Wednesday, March 4, 2026

Mechanism of co-transcriptional cap snatching by #influenza #polymerase

 


Abstract

Influenza virus mRNAs are stable and competent for nuclear export and translation because they receive a 5′ cap(1) structure in a process called cap snatching1. During cap snatching, the viral RNA-dependent RNA polymerase (FluPol) binds to host RNA polymerase II (Pol II) and the emerging transcript2,3. The FluPol endonuclease then cleaves a capped RNA fragment that subsequently acts as a primer for the transcription of viral genes4,5. Here we present the cryogenic electron microscopy structure of FluPol bound to a transcribing Pol II in complex with the elongation factor DSIF in the pre-cleavage state. The structure shows that FluPol directly interacts with both Pol II and DSIF, positioning the FluPol endonuclease domain near the RNA exit channel of Pol II. These interactions are important for the endonuclease activity of FluPol and FluPol activity in cells. A second structure, trapped after cap snatching, shows that the cleaved capped RNA rearranges within FluPol, directing the capped RNA 3′ end toward the FluPol polymerase active site for viral transcription initiation. Together, our results provide the molecular mechanisms of co-transcriptional cap snatching by FluPol.

Source: 


Link: https://www.nature.com/articles/s41586-026-10189-0

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#India - High pathogenicity avian #influenza #H5N1 viruses (Inf. with) (#poultry) - Immediate notification

 


A poultry farm in Bihar State.

Source: 


Link: https://wahis.woah.org/#/in-review/7319

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Tuesday, March 3, 2026

#MERS #Coronavirus–Specific T-Cell Responses in Dromedary #Camel #Abattoir #Workers in #Nigeria Suggests Frequent Zoonotic #Spillover

 


Abstract

Middle East respiratory syndrome coronavirus (MERS-CoV) is assessed to have high pandemic risk, and dromedary camels are the source of zoonotic spillover. More than 75% of MERS-CoV–infected dromedary camels are found in Africa, but no zoonotic disease has been reported from Africa where there is little awareness of MERS-CoV as a potential cause of respiratory disease. Antibody responses are a poor indicator of mild infection. We found that 47 of 60 (78%) dromedary camel abattoir workers in Kano, Nigeria, had MERS-CoV–specific T-cell responses while none of 18 controls did, suggesting that zoonotic infection is common in camel-exposed individuals in Africa.

Source: 


Link: https://academic.oup.com/jid/advance-article-abstract/doi/10.1093/infdis/jiag095/8504072?redirectedFrom=fulltext

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Fatal #human #H3N8 #influenza virus has a moderate #pandemic #risk

 


Abstract

In China, low pathogenic avian influenza (LPAI) H3N8 virus is widespread among chickens and has recently caused three zoonotic infections, with the last one in 2023 being fatal. Here we evaluated the relative pandemic risk of this 2023 zoonotic H3N8 influenza virus, utilizing our previously published decision tree. Serological analysis indicated that a large proportion of the human population does not have any cross-neutralizing antibodies against this H3N8 strain. LPAI H3N8 displayed a dual affinity for α2–3 and α2–6 sialic acids and replicated efficiently in human bronchial epithelial cells. Furthermore, we observed H3N8 transmission via direct contact but not aerosols to ferrets with pre-existing H3N2 immunity. Although pre-existing H3N2 immunity resulted in a shortened disease course in ferrets, it did not reduce disease severity or replication in the respiratory tract. This study suggests that this zoonotic H3N8 strain has moderate pandemic potential and emphasizes the continued need for avian influenza surveillance.


Author summary

Low pathogenic avian influenza (LPAI) viruses circulate widely amongst birds and are a major public health concern for their ability to cross over to other species, including humans. Here we characterize the pandemic potential of an H3N8 LPAI virus that caused a lethal human infection. While this strain was only able to transmit by direct contact, we found that it did exhibit some human adaptations, and pre-existing immunity did not reduce replication or pathogenesis, suggesting that it is a moderate pandemic risk and needs to be monitored given the potential public health threat.

Source: 


Link: https://journals.plos.org/plospathogens/article?id=10.1371/journal.ppat.1013586

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Potent efficacy of an NA-targeting #antibody against a broad spectrum of #H5N1 #influenza viruses

 


Abstract

For nearly 30 years, Goose/Guangdong-derived highly pathogenic avian influenza H5N1 viruses have posed significant risks to economic stability, food security, and public health. Virus evolution has resulted in various clades, including the panzootic subclade 2.3.4.4b, recognized for its pandemic potential. Here we present the potent in vitro activity of FNI9, a pan-influenza NA-inhibiting monoclonal antibody, against a range of pseudoparticles with NA spanning decades of H5N1 virus evolution. FNI9 also shows strong prophylactic protection in female mice against lethal challenges with H5N1 from clade 1 and 2.3.4.4b. Cryo-EM and molecular dynamics analysis reveal that FNI9 binds to 7 highly conserved H5N1 NA residues (R118, E119, D151, E228, E278, R293, and R368). In silico evolutionary escape profiling and machine learning predict low escapability, high fitness costs, and minimal spread likelihood for viral mutations that evade FNI9 binding. These findings support FNI9 broad protection and underscore the NA role in future influenza vaccine design.

Source: 


Link: https://www.nature.com/articles/s41467-026-70036-8

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Monday, March 2, 2026

#Vietnam - High pathogenicity avian #influenza #H5N1 viruses (Inf. with) (#poultry) - Immediate notification



Backyard poultry in Hà Tĩnh and Đắk Lắk Regions.

Source: 


Link: https://wahis.woah.org/#/in-review/7272

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Sunday, March 1, 2026

Guernica, Pablo Picasso (1937, murales inspired by the original work)

 


Di Papamanila - Fotografia autoprodotta, CC BY-SA 3.0, https://commons.wikimedia.org/w/index.php?curid=9469068

Source: 


Link: https://it.wikipedia.org/wiki/Guernica_(Picasso)

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Unveiling the #epitope #repertoires and protective roles of #MERS-CoV-specific T cells in mice

 


Highlights

• MERS-CoV structural proteins and ORFs potently induce T cell responses in mice

• MERS-CoV-specific T cell epitope repertoires are identified in C57BL/6 and BALB/c mice

• Airway ORF4b208-CD4+ and ORF5167-CD8+ T cells are optimal effector T cells

• ORF4b208 and ORF5167-specific T cells protect mice against MERS-CoV infection


Summary

Since its initial emergence in 2012, MERS-CoV has remained endemic and a global health threat. While accessory proteins (ORFs) are known for immune evasion, their role in adaptive immunity is unexplored. This study systematically investigated T cell responses against MERS-CoV ORFs. We mapped epitope repertoires targeting structural proteins and ORFs in C57BL/6 and BALB/c mice, revealing that ORFs potently induced virus-specific T cells. Notably, ORF5 induced the dominant CD8+ T cell responses in BALB/c mice. Further analysis revealed that ORF4b208-specific CD4+ and ORF5167-specific CD8+ T cells in the respiratory tract exhibited polyfunctional cytokine profiles, high antigen sensitivity, and potent in vivo cytotoxicity. These specific T cells played protective roles during MERS-CoV infection by promoting viral clearance. Collectively, this study identified MERS-CoV-specific T cell epitopes and elucidated the roles of ORF4b- and ORF5-specific T cells, enhancing our understanding of anti-MERS-CoV T cell responses and advancing vaccine design strategies against MERS-CoV.

Source: 


Link: https://www.cell.com/cell-reports/fulltext/S2211-1247(26)00121-X?_returnURL=https%3A%2F%2Flinkinghub.elsevier.com%2Fretrieve%2Fpii%2FS221112472600121X%3Fshowall%3Dtrue

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Saturday, February 28, 2026

#Development and Characterization of Candidate #Vaccine #Viruses against High Pathogenicity Avian #Influenza #H5 Viruses for Rapid #Pandemic Response

 


Abstract

High pathogenicity avian influenza A(H5) viruses pose a pandemic threat. These viruses have rapidly evolved in birds and frequently crossed species barriers, resulting in over 1,000 confirmed human infections, with a case fatality proportion of approximately 50%. In response, the U.S. CDC has developed dozens of A(H5) candidate vaccine viruses (CVVs) over the past two decades, primarily targeting clades known to infect humans. This report summarizes the development and characterization of the CVVs, with a particular focus on their antigenic relationships with clades 2.3.2.1e and 2.3.4.4b A(H5N1) viruses, which have been responsible for the majority of recent human infections.

Source: 


Link: https://academic.oup.com/jid/advance-article/doi/10.1093/infdis/jiag132/8502029

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#Coronavirus Disease Research #References (by AMEDEO, Feb. 28 '26)

 


    Am J Respir Crit Care Med

  1. MENDEZ R, Gonzalez-Jimenez P, Latorre A, Piqueras M, et al
    The Long-term Pneumonia Mortality Index. An International Multicenter Derivation and Validation Study for Patients with Community-Acquired Pneumonia.
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    PubMed         Abstract available

  2. GAERTNER VD, Ramin-Wright L, Waldmann AD, Belting C, et al
    The first breaths after birth-early lung function in healthy term infants.
    Am J Respir Crit Care Med. 2026 Jan 30:aamag008. doi: 10.1093.
    PubMed         Abstract available


    Ann Intern Med

  3. QASEEM A, Obley AJ, Harrod CS, Wilt TJ, et al
    COVID-19 Vaccines for 2025-2026 in Adults Who Are Not Pregnant or Immunocompromised: Rapid Practice Points From the American College of Physicians.
    Ann Intern Med. 2026 Feb 24. doi: 10.7326/ANNALS-25-05026.
    PubMed         Abstract available


  4. Annals Video Summary - COVID-19 Vaccines in Adults Who Are Not Pregnant or Immunocompromised.
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    PubMed        


  5. Summary for Patients: COVID-19 Vaccines for 2025-2026.
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    PubMed        

  6. DOBRESCU A, Pinte L, Sharifan A, Gadinger A, et al
    Effectiveness, Comparative Effectiveness, and Harms of COVID-19 Vaccines in Adults Who Are Not Pregnant or Immunocompromised: A Rapid Review for the American College of Physicians.
    Ann Intern Med. 2026 Feb 24. doi: 10.7326/ANNALS-25-05044.
    PubMed         Abstract available


    Antiviral Res

  7. ZHANG T, Wang ZL, Li XY, Luo RH, et al
    Onvansertib and vilazodone inhibit SARS-CoV-2 replication via suppression of METTL3 RNA-m(6)A enzymatic activity.
    Antiviral Res. 2026 Feb 19:106376. doi: 10.1016/j.antiviral.2026.106376.
    PubMed         Abstract available


    Clin Infect Dis

  8. NELLORE A, Bajema K, Belden K, Blumberg D, et al
    IDSA 2025 Guidelines on the use of vaccines for the prevention of seasonal COVID-19 infections in immunocompromised patients.
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    PubMed         Abstract available


    Int J Infect Dis

  9. ALVES COSTA SILVA C, Pinheiro Bomfim A, Dutra Medeiros J, de Jesus Silva J, et al
    Corrigendum to "Nasal microbiota and clinical features in acute flu-like illness: COVID-19 status and long COVID follow-up" [International Journal of Infectious Diseases 162 (2026) 108196 https://doi.org/10.1016/j.ijid.2025.108196].
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    PubMed        


    J Infect

  10. ORDONEZ-MENA JM, Radin JM, Hoang U, Araujo AB, et al
    Epidemiology of virologically confirmed RSV, influenza and COVID-19 in adults in England, 2023-2024: Primary Care Observational Study of Acute Respiratory Infection (ObservatARI).
    J Infect. 2026 Feb 21:106714. doi: 10.1016/j.jinf.2026.106714.
    PubMed         Abstract available


    J Med Virol

  11. PHUONG LE UN, Chou RH, Lin CS, Lai HC, et al
    SARS-CoV-2 Main Protease Activates ERK1/2 Signaling to Facilitate MEG2-STAT3-Mediated Suppression of ACE2.
    J Med Virol. 2026;98:e70855.
    PubMed         Abstract available


  12. EXPRESSION OF CONCERN: The Emergence, Spread and Vanishing of a French SARS-CoV-2 Variant Exemplifies the Fate of RNA Virus Epidemics and Obeys the Mistigri Rule.
    J Med Virol. 2026;98:e70842.
    PubMed        


    J Virol

  13. NOORUZZAMAN M, Butt SL, Rani R, Ye C, et al
    The ORF6 accessory protein contributes to SARS-CoV-2 virulence and pathogenicity in the naturally susceptible feline model of infection.
    J Virol. 2026 Feb 27:e0064425. doi: 10.1128/jvi.00644.
    PubMed         Abstract available


    Nature

  14. VENTER M, Manuguerra JC, Watson JM, Fischer TK, et al
    COVID's origins: what we do and don't know.
    Nature. 2026;650:829-833.
    PubMed        

#Influenza and Other Respiratory Viruses Research #References (by AMEDEO, Feb. 28 '26)

 


    Arch Virol

  1. KOBAYASHI D, Hiono T, Adachi R, Igarashi M, et al
    Length and density of alpha2-3 sialyllactose-containing chains on glycopolymers determine receptor binding of avian influenza viruses.
    Arch Virol. 2026;171:100.
    PubMed        

  2. PARK SH, Lee SH, Seo YR, Kim DJ, et al
    Evolution and spread of H8Nx avian influenza viruses from wild birds in East Asia, 2019-2024.
    Arch Virol. 2026;171:95.
    PubMed         Abstract available

  3. NAVEED A
    The bovine mammary gland as a crucible for zoonotic influenza virus emergence: Receptor-mediated adaptation of HPAI H5N1 clade 2.3.4.4b.
    Arch Virol. 2026;171:89.
    PubMed        


    Biochem Biophys Res Commun

  4. SINGH VA, Nehul S, Saha A, Singh V, et al
    Bioengineered chimeric VLPs targeting chikungunya virus and SARS-CoV-2 show high immunogenicity in mice.
    Biochem Biophys Res Commun. 2026;805:153346.
    PubMed         Abstract available


    BMC Pediatr

  5. KARAKURT LT, Bozkurt HB, Uslu G, Bal F, et al
    Attitudes and behaviors of adolescents with asthma and their parents toward influenza and COVID-19 vaccination: barriers and facilitators of uptake.
    BMC Pediatr. 2026 Feb 26. doi: 10.1186/s12887-026-06575.
    PubMed        


    BMJ

  6. VANDVIK PO, Agarwal A, Rylance J, Agoritsas T, et al
    Summary of WHO clinical practice guidelines for influenza.
    BMJ. 2026;392:e087397.
    PubMed         Abstract available


    Drug Saf

  7. MORGAN HJ, Bloomfield L, Clothier HJ, Ngeh S, et al
    Statistical Methods for Multi-jurisdictional Australian Vaccine Safety Investigations of Rare Adverse Events.
    Drug Saf. 2026;49:353-365.
    PubMed         Abstract available


    Epidemiol Infect

  8. UNNIKRISHANAN R, Zhao Y, Burgess CP, Markey PG, et al
    Measuring the excess mortality during the COVID-19 pandemic in the Northern Territory, Australia.
    Epidemiol Infect. 2026;154:e26.
    PubMed         Abstract available


    J Gen Virol

  9. FARRELL ML, McGrath G, Cuartero LG, Barry G, et al
    Avian influenza in Ireland: a spatiotemporal, subtype and host-based analysis (1983-2024).
    J Gen Virol. 2026;107:002218.
    PubMed         Abstract available


    J Immunol

  10. APPS R, Polanco JJ, Lowman KE, Wang L, et al
    Leveraging optimized oligonucleotide-tagged antigen assemblies and single-cell sequencing for multiplexed proteogenomic profiling of human B cell reactivities.
    J Immunol. 2026;215:vkaf301.
    PubMed         Abstract available

  11. LOPEZ ZAPANA PA, Shook LL, Joughin BA, Jasset OJ, et al
    Maternal proteome profiling reveals dynamic gestational age-specific responses to de novo vaccination.
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  12. CONDE L, Oliveira DL, Maciel G, Castro F, et al
    Highly efficient and low-cost single-cell culture platform for unbiased analysis of human memory B cell repertoire and antibody discovery.
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    J Infect

  13. ORDONEZ-MENA JM, Radin JM, Hoang U, Araujo AB, et al
    Epidemiology of virologically confirmed RSV, influenza and COVID-19 in adults in England, 2023-2024: Primary Care Observational Study of Acute Respiratory Infection (ObservatARI).
    J Infect. 2026 Feb 21:106714. doi: 10.1016/j.jinf.2026.106714.
    PubMed         Abstract available


    PLoS One

  14. N'DIAYE A, Garrett C, Wilcox S, Olatosi B, et al
    Challenges, stressors, and resilience resources experienced by older black women in Rural South Carolina throughout the COVID-19 pandemic.
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    Association of G-Protein-Coupled Receptors autoantibodies with vasoregulation in Post-COVID.
    PLoS One. 2026;21:e0343264.
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    The synergistic interaction between ACE and TMPRSS2 polymorphisms increases the risk of severe COVID-19.
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    Maternal and neonatal outcomes following SARS-CoV-2 infection in an unvaccinated pregnant cohort: A trimester-specific analysis.
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    How to cope with Long COVID - A qualitative interview study on stressors and coping strategies of people affected by long-term consequences of COVID-19.
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    A dynamic model of COVID-19 infection quantifies the impact of preventive interventions on the infection of severely immunocompromised subjects in the United Kingdom.
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    Virology

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History of Mass Transportation: Baldwin Locomotive Works, 1896

 


By Horace L.Arnold - "Modern Machine-Shop Economics." in Engineering Magazine 11. 1896, Public Domain, https://commons.wikimedia.org/w/index.php?curid=36887873

Source: 


Link: https://en.wikipedia.org/wiki/Baldwin_Locomotive_Works

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#Genomic Characterization of the Index Case of #Human #Monkeypox Virus Infection in #Mali, 2025

 


Abstract

Mpox is a zoonosis caused by the monkeypox virus. Here, we report Mali’s index Mpox case, which was clinically identified at the Mali–Guinea border by the national telemedicine center and confirmed by PCR. The library prepared with NextGenPCR™ MPXV Sequencing Library Prep and sequenced on Minion MK1C revealed a genome length of 197,122 bp with an average depth of 1284.4×. The strain belonged to Clade IIb G1 lineage and exhibited 85 mutations relative to NC_063383.1. To decipher genomic epidemiology, genomes ≥ 195 kb were retrieved from NCBI and aligned with MAFFT. Time-resolved phylogenetic reconstruction and ancestral trait inference were performed with TreeTime v0.11.4. A median joining network was built with Popart v1.7. Phylogeographic analysis revealed clustering with Clade IIb (G.1 lineage) linked to the May 2025 outbreak in Sierra Leone.

Source: 


Link: https://www.mdpi.com/1999-4915/18/3/294

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Recommended #composition of #influenza virus #vaccines for use in the 2026 – 2027 northern hemisphere influenza season (#WHO, Feb. 27 '26)

 


February 2026 

WHO convenes technical consultations {1} in February and September each year to recommend viruses for inclusion in influenza vaccines {2} for the northern hemisphere (NH) and southern hemisphere (SH) influenza seasons, respectively. 

This recommendation relates to the influenza vaccines for use in the NH 2026-2027 influenza season

A recommendation will be made in September 2026 relating to vaccines that will be used for the SH 2027 influenza season. 

WHO guidance for choosing between the NH and SH formulations for countries in tropical and subtropical regions is available on the WHO Global Influenza Programme website {3}.  

National or regional authorities approve the composition and formulation of influenza vaccines used in each country. 

National public health authorities are responsible for making recommendations regarding the use of the vaccine. 

WHO has published recommendations on the prevention of influenza {4}.  


Seasonal influenza activity 

From September 2025 through January 2026, influenza activity was reported in all transmission zones

Overall influenza virus detections were higher compared to the same reporting period in 2024-2025 but peaked in December 2025 for this recent period compared to February 2025 for the previous period. 

During this reporting period, influenza A viruses predominated, although the proportion of virus detections varied among transmission zones. 

In Africa, influenza activity increased during the start of the reporting period, with a predominance of influenza A viruses in all transmission zones. 

In Eastern, Northern, and Western Africa, among subtyped influenza A viruses, A(H1N1)pdm09 viruses accounted for the majority of detections early in the reporting period while A(H3N2) viruses predominated later in the reporting period. 

Influenza detections peaked in November in Western Africa and December in Eastern and Northern Africa. 

In Middle Africa, influenza detections remained low throughout the reporting period with a slight predominance of A(H1N1)pdm09 viruses early in the reporting period. 

In Southern Africa, influenza detections remained low throughout the reporting period, with a predominance of influenza A viruses. 

In Northern and Middle Africa, there was low and sustained influenza B activity throughout the reporting period. 

In Asia, influenza activity increased during the start of the reporting period in South East and Western Asia, from October in Central and Eastern Asia, and from November in Southern Asia, with a predominance of influenza A viruses in all transmission zones. 

Most influenza detections were reported from Eastern Asia, where activity peaked in early December. 

In Southern Asia, influenza activity also peaked in December; in Central Asia influenza activity peaked in November, and in Western and South East Asia, influenza activity peaked in October. 

Among subtyped influenza A viruses, A(H3N2) viruses accounted for the majority of detections in all transmission zones; detections of A(H1N1)pdm09 and influenza B viruses remained low in most transmission zones throughout the reporting period, except in Eastern Asia where there was a substantial rise in influenza B viruses in recent weeks. 

In Europe, influenza activity increased from mid-September in Northern Europe, from October in South West Europe and from mid-November in Eastern Europe, with a predominance of influenza A viruses in all transmission zones. 

Influenza detections peaked in December in Northern and South West Europe but remained elevated through January. 

Influenza detections continued to increase through January in Eastern Europe

Among subtyped influenza A viruses, A(H3N2) viruses predominated. 

In South West Europe, detections of A(H1N1)pdm09 viruses slightly increased in mid-November. 

In Eastern and Northern Europe, detections of A(H1N1)pdm09 and influenza B viruses remained low throughout the reporting period.  

In the Americas, influenza activity increased from the start of the reporting period in Temperate and Tropical South America and from November in North America and Central America Caribbean

Influenza A viruses accounted for most detections, and influenza B virus detections remained low throughout the reporting period in all transmission zones, except in North America where there was a substantial rise in influenza B viruses in recent weeks. 

In North America, activity peaked in late December. 

Among subtyped influenza A viruses, there was a predominance of A(H3N2) viruses. 

In Central America Caribbean, influenza activity remained elevated through mid-January with A(H3N2) virus detections predominant from December. 

In Tropical South America, influenza activity peaked in early November and slowly declined until the end of the reporting period. 

Among subtyped influenza A viruses, A(H3N2) predominated through November then co-circulated at similar proportions to A(H1N1)pdm09 until the end of the reporting period. 

In Temperate South America, influenza activity peaked in mid-November and among subtyped influenza A viruses, A(H3N2) viruses predominated throughout the reporting period.  

In Oceania, influenza activity decreased until mid-October, increased in December and decreased since mid-December. A(H1N1)pdm09 and B viruses were detected at similar levels until mid-September and A(H3N2) virus detections predominated since then. 


Influenza A 

Globally, influenza A virus detections greatly outnumbered those of influenza B. 

Among subtyped influenza A viruses, A(H3N2) viruses predominated throughout the reporting period in most transmission zones. 

In Eastern, Northern, Western Africa, Central America Caribbean and Oceania, influenza A(H1N1)pdm09 virus detections predominated during the first part of the reporting period, and A(H3N2) virus detections predominated in the latter part of the reporting period. 

Influenza A(H1N1)pdm09 virus detections increased slightly towards the latter part of the reporting period in Eastern and South West Europe, Central America Caribbean and Tropical South America

The overall number of influenza detections was low in Middle and Southern Africa


Influenza B 

Globally, influenza B virus detections remained low throughout the reporting period. 

Increases in influenza B virus detections in January were reported in North America and Eastern Asia

All influenza B viruses where lineage was confirmed belonged to the B/Victoria lineage. 

(...)


Zoonotic influenza  

From 23 September 2025, sporadic zoonotic influenza infections were reported, in most cases, following exposure to infected birds, swine or contaminated environments

Single cases of A(H5N1) from Bangladesh, A(H5N2) from Mexico, and A(H5N5) from the United States of America were reported. 

Three A(H5N1) cases were reported from Cambodia

Fourteen cases of A(H9N2) and one case of A(H10N3) were reported from China

Single cases of A(H1N1)v and A(H1N2)v were reported from China, a case of A(H1N2)v from the United States of America, and a case of A(H3N2)v from Brazil


Genetic and antigenic characteristics of recent seasonal influenza viruses, human serology and antiviral susceptibility 

Influenza A(H1N1)pdm09 viruses  

Since September 2025, A(H1N1)pdm09 viruses circulated globally, but did not predominate in any region. 

The haemagglutinin (HA) genes of viruses that were genetically characterized belonged to the 5a.2a and 5a.2a.1 clades. 

Viruses from clade 5a.2a subclades C.1, C.1.9 and C.1.9.3 circulated in low numbers, with the largest proportion of detections in Africa {5}. 

Since September 2025, clade 5a.2a.1 subclades D.3.1 and D.3.1.1 viruses circulated globally. 

The D.3.1 subclade with substitutions T120A, I372V, I460T and V520A predominated in Western Pacific, Africa, South East Asia and several countries in the Americas

D.3.1.1 viruses characterized by R113K and more recently acquired substitutions A139D, E283K and K302E predominated in some countries in Europe, the Middle East and North America

The antigenic properties of A(H1N1)pdm09 viruses were assessed in haemagglutination inhibition (HI) assays with post-infection ferret antisera. 

HI results for viruses with collection dates since September 2025 showed that ferret antisera raised against cell culture-propagated A/Wisconsin/67/2022-like and eggpropagated A/Victoria/4897/2022-like viruses from the 5a.2a.1 clade recognized viruses in both 5a.2a and 5a.2a.1 clades well. 

However, post-infection ferret antisera raised against viruses from clade 5a.2a showed some reduction in recognition of the now predominating D.3.1 and D.3.1.1 subclade viruses. 

Post-infection ferret antisera raised against viruses from subclade D.3.1 (e.g., A/Missouri/11/2025) recognized recently circulating viruses from both 5a.2a and 5a.2a.1 clades well.  

Human serology studies used 15 serum panels from children, adults (18 to 64 years) and older adults (≥65 years) who had received egg-propagated inactivated (standard, high dose or adjuvanted), cell culture-propagated inactivated or recombinant trivalent or quadrivalent vaccines with NH 2025-2026 influenza vaccine formulations. 

-- NH 2025-2026 egg-based vaccines contained A/Victoria/4897/2022 (H1N1)pdm09like, 

-- A/Croatia/10136RV/2023 (H3N2)-like, 

-- B/Austria/1359417/2021-like (B/Victoria lineage) and, in quadrivalent vaccines, 

-- B/Phuket/3073/2013-like (B/Yamagata lineage) virus antigens. 

Cell culture-propagated and recombinant vaccines contained A/Wisconsin/67/2022 (H1N1)pdm09-like, A/District of Columbia/27/2023 (H3N2)-like and B/Austria/1359417/2021-like (B/Victoria lineage) virus antigens. 

Recent A(H1N1)pdm09 viruses with HA genes from clades 5a.2a (subclade C.1.9.3) and 5a.2a.1 (subclades D.3.1 and D.3.1.1) were analysed in HI assays using these human serum panels. 

When compared to the responses to cell culture-propagated A/Wisconsin/67/2022 (H1N1)pdm09-like vaccine reference viruses, post-vaccination geometric mean titres (GMTs) were significantly reduced for some recently circulating viruses from D.3.1 and D.3.1.1 subclades. 

Of 1 161 A(H1N1)pdm09 virus clinical samples and isolates examined by genetic and/or phenotypic analyses, 15 viruses showed evidence of reduced susceptibility to neuraminidase inhibitors (NAIs): seven had an H275Y neuraminidase (NA) substitution and eight had I223V and S247N substitutions. 

Of 1 331 A(H1N1)pdm09 viruses examined by genetic and/or phenotypic analyses, no viruses showed evidence of reduced susceptibility to the endonuclease inhibitor baloxavir marboxil. 


Influenza A(H3N2) viruses  

Phylogenetic analysis of the HA gene sequences of A(H3N2) viruses collected since September 2025 showed that the vast majority of viruses belonged to one of the J.2 subclades {6}, expressing HA N122D and K276E substitutions. 

HA genes have diversified with many subclades; J.2.2 (characterized by S124N), J.2.3 (characterized by N158K, K189R and S378N), J.2.4 (characterized by T135K [a potential loss of an N-glycosylation site] and K189R), and K (formerly designated as J.2.4.1; characterized by K2N, S144N [a potential addition of an N-glycosylation site], N158D, I160K, Q173R, T328A and S378N). 

During this reporting period, subclade K viruses were detected in all regions and predominated in many countries. 

There was still circulation of other J.2 subclades, notably J.2 or J.2.3 in South America, J.2.2 or J.2.4 in Africa and Asia.  

Post-infection ferret antisera raised against cell culture-propagated A/District of Columbia/27/2023-like and egg-propagated A/Croatia/10136RV/2023-like (clade 2a.3a.1, subclade J.2) viruses, representing the A(H3N2) component for the NH 2025-2026 influenza vaccines, showed poor recognition with recently circulating subclade J.2.3 (e.g., A/Netherlands/10685/2024), J.2.4 (e.g., A/Sydney/1359/2024) and K (e.g., A/Darwin/1415/2025) viruses. 

Ferret antisera raised against reference viruses from J.2.3 subclades showed good recognition of viruses expressing HA from J.2.3, but poor recognition of other subclades.  

Post-infection ferret antisera raised against cell culture-propagated A/Sydney/1359/2024-like and eggpropagated A/Singapore/GP20238/2024-like J.2.4 viruses, representing SH 2026 influenza vaccines, recognized most J.2.4 viruses and many subclade K viruses well. 

However, subclade K viruses and J.2.4 viruses with HA substitutions F79V, S144N (addition of a potential N-glycosylation site), N158D, I160K, T328A were better recognized by post-infection ferret antisera raised against cell culture-propagated A/Darwin/1415/2025-like and egg-propagated A/Darwin/1454/2025-like (subclade K) viruses. 

Human serology studies were conducted using the serum panels as described above by HI and virus neutralization (VN) assays with recent circulating A(H3N2) viruses with HA genes from subclades J.2, J.2.2, J.2.3, J.2.4, J.2.5 and K. 

When compared to titres against cell-propagated A/District of Columbia/27/2023-like vaccine reference viruses, post-vaccination HI GMTs or VN GMTs against many of the recent viruses in all subclades tested were significantly reduced in many serum panels.  

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Of 4 458 influenza A(H3N2) viruses examined by genetic and/or phenotypic analyses, two viruses showed evidence of reduced susceptibility to NAIs; both had an NA E119V substitution. 

Of 4 828 A(H3N2) viruses examined by genetic and/or phenotypic analyses, nine viruses showed evidence of reduced susceptibility to the endonuclease inhibitor baloxavir marboxil: three had a PA I38T substitution, three had a PA I38I/T substitution, two had a PA I38I/M substitution and one had a PA E199E/G substitution.  


Influenza B viruses  

Since September 2025, influenza B viruses were detected in all WHO regions, and all those characterized belonged to the B/Victoria lineage

There have been no confirmed detections of circulating B/Yamagata lineage viruses after March 2020.  

All HA genes of B/Victoria lineage viruses characterized during this reporting period belonged to clade 3a.2 with HA substitutions A127T, P144L, and K203R. 

Viruses with clade 3a.2 HA genes have diversified further, forming several subclades (C.1-C.5)7. 

Viruses designated as C.5, C.5.1, C.5.6, C.5.6.1 and C.5.7, all of which had the HA substitution D197E, circulated at varying proportions in different regions. 

Viruses designated as C.3 have HA substitutions E128K, A154E and S208P. 

Subclade C.3.1 viruses shared additional mutations D197N (addition of a potential N-glycosylation site) and P208S. 

Recent C.3 viruses which had additional changes D197N (addition of a potential N-glycosylation site), S255P and I267V and C.3.1 viruses have been detected in increasing proportions in Eastern Asia and North America in recent weeks. 

Antigenic analysis showed that post-infection ferret antisera raised against B/Austria/1359417/2021-like viruses (3a.2), representing the vaccine viruses for the SH 2026 and NH 2025-2026 influenza seasons, recognized viruses within the C.5.1, C.5.6, C.5.6.1 and C.5.7 subclades well. 

C.3 and C.3.1 subclade viruses with the HA substitution D197N were recognized poorly. 

Post-infection ferret antisera raised against cell culture-propagated viruses from subclade C.3.1 (e.g., B/Pennsylvania/14/2025) recognized recently circulating viruses from C.3, C.3.1 and other 3a.2 subclades well. 

All available egg isolates for subclade C.3 and C.3.1 viruses acquired substitutions that remove the potential N-glycosylation site at HA 197 to 199. 

Post-infection ferret antisera raised against egg-propagated viruses from subclade C.3.1 (e.g., B/Tokyo/EIS13-175/2025, B/Tokyo/EIS13-011/2025, B/Perth/115/2025) showed reduced recognition of recently circulating viruses from C.3 and C.3.1 subclades compared to that of the cell equivalent.  

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In human serology studies, recently circulating B/Victoria lineage viruses with HA genes from clade 3a.2 subclades C.3, C.3.1, C.5.1, C.5.6, C.5.6.1 and C.5.7 were tested using the serum panels described above. 

When compared to titres against egg- or cell culture-propagated B/Austria/1359417/2021-like vaccine reference virus, titres against most viruses with HA genes from C.5.1, C.5.6, C.5.6.1 and C.5.7 subclades were not significantly reduced; however, titres against viruses with HA genes from C.3 and C.3.1 were significantly reduced in most serum panels. Serology studies were not performed for B/Yamagata lineage viruses.  

Of 549 influenza B/Victoria lineage viruses examined by genetic and/or phenotypic analyses, two showed evidence of reduced or highly reduced susceptibility to NAIs, both with an NA M464T substitution. 

Of 760 B/Victoria lineage viruses examined by genetic and/or phenotypic analyses, no viruses showed evidence of reduced susceptibility to the endonuclease inhibitor baloxavir marboxil.  


Recommended composition of influenza virus vaccines for use in the 2026-2027 northern hemisphere influenza season  

Since September 2025, A(H1N1)pdm09 viruses circulated globally. The majority of viruses had HA genes belonging to the 5a.2a.1 clade which has further diversified into the D.3.1 and D.3.1.1 subclades. 

Postinfection ferret antisera raised against the northern hemisphere (NH) 2025-2026 A(H1N1)pdm09 vaccine viruses (cell culture-propagated A/Wisconsin/67/2022 and egg-propagated A/Victoria/4897/2022) and the southern hemisphere (SH) 2026 A(H1N1)pdm09 vaccine viruses A/Missouri/11/2025 recognized D.3.1 and D.3.1.1 viruses well. 

In human serology studies, post-vaccination geometric mean titres (GMTs) were significantly reduced for some recently circulating A(H1N1)pdm09 viruses when compared to the responses to cell culture-propagated A/Wisconsin/67/2022 A(H1N1)pdm09-like vaccine reference viruses. 

Since September 2025, A(H3N2) viruses circulated and predominated globally. 

The vast majority of A(H3N2) viruses collected had HA genes from subclades of J.2 and have continued to diversify with subclade K (previously designated as J.2.4.1) viruses predominating in most regions. 

Post-infection ferret antisera raised against NH 2025-2026 influenza season vaccine viruses (cell culture-propagated A/District of Columbia/27/2023 and egg-propagated A/Croatia/10136RV/2023) recognized some J.2 viruses well but showed poor recognition of viruses from subclades J.2.3, J.2.4 and K. 

Post-infection ferret antisera raised against subclade K viruses (cell culture-propagated A/Darwin/1415/2025 and egg-propagated A/Darwin/1454/2025) showed improved recognition of K viruses compared to post-infection antisera raised against NH 2025-2026 and SH 2026 A(H3N2) vaccine viruses. 

When compared to titres against cell culture-propagated A/District of Columbia/27/2023-like vaccine reference viruses, human post-vaccination haemagglutinin inhibition (HI) GMTs or virus neutralisation (VN) GMTs against many of the recent viruses in J.2.3, J.2.4 and K subclades were significantly reduced. 

Since September 2025, influenza B virus detections remained low globally, although some countries had increased detections in recent weeks. All circulating influenza B viruses characterized belonged to the B/Victoria lineage, and had HA genes belonging to clade 3a.2 with substitutions A127T, P144L and K203R. 

Post-infection ferret antisera raised against B/Austria/1359417/2021-like viruses (3a.2), representing the vaccine viruses for the SH 2026 and NH 2025-2026 influenza seasons, recognized viruses within the C.5.1, C.5.6, C.5.6.1 and C.5.7 subclades well. C.3 and C.3.1 subclade viruses with HA substitution D197N were recognized poorly. 

Post-infection ferret antisera raised against cell culture-propagated viruses from subclade C.3.1 (e.g., B/Pennsylvania/14/2025) recognized recently circulating viruses from C.3, C.3.1 and other 3a.2 subclades well. All available egg isolates for subclade C.3 and C.3.1 viruses (e.g., B/Tokyo/EIS13-175/2025) acquired egg-adaptive mutations that remove the potential N-glycosylation site at HA 197 to 199, leading to post-infection ferret antisera raised against egg-propagated viruses from subclade C.3.1 (e.g., B/Tokyo/EIS13-175/2025) showing reduced recognition of recently circulating viruses from C.3 and C.3.1 subclades compared to that of the cell equivalent. 

Human serology assays showed that post-vaccination titres against most recent B/Victoria lineage viruses with HA genes from subclades C.5.1, C.5.6, C.5.6.1 and C.5.7 were not significantly reduced when compared to titres against egg- or cell culturepropagated B/Austria/1359417/2021-like vaccine reference viruses. Titres against viruses with HA genes from subclade C.3 and C.3.1 were significantly reduced in most serum panels.  

For vaccines for use in the 2026-2027 northern hemisphere influenza season, WHO recommends the following:  

Egg-based vaccines  

• an A/Missouri/11/2025 (H1N1)pdm09-like virus;  

• an A/Darwin/1454/2025 (H3N2)-like virus; and  

• a B/Tokyo/EIS13-175/2025 (B/Victoria lineage)-like virus.  

Cell culture-, recombinant protein- or nucleic acid-based vaccines  

• an A/Missouri/11/2025 (H1N1)pdm09-like virus;  

• an A/Darwin/1415/2025 (H3N2)-like virus; and  

• a B/Pennsylvania/14/2025 (B/Victoria lineage)-like virus.  

Lists of prototype viruses for egg-, cell culture-, recombinant protein- and nucleic acid-based vaccines together with candidate vaccine viruses (CVVs) suitable for the development and production of human influenza vaccines are available on the WHO website {8}. 

A list of reagents for vaccine standardization, including those for this recommendation, can also be found on the WHO website.  

CVVs and reagents for use in the laboratory standardization of inactivated vaccines may be obtained from:  

• Therapeutic Goods Administration, P.O. Box 100, Woden, ACT, 2606, Australia (email: influenza.reagents@health.gov.au; website: http://www.tga.gov.au).  

• Medicines and Healthcare products Regulatory Agency (MHRA), Blanche Lane, South Mimms, Potters Bar, Hertfordshire, EN6 3QG, the United Kingdom of Great Britain and Northern Ireland  • (email: enquiries@mhra.gov.uk; website: http://www.nibsc.org/science_and_research/virology/influenza_resource_.aspx). 

• Division of Biological Standards and Quality Control, Center for Biologics Evaluation and Research, Food and Drug Administration, 10903 New Hampshire Avenue, Silver Spring, Maryland, 20993, the United States of America (email: cbershippingrequests@fda.hhs.gov).  

• Research Centre for Influenza and Respiratory Viruses, National Institute of Infectious Diseases, 4-7-1 Gakuen, Musashi-Murayama, Tokyo 208-0011, Japan (email: flu-vaccine@nih.go.jp).  

Requests for reference viruses should be addressed to:  

• WHO Collaborating Centre for Reference and Research on Influenza, VIDRL, Peter Doherty Institute, 792 Elizabeth Street, Melbourne, Victoria 3000, Australia (email: whoflu@influenzacentre.org; website: http://www.influenzacentre.org).  

• WHO Collaborating Centre for Reference and Research on Influenza, National Institute of Infectious Diseases, Japan Institute for Health Security 4-7-1 Gakuen, Musashi-Murayama, Tokyo 208-0011, Japan (email: whocc-flu@nih.go.jp).  

• Influenza Division, Centers for Disease Control and Prevention, 1600 Clifton Road, Mail Stop H17-5, Atlanta, GA 30329, the United States of America (email: InfluenzaVirusSurvei@cdc.gov; website: http://www.cdc.gov/flu/).  

- WHO Collaborating Centre for Reference and Research on Influenza, The Francis Crick Institute, 1 Midland Road, London NW1 1AT, the United Kingdom of Great Britain and Northern Ireland (Tel: +44 203 796 1520 or +44 203 796 2444, email: whocc@crick.ac.uk;  • website: http://www.crick.ac.uk/research/worldwideinfluenza-centre).  

• WHO Collaborating Centre for Reference and Research on Influenza, National Institute for Viral Disease Control and Prevention, China CDC, 155 Changbai Road, Changping District, 102206, Beijing, China. (tel: +86 10 5890 0851; email: fluchina@ivdc.chinacdc.cn; website: https://ivdc.chinacdc.cn/cnic/en/).  

WHO provides weekly updates {9} of global influenza activity. Other information about influenza surveillance, risk assessment, preparedness and response can be found on the WHO Global Influenza Programme website {10}.  


Acknowledgements  

The WHO recommendation on vaccine composition is based on the year-round work of the WHO Global Influenza Surveillance and Response System (GISRS). We thank the National Influenza Centres (NICs) of GISRS, and non-GISRS laboratories including the World Organization for Animal Health (WOAH) and the Food and Agriculture Organization of the United Nations (FAO) Network of Expertise on Animal Influenza (OFFLU), who contributed information, clinical specimens, viruses and associated data; WHO Collaborating Centres of GISRS for their in-depth characterization and comprehensive analysis of viruses; University of Cambridge for performing antigenic cartography and phylogenetic analysis; WHO Essential Regulatory Laboratories of GISRS for their complementary virus analyses and contributions from a regulatory perspective; and laboratories involved in the production of high growth/yield reassortants as candidate vaccine viruses. We also acknowledge the GISAID Global Data Science Initiative for the EpiFluTM database and other sequence databases which were used to share gene sequences and associated information; modelling groups for virus fitness forecasting; and the Global Influenza Vaccine Effectiveness (GIVE) Collaboration for sharing estimates of influenza vaccine effectiveness on a confidential basis.  

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___

{1} Recommendations for influenza vaccine composition: https://www.who.int/teams/global-influenza-programme/vaccines/who-recommendations 

{2} Description of the process of influenza vaccine virus selection and development: http://www.who.int/gb/pip/pdf_files/Fluvaccvirusselection.pdf 

{3} Vaccines in tropics and subtropics: https://www.who.int/teams/global-influenza-programme/vaccines/vaccine-in-tropics-and-subtropics 

{4} Vaccines against influenza WHO position paper – May 2022. Wkly Epidemiol Rec 2022; 97 (19): 185 - 208. Available at: https://iris.who.int/handle/10665/354264 

{5} Real-time tracking of influenza A(H1N1)pdm09 evolution: https://nextstrain.org/seasonal-flu/h1n1pdm/ha/2y?c=subclade 

{6} Real-time tracking of influenza A(H3N2) evolution: https://nextstrain.org/seasonal-flu/h3n2/ha/2y?c=subclade 

{7} Real-time tracking of influenza B/Victoria lineage evolution: https://nextstrain.org/seasonal-flu/vic/ha/2y?c=subclade 

{8} Candidate vaccine viruses: https://www.who.int/teams/global-influenza-programme/vaccines/who-recommendations/candidate-vaccine-viruses 

{9} Current respiratory virus update: https://www.who.int/teams/global-influenza-programme/surveillance-and-monitoring/influenza-updates 

{10} Global Influenza Programme: https://www.who.int/teams/global-influenza-programme 

___

Source: 


Link: https://www.who.int/publications/m/item/recommended-composition-of-influenza-virus-vaccines-for-use-in-the-2026-2027-northern-hemisphere-influenza-season

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Friday, February 27, 2026

The #ORF6 accessory #protein contributes to #SARS-CoV-2 #virulence and pathogenicity in the naturally susceptible #feline model of infection

 


ABSTRACT

In this study, the infection dynamics, replication, and pathogenicity of a recombinant virus containing a deletion of ORF6 (rWA1ΔORF6) on the backbone of the highly virulent SARS-CoV-2 WA1 virus (rWA1) were investigated and compared to the parental rWA1 virus. While both rWA1 and rWA1ΔORF6 viruses replicated efficiently in cultured cells, the rWA1ΔORF6 virus produced smaller plaques, suggesting reduced cell-to-cell spread. Luciferase reporter assays revealed immune-suppressing effects of ORF6 on interferon (IFN) and nuclear factor kappa B (NF-κB) signaling pathways. Pathogenesis assessment in cats revealed that animals inoculated with rWA1 were lethargic and presented with fever on days 2 and 4 post-infection (pi), whereas rWA1ΔORF6-inoculated animals developed subclinical infection. Additionally, animals inoculated with rWA1ΔORF6 presented reduced infectious virus shedding in nasal and oral secretions and broncho-alveolar lavage fluid when compared with the rWA1-inoculated cats. Similarly, the rWA1ΔORF6-inoculated cats presented reduced virus replication in the respiratory tract as evidenced by lower viral loads and reduced lung inflammation on days 3 and 5 pi when compared to rWA1-inoculated animals. Host gene transcriptomic analysis revealed distinct differentially expressed gene (DEG) profiles in the nasal turbinate of animals infected with rWA1 when compared to rWA1ΔORF6. Importantly, type I IFN signaling was significantly upregulated in rWA1ΔORF6-infected cats when compared to rWA1-inoculated animals, which could potentially contribute to the reduced replication of rWA1ΔORF6 in the upper and lower respiratory tracts of infected animals. Collectively, these results demonstrate that the SARS-CoV-2 ORF6 is an important virulence determinant of the virus, contributing to the modulation of host antiviral immune responses.

Source: Journal of Virology, https://journals.asm.org/journal/jvi

Link: https://journals.asm.org/doi/full/10.1128/jvi.00644-25?af=R

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#USA, #Wastewater Data for Avian #Influenza #H5 (#CDC, Feb. 27 '26)

 


{Excerpt}

Time Period: February 15, 2026 - February 21, 2026

-- H5 Detection4 site(s) (0.8%)

-- No Detection495 site(s) (99.2%)

-- No samples in last week110 site(s)




(...)

Source: US CDC, https://www.cdc.gov/

Link: https://www.cdc.gov/nwss/rv/wwd-h5.html

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#Bosnia and Herzegovina - High pathogenicity avian #influenza viruses (Inf. with) (#poultry) - Follow up report 1

 


Note 27/02/2026: the number of dead animals in this outbreak was lowered after the country provided additional information.

Source: 


Link: https://wahis.woah.org/#/in-review/7309

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