and -2 at the government’s public laboratories in Grenada. The overall rate of infection among persons tested was 1.45%. The highest prevalence of infection was among the 40+ (mature) age group. A significant association was found between HTLV infection and the mature age group (ϰ2 = 7.981, p = 0.017, OR = 2.6, 95% CI: 1.1559–5.7122). Pregnant women aged 40 years and over are 2.6 times more at risk of infection compared to pregnant adolescents. Trends were also observed by health district, in which the prevalence rate was the highest in St. Patrick (2.18%) and the lowest in St. George (0.95%). Although there were no statistically significant associations observed between HTLV and the COVID-19 pandemic, there is a need for further research to understand the impact of emergencies on HTLV screening and prevalence. Further studies are also needed to identify factors and modes of HTLV transmission. Overall, these findings underscore the importance of targeted surveillance and tailored interventions to address HTLV transmission risks and protect population health in Grenada.
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(This article belongs to the Special Issue HIV and HTLV Infections and Coinfections)
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Leveraging Classical Virology and High Throughput Sequencing for Viral Discovery Using a Historical Viral Collection
by
Mark Sistrom, Matthew Neave, Ancy Joseph, Kim Newberry, Hannah Andrews, Cathy Shilton, Vidya Bhardwaj and Richard Weir
Viruses 2025, 17(11), 1513; https://doi.org/10.3390/v17111513 - 18 Nov 2025
Abstract
Northern Australia has long been a hotbed of arboviral discovery, and collections of viral isolates from Northern Australia represent an invaluable resource for both our knowledge of viral diversity and for disease preparedness and treatment. While discovery of novel viruses via classical virology
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Northern Australia has long been a hotbed of arboviral discovery, and collections of viral isolates from Northern Australia represent an invaluable resource for both our knowledge of viral diversity and for disease preparedness and treatment. While discovery of novel viruses via classical virology methods is on the decline, next generation sequencing offers the possibility to speed up viral discovery, albeit at the expense of the collection of valuable life history data. By sequencing unknown isolates from historical viral collections, we may leverage both the rich data collected through classical virology and the power of identification using contemporary sequencing technologies. In the present study, we sequenced 76 historical viral isolates held at the Berrimah Veterinary Laboratory in Darwin, northern Australia, for which serological typing had yielded ambiguous results. We determined that 43 of these isolates belong to the genera Hapavirus, Orbivirus, and Orthobunyavirus. Several of these isolates are putatively novel genotypes or potential taxa, which has significant potential implications for human and animal health. This study demonstrates the utility of historical collections for viral discovery and characterisation and how considerable past efforts to isolate and characterise viruses can be enhanced using next generation sequencing approaches.
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(This article belongs to the Section General Virology)
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