Saturday, June 21, 2025

Counting Cases, Conserving #Species: Addressing Highly Pathogenic Avian #Influenza in #Wildlife

Abstract

Highly pathogenic avian influenza (HPAI) has become a critical threat to wildlife, shifting from a seasonal epizootic to a persistent, year-round panzootic with global consequences. Here, we summarize the origin, evolutionary mechanisms, and expanding host range of the current H5N1 virus (clade 2.3.4.4b) and assess its impact on wildlife. Over the past five years, HPAI has caused the deaths of millions of wild birds, causing dramatic population declines in several seabird species. However, comprehensive quantitative mortality data remain scarce, as existing records are often anecdotal, focus on localized mass die-offs, and thus represent only a fraction of the true magnitude of mortality. This gap in data limits the ability to predict outbreak dynamics and mitigate long-term consequences. Using the Northwestern European Sandwich Tern (Thalasseus sandvicensis) population as a case study, we demonstrate the value of integrating mortality data with ecological, serological and genetic data before, during and after an outbreak. This approach uncovered age-specific vulnerability, selective mortality, and population immunological responses. In addition, insights gained with respect to the role of breeding density, carcass removal, and host adaptation in modulating outbreak dynamics are likely to be generalizable across seabird species. The absence of a centralized and standardized wildlife mortality monitoring framework, on the other hand, remains a major barrier to effective outbreak forecasting and conservation planning. We argue that integrating field-based mortality data, population monitoring, serological assays, and genetic analyses within a One Health framework is essential to enable early detection, targeted mitigation, and robust evaluation of outbreak impacts. Without a proactive and data-driven approach to conservation, HPAI will continue to threaten global wildlife populations, with cascading ecological, economic and public health consequences.

Source: BioRxIV, https://www.biorxiv.org/content/10.1101/2025.06.18.660293v1

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Resurgence of #human #metapneumovirus in the post #COVID19 era: #pathogenesis, epidemiological shifts, clinical #impact, and future #challenges

Summary

Human metapneumovirus (hMPV), a respiratory pathogen identified in 2001, is a substantial cause of community-acquired respiratory infections across all age groups. This Review explores the impact of hMPV after the COVID-19 pandemic, emphasising its resurgence as a public health concern. Epidemiological shifts, as well as unusual seasonal patterns, increased co-infection rates, and altered age distributions, have been observed globally. Phylogenetic analysis has shown the variation across three distinct periods, especially before and after the COVID-19 pandemic, in terms of genotypic distribution. Clinical manifestations of hMPV infection range from asymptomatic to severe lower respiratory tract infections, particularly in vulnerable populations. Specific antivirals or vaccines are currently unavailable; consequently, treatment remains supportive. The development of monoclonal antibodies and vaccines leveraging cross-protective strategies against hMPV and related viruses is underway. This Review advocates prioritising research and public health measures to address the evolving epidemiological and clinical challenges associated with hMPV in the post-COVID-19 era.

Source: Lancet Infectious Diseases, https://www.thelancet.com/journals/laninf/article/PIIS1473-3099(25)00240-3/abstract?rss=yes

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Efficacy of #baloxavir marboxil against #bovine #H5N1 virus in mice

Abstract

Since the first detection of highly pathogenic avian influenza (HPAI) H5N1 (clade 2.3.4.4b) in U.S. dairy cattle in early 2024, the virus has spread rapidly, posing a major public health concern as the number of human cases continues to rise. Although human-to-human transmission has not been confirmed, experimental data suggest that the bovine H5N1 virus can transmit via respiratory droplets in ferrets, highlighting its pandemic potential. With no vaccines currently available, antiviral drugs remain the only treatment option. Here, we investigate the efficacy of the polymerase inhibitor baloxavir marboxil (BXM) against this virus in mice. We find that early treatment post-infection is effective, but delayed treatment significantly reduces BXM efficacy and increases the risk of BXM resistance, underscoring the importance of timely BXM administration for effective treatment.

Source: Nature Communications, https://www.nature.com/articles/s41467-025-60791-5

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Highly pathogenic avian #influenza A (#H5N1) virus outbreaks in South #America in 2022–2024: a comprehensive review of an ongoing #panzootic

Highlights

• Outbreaks of H5N1 clade 2.3.4.4b in South America have challenged animal and public health.

• Outbreaks across South America affect poultry industry and wild species.

• Surveillance strategies with One Health approach for avian flu is needed


Abstract

The outbreaks of highly pathogenic avian influenza A (H5N1) clade 2.3.4.4b in South America, which began in 2022, have had significant repercussions across the continent and have led to significant challenges in animal and public health. This review explores the virus's transmission across South America, highlighting the spread of this panzootic through migratory birds and its severe impact on the poultry industry and various wild species, including mammals. The underreporting of influenza cases in poultry underscores the need for enhanced national regulations and strategies to promote reporting within the productive sector. Additionally, the review emphasizes the necessity for active case finding and genomic surveillance in the animal sector to manage better and control the virus. The economic and public health impacts of a potential future pandemic are also considered, emphasizing the need for strengthened surveillance strategies with the One Health approach to mitigate these risks.


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Man in #Cambodia dies of #H5N1 avian #influenza #H5N1

 


PHNOM PENH, June 21 (Xinhua) -- A 52-year-old man from southeastern Cambodia's Svay Rieng province had died of H5N1 human avian influenza, becoming the fifth human death from the virus so far this year, the Ministry of Health said in a press statement on Saturday.

"A laboratory result from the National Institute of Public Health showed on June 20 that the man was positive for H5N1 virus," the statement said.

Health authorities are looking into the source of the infection and are examining any suspected cases or people who have been in contact with the victim in order to prevent an outbreak in the community, it added.

Tamiflu (oseltamivir), an antiviral drug to prevent the bird flu from spreading, was also given out to people who had direct contact with the patient, the statement said.

The Southeast Asian country recorded a total of six human cases of H5N1 so far this year, with five deaths.

Source: Xinhua, https://english.news.cn/asiapacific/20250621/e94aafa92dbc4466b525637b72559528/c.html

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Second #Update on #Developments in #Iran {War} (#IAEA, June 21 '25)

 


A centrifuge manufacturing workshop has been hit in Esfahan, the third such facility that has been targeted in Israel’s attacks on Iran’s nuclear-related sites over the past week, Director General Rafael Mariano Grossi said today, citing information available to the International Atomic Energy Agency (IAEA).

The workshop – which made the machines used to enrich uranium – was previously under IAEA monitoring and verification as part of the Joint  Comprehensive Plan of Action (JCPOA), including with installed Agency cameras.

“We know this facility well. There was no nuclear material at this site and therefore the attack on it will have no radiological consequences,” Director General Grossi said.

It came a few days after the IAEA on 18 June reported that the Tehran Research Center, where advanced centrifuge rotors were manufactured and tested, had been hit, as had a workshop in the city of Karaj where different centrifuge components were manufactured. There was no radiological impact, internally or externally.

The IAEA has closely been monitoring the situation at Iran’s nuclear sites since Israel began its attacks early on 13 June, providing regular updates on military strikes on facilities in Arak, Esfahan, Karaj, Natanz and Tehran.

Director General Grossi told the United Nations Security Council on Friday that “attacks on nuclear sites in the Islamic Republic of Iran have caused a sharp degradation in nuclear safety and security” in the country, adding: “Though they have not so far led to a radiological release affecting the public, there is a danger this could occur.”

 Source: IAEA, https://www.iaea.org/newscenter/pressreleases/update-on-developments-in-iran-2

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History of Mass Transportation: Rome's Tram 7000 Series

 


Di Bernhard Studer - Opera propria, Pubblico dominio, https://commons.wikimedia.org/w/index.php?curid=18132189

Source: Wikipedia, https://it.wikipedia.org/wiki/Tram_ATAC:_motrici_Stanga

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#Glial cells promote #infection by #neurotropic #Influenza A viruses in vitro

Abstract

Although influenza A viruses (IAV) are notorious respiratory pathogens, some IAV strains can reach and replicate in the central nervous system (CNS) in vivo. In particular, highly pathogenic avian influenza viruses (HPAIV) pose a threat for future pandemics and are linked to greater neurotropic potential. Moreover, neurotropic IAV strains have shown a more significant impact on the onset and pathogenesis of neurodegenerative diseases (NDD). However, despite its clinical relevance, the dynamics and cellular tropism of IAV infection in the CNS are not well understood. In this study, we analyzed the replication of HPAIV H7N7 in vitro using a primary murine triple co-culture system comprising neurons, astrocytes, and microglia. We found that microglia become highly infected early on and induce a strong pro-inflammatory response before undergoing apoptosis. Using fluorescence microscopy with automated single-cell profiling, we found that, in contrast to non-neurotropic H3N2, the H7N7 nucleoprotein accumulated in neuronal somata throughout the infection without being transported into dendrites or axons. A combination of single-cell and co-culture replication assays led us to conclude that astrocytes are the primary virus producers of HPAIV H7N7 in the CNS. Our results illuminate the acute phase of neurotropic IAV infection, highlighting its implications for the association between IAV and the development of neurodegenerative diseases.

Source: BioRxIV, https://www.biorxiv.org/content/10.1101/2025.06.20.660606v1

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Friday, June 20, 2025

#IAEA #DG Grossi’s #Statement to #UNSC on #Situation in #Iran (June 20 '25)

 


Attacks on nuclear sites in the Islamic Republic of Iran have caused a sharp degradation in nuclear safety and security in Iran. Though they have not so far led to a radiological release affecting the public, there is a danger this could occur.

The International Atomic Energy Agency has been monitoring closely the situation at Iran’s nuclear sites since Israel began its attacks a week ago. As part of its mission, the IAEA is the global nerve centre for information on nuclear and radiological safety, and we can respond to any nuclear or radiological emergency.

Based on information available to the IAEA, the following is the current situation at Iran’s nuclear sites. Which I offer as a follow up to my most recent report to this Security Council.

The Natanz enrichment site contains two facilities. The first is the main Fuel Enrichment Plant. Initial attacks on the 13th of June targeted and destroyed electricity infrastructure at the facility, including an electrical sub-station, the main electric power supply building, and emergency power supply and back-up generators. On the same day, the main cascade hall appears to have been attacked using ground-penetrating munitions.

The second facility at Natanz is the Pilot Fuel Enrichment Plant. It consists of aboveground and underground cascade halls. On the 13th of June the above-ground part was functionally destroyed and the strikes on the underground cascade halls were seriously damaging.

The level of radioactivity outside the Natanz site has remained unchanged and at normal levels, indicating no external radiological impact on the population or the environment.

However, within the Natanz facility there is both radiological and chemical contamination. It is possible that Uranium isotopes contained in Uranium Hexafluoride, Uranyl Fluoride and Hydrogen Fluoride are dispersed inside the facility. The radiation, primarily consisting of alpha particles, poses a significant danger if inhaled or ingested. This risk can be effectively managed with appropriate protective measures, such as using respiratory devices. The main concern inside the facility is chemical toxicity.

Fordow is Iran’s main enrichment location for enriching uranium to 60%. The Agency is not aware of any damage at Fordow at this time.

At the Esfahan nuclear site, four buildings were damaged in last Friday’s attack: the central chemical laboratory, a uranium conversion plant, the Tehran reactor-fuel manufacturing plant, and the enriched uranium metal processing facility, which was under construction.

No increase of off-site radiation levels was reported. As in Natanz, the main concern is chemical toxicity.  

The Khondab Heavy Water Research Reactor under construction in Arak, was hit on the 19th of June. As the reactor was not operational and did not contain any nuclear material, no radiological consequence is expected. The nearby Heavy Water Production Plant is also assessed to have been hit, and similarly no radiological consequence is expected.

As stated in the IAEA’s update of the 18th of June, at the Tehran Research Center, one building, where advanced centrifuge rotors were manufactured and tested, was hit. At the Karaj workshop, two buildings, where different centrifuge components were manufactured, were destroyed. There was no radiological impact, internally or externally.

Let me now refer to the Bushehr Nuclear Power Plant. This is the nuclear site in Iran where the consequences of an attack could be most serious. It is an operating nuclear power plant and as such it hosts thousands of kilograms of nuclear material. Countries of the region have reached out directly to me over the past few hours to express their concerns, and I want to make it absolutely and completely clear: In case of an attack on the Bushehr Nuclear Power Plant a direct hit could result in a very high release of radioactivity to the environment.

Similarly, a hit that disabled the only two lines supplying electrical power to the plant could cause its reactor’s core to melt, which could result in a high release of radioactivity to the environment. In their worst-case, both scenarios would necessitate protective actions, such as evacuations and sheltering of the population or the need to take stable iodine, with the reach extending to distances from a few to several hundred kilometres. Radiation monitoring would need to cover distances of several hundred kilometres and food restrictions may need to be implemented.

Any action against the Tehran Nuclear Research Reactor could also have severe consequences, potentially for large areas of the city of Tehran and its inhabitants. In such a case, protective actions would need to be taken.

I will continue to provide public updates about the developments at all these sites and their possible health and environmental consequences.

The Agency is, as madame Undersecretary kindly reminded, and will remain present in Iran and inspections there will resume, as required by Iran’s safeguards obligations under its NPT Safeguards Agreement, as soon as safety and security conditions allow.

In this context, let me restate that the safety of our inspectors is of utmost importance. The host country has a responsibility in this regard, and we expect every effort to be made to ensure that their security and their communication lines with the IAEA headquarters will be maintained.

As stated in my most recent report to the Agency’s Board of Governors and based on inspections conducted at the relevant facilities since then, Iran’s uranium stockpiles remain under safeguards in accordance with Iran’s comprehensive safeguards agreement. You may recall that more than 400kg of this stockpile is uranium enriched up to 60% U-235. It is essential that the Agency resumes inspections as soon as possible to provide credible assurances that none of it has been diverted.

Importantly, any special measures by Iran to protect its nuclear materials and equipment must be done in accordance with Iran’s safeguards obligations and the Agency.  

Therefore, it is of paramount importance that the Agency’s inspectors are allowed to verify that all relevant materials, especially those enriched to 60%, are accounted for. Beyond the potential radiological risks, attacks on such materials would make this effort of course more difficult.

Madame President,

The IAEA has consistently underlined, as stated in its General Conference resolution, that armed attacks on nuclear facilities should never take place, and could result in radioactive releases with grave consequences within and beyond the boundaries of the State which has been attacked.

I therefore again call on maximum restraint. Military escalation threatens lives and delays indispensable work towards a diplomatic solution for the long-term assurance that Iran does not acquire a nuclear weapon.

Madame President,

The presence, support, analysis and inspections of technical experts are crucial to mitigating risks to nuclear safety and security – that is true during peacetime and even more so during military conflict.

For the second time in three years, we are witnessing a dramatic conflict between two UN and IAEA Member States in which nuclear installations are coming under fire and nuclear safety is being compromised. The IAEA, just as has been the case with the military conflict between the Russian Federation and Ukraine, will not stand idle during this conflict.

As I stated in this chamber just a few days ago, I am ready to travel immediately and to engage with all relevant parties to help ensure the protection of nuclear facilities and the continued peaceful use of nuclear technology in accordance with the Agency mandate, including by deploying Agency nuclear safety and security experts, in addition to our safeguards inspectors in Iran, wherever necessary.

For the IAEA to act, a constructive, professional dialogue is needed. I urge the Members of this Council to support us in making it happen sooner rather than later.

The IAEA must receive timely and regular technical information about affected nuclear facilities and their respective sites. I urge in this regard the Iranian regulatory authorities to continue a constructive dialogue with the IAEA Incident and Emergency Centre, which has been operating 24/7 since the beginning of this conflict.

Nuclear facilities and material must not be shrouded by the fog of war.

Yesterday there was an incorrect statement to the media by an Israeli military official that Bushehr Nuclear Power Plant had been attacked. Though the mistake was quickly identified and the statement retracted, the situation underscored the vital need for clear and accurate communication, and the Agency’s unique role in providing it in a technically accurate and politically impartial way is obvious.

Let me conclude by assuring the international community of the IAEA’s continued support at this very grave time.

A diplomatic solution is within reach if the necessary political will is there. Elements for an agreement have been discussed. The IAEA can guarantee, through a watertight inspections system, that nuclear weapons will not be developed in Iran.  They can form the basis of a long-standing agreement that brings peace and avoids a nuclear crisis in the Middle East. This opportunity should not be missed. The alternative would be a protracted conflict and a looming threat of nuclear proliferation that, while emanating from the Middle East, would effectively erode the NPT and the non-proliferation regime as a whole.

Source: IAEA, https://www.iaea.org/newscenter/statements/iaea-director-general-grossis-statement-to-unsc-on-situation-in-iran

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#USA, Monitoring for Avian #Influenza A(#H5) Virus In #Wastewater (CDC, June 20 '25)

 


{Excerpt}

Time Period: June 01, 2025 - June 07, 2025

- H5 Detection4 sites (1.1%)

- No Detection370 sites (98.9%)

- No samples in last week73 sites




(...)

Source: US Centers for Disease Control and Prevention, https://www.cdc.gov/bird-flu/h5-monitoring/index.html

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First #human #infection and management of #Versteria rafei infection restricted to #liver with phylogenetic analysis in the context of known cases

Summary

A recently described cestode genus, Versteria, has been implicated in disseminated human disease in North America. We report the first known case of infection with a recently reported species, Versteria rafei, localised to the liver with attempted surgical resection. Through review of other patients known to be infected with this parasite, we established that this is a rare zoonotic infection involving contact with minks and mustelids. Although Versteria belongs to the same family as Echinococcus, there are several important differences. Known Versteria infections in humans typically are symptomatic, quickly involve multiple organs without treatment, and occur in immunosuppressed hosts. Furthermore, albendazole appears to be at least parasitostatic, with a reduction but not a resolution of the lesions under treatment and development of calcifications analogous to changes seen with treatment for alveolar echinococcosis.

Source: Lancet Infectious Diseases, https://www.thelancet.com/journals/laninf/article/PIIS1473-3099(25)00281-6/abstract?rss=yes

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Thursday, June 19, 2025

Discovery of a Novel #Parahenipavirus, Parahenipavirus_GH, in #Shrews in South #Korea, 2022

Abstract

Highly pathogenic henipaviruses (Nipah and Hendra viruses) and parahenipaviruses (Langya virus) have demonstrated significant zoonotic potential. We aimed to identify Henipavirus or Parahenipavirus species in rodents and shrews in South Korea to underline the potential zoonotic transmission risk. Kidney and lung tissues from 285 rodents and shrews were screened for Henipavirus and Parahenipavirus using quantitative real-time reverse transcription polymerase chain reaction (qRT-PCR) targeting the Gamak virus and Daeryong virus (DARV) sequences. Based on the qRT-PCR results, 75 out of the 285 individuals tested positive, with the highest viral loads in the kidneys of Apodemus agrarius, Crocidura lasiura, and Crocidura shantungensis. A kidney sample from C. shantungensis that exhibited the lowest Ct value was further analyzed using PCR, Sanger sequencing, and metagenomic analysis, yielding a near-complete genome of a novel Parahenipavirus, designated Parahenipavirus_GH (PHNV-GH), which is phylogenetically related to DARV and Jingmen virus but exhibits distinct genomic features. Ixodes granulatus ticks were also identified on the host shrew. The identification of PHNV-GH in southern South Korea expands the known geographical distribution range of parahenipaviruses and highlights the ongoing risk of zoonotic transmission. Given the uncertain transmission dynamics and pathogenic potential of parahenipaviruses, comprehensive environmental surveillance and characterization of emerging parahenipaviruses are essential for preventing future outbreaks.

Source: Viruses, https://www.mdpi.com/1999-4915/17/6/867

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#Inactivation of #Influenza A Viruses (#H1N1, #H5N1) During #Grana-Type Raw #Milk #Cheesemaking: Implications for Foodborne #Transmission Risk

Abstract

Background

The detection of H5N1 highly pathogenic avian influenza virus (HPAIV) in lactating dairy cattle in the United States, with high viral titers in raw milk, has raised concerns about potential zoonotic transmission through the consumption of unpasteurized milk and raw-milk dairy products. While inactivation studies exist for pasteurized milk, data on virus persistence during the manufacture of raw-milk cheeses remain scarce

Aim

To evaluate the survival and inactivation of avian influenza viruses (AIV), including both low pathogenic (LPAIV, H1N1) and highly pathogenic (HPAIV, H5N1) strains, during the production and ripening of Grana-type hard cheeses made from raw bovine milk. 

Methods

Experimental cheesemaking was conducted using raw milk artificially contaminated with A-Duck-Italy-281904-2-06 (H1N1; 10 7,75 EID50 per mL) or A-Duck-Italy-326224-2-22 (H5N1 clade 2.3.4.4b; 10 6,75 EID50 per mL). Cheeses were produced in accordance with Parmigiano Reggiano production standards and ripened for 30 days at 5 or 6 degrees Celsius. Viral presence was assessed in finished cheeses by inoculation on SPF embryonated chicken eggs (ECE), hemagglutination (HA) assay, and monoclonal antibody-based ELISA. 

Results

No infectious virus was detected in any cheese sample produced from contaminated milk following two blind passages in SPF-ECE. Both HA and ELISA tests yielded negative results, indicating complete inactivation of the virus. 

Conclusion

This study demonstrates that the traditional Grana-type cheese production process, including curd cooking, acidification, and ripening, effectively inactivates both LPAIV and HPAIV, even at high contamination levels. These findings support the microbiological safety of hard cheeses made from raw milk with regard to AIV, contributing to risk assessment and food safety policies during avian influenza outbreaks.

Source: BioRxIV, https://www.biorxiv.org/content/10.1101/2025.06.18.660327v1

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Wednesday, June 18, 2025

Mapping #Haemagglutinin #Residues Driving #Antigenic Diversity in #H5Nx Avian #Influenza Viruses

Abstract

Since its emergence in 1996, the H5 avian influenza virus (AIV) A/Goose/Guangdong/1/1996 (Gs/GD) haemagglutinin (HA) has evolved into over 30 genetically and antigenically distinct clades, including the widespread clade 2.3.4.4b. Vaccination is widely used in endemic regions to reduce poultry losses and zoonotic risk. However, the evolving antigenic diversity and global co-circulation of multiple clades challenges protective efficacy of poultry vaccines with poor antigenic matching to field strains, resulting in immune escape and vaccine failure. This study aimed to improve vaccine seed selection by identifying HA epitopes contributing to inter-clade antigenic differences. Recombinant clade-representative viruses were generated using HA genes from circulating H5 AIVs via reverse genetics with A/Puerto Rico/8/1934 (PR8) internal and neuraminidase genes. Antigenic relationships were assessed using haemagglutination inhibition (HI) assays with homologous and heterologous chicken antisera. Antigenic cartography revealed a clear distinction of clade 2.3.4.4 from others and notable intra-clade diversity. Pairwise antigenic and genetic comparisons identified 48 putative antigenic residues. These were individually introduced into a candidate HA by site-directed mutagenesis, and antigenic influence assessed by HI using sera raised against the non-mutated HA. Four residues R82K, A83T, T204I, and F229Y had significant antigenic effects, with three (R82K, T204I, F229Y) being novel. These findings demonstrate that combining serology and in silico residue analysis can identify key antigenic determinants. This work highlights the need for precise antigenic matching in vaccine design and highlights the value of combining molecular and immunological tools to optimise vaccine seed selection against diverse and evolving H5 AIV strains.

Source: BioRxIV, https://www.biorxiv.org/content/10.1101/2025.06.18.660338v1

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qRTPCR #Detection of Inactivated #H5 Avian #Influenza Virus in Raw #Milk Samples by Miniaturized Instruments Designed for On-Site Testing

Abstract

Highly pathogenic avian influenza virus (HPAIV) of H5 and H7 subtypes has emerged as one of the most important zoonotic pathogens in the 21st century with significant economic consequences. The recent outbreak of H5N1 avian influenza (AI) in dairy cattle highlighted the importance of early detection in managing and mitigating HPAIV outbreaks. A successful high-speed diagnostic response requires rapid site and specimen access, minimal time for test protocols, and prompt communication of the diagnostic results to government officials. A new diagnostic paradigm that consists of miniaturized extractor and qPCR instruments (EZextractor and EZcycler MiniQ), designed for mobile, on-site testing has been compared with a platform of benchtop instruments (QIAGEN RNeasy and QuantStudio 5) for detecting inactivated H5 avian influenza virus (AIV) spiked in raw milk samples. Two sets of experiments were performed: 1) 15 raw milk samples, obtained from 15 different farms, diluted with phosphate-buffered saline and spiked with the virus to reach approximately 10 copies/mcL virus concentration, and 2) raw milk samples from two farms, each spiked with the inactivated AIV H5 followed by 5 series of dilution to reach AIV concentrations of 1000, 100, 10, 1 and 0.1 copies/mcL. Results show that despite the inhibitors in raw milk, AIV in all samples can be detected by both platforms. The MT platform showed higher sensitivity than the benchtop platform: the Ct values from the MT were ~2 units lower than the benchtop Ct values. Our findings demonstrate the robustness of the MT platform for diagnosing AIV H5 in raw milk samples and support its use as an on-site diagnostic for rapid surveillance and response.

Source: BioRxIV, https://www.biorxiv.org/content/10.1101/2025.06.02.657307v2

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Low #Prevalence of #MERS #Coronavirus #Infection in #Camel-Exposed #Patients Presenting with Respiratory Symptoms in Northern #Kenya

Abstract

Middle East respiratory syndrome coronavirus (MERS-CoV) is a zoonotic virus that causes acute respiratory disease after transmission via close contact with camels. In contrast to the incidence of MERS-CoV human infections in the Middle East, MERS-CoV infections in the Horn of Africa have been rarely reported despite the high number of camels and common camel–human interactions in the area. Whether passive cross-sectional sampling misses active human cases is a significant gap in our understanding of MERS-CoV epidemiology and its impact in the Horn of Africa. To address this gap, we conducted a prospective cross-sectional study at Laisamis Catholic Hospital in northern Kenya’s camel pastoralist community. A total of 942 patients with acute respiratory symptoms were enrolled over 18 months (August 2022–February 2024); 54% of these individuals reported frequent contact with camels and consumption of camel products. Testing via reverse transcriptase – polymerase chain reaction (RT-PCR) revealed that all patients (N = 942) had negative results for MERS-CoV RNA on either nasopharyngeal or oropharyngeal swabs at the time of presentation. Because polymerase chain reaction testing may only detect active cases with higher levels of viral shedding, serology was also performed on a randomly selected subset of 297 individuals from the total sample pool to detect IgG antibodies. Only eight individuals (2.7%) exhibited positive results by serology; accounting for the test specificity of 99.8%, the 95% CI for true MERS-CoV seropositivity was 0.72–4.27%. Despite frequent camel interactions, MERS-CoV seroprevalence was low, suggesting limited zoonotic transmission in this setting and highlighting the need for more comprehensive diagnostics to identify prevalent causes of acute respiratory illness in pastoralist communities.

Source: American Journal of Tropical Medicine and Hygiene, https://www.ajtmh.org/view/journals/tpmd/aop/article-10.4269-ajtmh.25-0098/article-10.4269-ajtmh.25-0098.xml

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Tuesday, June 17, 2025

In vitro and in vivo characterization of a #bat #merbecovirus with #ACE2- and #DPP4-independent cell entry

ABSTRACT

Betacoronaviruses, which have caused three human outbreaks within the last two decades, are thought to originate from bats, raising the concern that bat coronaviruses could cause a novel human outbreak in the future. To determine whether the bat merbecovirus EjCoV-3 strain, previously detected in Eptesicus japonensis in Japan, has the potential to infect humans, we analyzed its cellular entry mechanism. Cellular entry of EjCoV-3 via the spike protein requires protease treatment and is mediated by an unknown receptor, other than DPP4 or ACE2. We generated cultivable recombinant EjCoV-3 using bacterial artificial chromosome-based reverse genetics and found that it efficiently replicated in human respiratory and intestinal cell cultures as well as nasal ciliated epithelium in hamsters. These findings suggest that bat merbecovirus with ACE2- and DPP4-independent cell entry has the potential to cause human infections, highlighting the importance of extensive bat surveillance for pandemic preparedness.


IMPORTANCE

Betacoronaviruses, including severe acute respiratory syndrome coronavirus (SARS-CoV), Middle East respiratory syndrome coronavirus (MERS-CoV), and SARS-CoV-2, have caused three significant outbreaks in the past two decades and are believed to have originated from bats. To investigate the potential for future outbreaks, we generated a Japanese bat-derived MERS-related coronavirus, designated EjCoV-3, using reverse genetics. Our results showed that EjCoV-3 does not utilize ACE2 and DPP4, cell entry receptors for SARS-CoV and MERS-CoV, as a means of infection. However, we found that EjCoV-3 is the first bat merbecovirus capable of efficiently replicating in human respiratory cells and the respiratory tract of hamsters. These findings provide new insight into the potential for MERS-related coronaviruses that do not use ACE2 and DPP4 to infect the human respiratory tract, highlighting the importance of preparedness for outbreaks caused by these viruses.

Source: Journal of Virology, https://journals.asm.org/doi/full/10.1128/jvi.00727-25?af=R

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Incidence of #healthcare-associated #infections in long-term #care #facilities in nine #European countries: a 12-month, prospective, longitudinal cohort study

Summary

Background

The number of older people in need of long-term care is increasing, and health-care-associated infections (HAIs) are a major cause of morbidity and mortality for residents of long-term care facilities (LTCFs). This study, organised by the European Centre for Disease Prevention and Control (ECDC), provided data on the incidence of HAIs and related adverse outcomes in LTCFs in European countries, supplementing the available estimates from repeated point prevalence surveys conducted by the ECDC.

Methods

In this longitudinal, prospective cohort study, we analysed all HAIs collected in a convenience sample of residents from 65 LTCFs (including general nursing homes, residential homes, and mixed facilities) in nine EU or European Economic Area (EEA) countries (Belgium, Finland, France, Italy, Lithuania, Luxembourg, the Netherlands, Poland, and Spain) over 12 months. Eligible residents were those expected to stay in the LTCF for at least the entire study period. Data were collected with three questionnaires: an institutional questionnaire, a residents' questionnaire, and an HAI questionnaire. HAIs were defined according to standard ECDC criteria. The primary outcome was HAI incidence. Incidence measures, estimated using generalised estimating equation models to account for sample heterogeneity, were percentages of each type of HAI, numbers of HAIs per 100 LTCF residents (ratio), and numbers of HAIs per 1000 resident-days (incidence rate).

Findings

HAIs were analysed in 3029 residents of LTCFs between Jan 1–May 4, 2022, and Jan 1–May 12, 2023. The mean age of study participants was 80·9 years (SD 14·6), including 960 (31·7%) men and 2069 (68·3%) women. 3763 HAIs were recorded, with at least one HAI identified in 1717 (57%) of 3029 residents. There were 124·2 HAIs (95% CI 118·6–129·9) per 100 residents and 1·8 HAIs (0·9–3·3) per 1000 resident-days. 160 (4·3% [95% CI 3·9–5·4]) HAIs led to hospitalisation, and 154 (4·5% [2·5–4·8]) were associated with death. Respiratory tract infections (RTIs) were the most frequent type of infection (n=1080, 28·9% [95% CI 27·3–30·5]), including pneumonia (n=279, 7·3% [6·4–8·3]) and other lower RTIs (n=394, 10·7% [9·6–11·8]), followed by urinary tract infections (UTIs; n=743, 18·7% [17·2–20·3]). RTIs showed the highest incidence of mortality (n=85, 2·3% [95% CI 1·8–2·8] of all HAIs). Severe cases of COVID-19 (n=72, 1·9% [95% CI 1·5–2·4] of all HAIs) were less frequent than mild or moderate cases (n=615, 16·0% [14·9–17·1] of all HAIs).

Interpretation

This study shows the high incidence of HAIs among LTCF residents in EU or EEA countries, with more than one in two residents experiencing at least one HAI, and with RTIs and UTIs accounting for almost half of all observed HAIs.

Source: Lancet Infectious Diseases, https://www.thelancet.com/journals/laninf/article/PIIS1473-3099(25)00217-8/fulltext?rss=yes#fig1

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#Cambodia confirmed one additional #human #infection with #influenza A #H5N1 (Min. Health, June 17 '25)



{Automatic translation}

The Ministry of Health of Cambodia notified a case of avian influenza A(H5N1): the patient is a 65-years-old woman from Kraing Ampil, Takeo Province. The patient is now hospitalized in Intensive Care Unit. She developed fever, cough, shortness of breath, did not report contact with diseased birds. A Response Team is investigating actively, adopting prevention and control measures.

The case has been confirmed by Pasteur Institute of Cambodia. (...) Despite investigations so far excluded direct contact with diseases or dead poultry, the patient's relatives own birds and more analysis are being conducted.

The Rapid Response Team continues to investigate the outbreak with the cooperation of local health authorities to find possible source of infection among poultry and humans.

Close contacts of the patient are being searched and will be offered the antiviral oseltamivir for post-exposure prophylaxis.

(...)

Source: Cambodia Ministry of Health, https://moh.gov.kh/kh/notice/detail/161

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Monday, June 16, 2025

#Assessment of public #health #risk of novel #reassortant #H3N3 avian #influenza viruses that emerged in #chickens

ABSTRACT

Influenza A (H3N2) viruses are historically responsible for the 1968 Hong Kong flu pandemic. Since then, H3N2 has continued to circulate as a seasonal influenza virus in humans. Public health concerns were raised in 2022 when human infections with novel reassortant H3N8 influenza viruses originating from chickens were first reported in China. Here, we conducted a systematic surveillance of H3 avian influenza viruses (AIVs) circulating in poultry and assessed the public health risk of emergent H3 reassortants. We found that H3 AIVs were prevalent in both ducks and chickens. Notably, in December 2022, a novel chicken-derived H3N3 subtype virus was identified, which gradually replaced the previously predominant H3N8 virus and became prevalent in chickens. Genetic analysis demonstrated that the novel H3N3 virus is a triple-reassortment strain with the H3 gene segment from chicken H3N8 virus, the N3 gene segment from the H10N3 virus, and internal gene segments derived from H9N2 viruses. Compared with chicken H3N8 and duck H3N3 viruses, the novel chicken H3N3 viruses produced higher yields and induced greater pathogenicity in human respiratory epithelial cells and mammalian models (mouse and ferret). Importantly, the chicken H3N3 viruses could be transmitted efficiently between ferrets through direct contact. The polymerase activity of the chicken H3N3 viruses in mammalian cells was markedly increased by the PA gene originating from the H9N2 virus. Our findings indicate that the circulation of novel chicken H3N3 viruses poses a threat to both the poultry industry and human public health.

Source: mBio, https://journals.asm.org/doi/10.1128/mbio.00677-25

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Virological characterization of a new isolated strain of #Andes virus involved in recent person-to-person #transmission #outbreak reported in #Argentina

Abstract

On November 2, 2018, a person-to-person transmission outbreak of Andes virus (Orthohantavirus andesense) began in the small town of Epuyén, Argentina. The strain demonstrated a high capacity for sustained transmission among the human population requiring the implementation of quarantine measures, rigorous contact tracing, isolation of close contacts, and active clinical monitoring to prevent further spread. In this study, we report the isolation of this strain, which we name the ARG-Epuyén strain, directly from a clinical sample after just three passages in cell culture. Complete sequencing revealed only a single amino acid change post-isolation, suggesting that this strain can be considered a non-adapted wild-type Andes virus, marking a critical step toward the development of medical countermeasures against this emerging pathogen. The pathogenicity and transmissibility potential of ARG-Epuyén were evaluated in hamsters, the only animal model for Hantavirus Pulmonary Syndrome. Additionally, this strain was compared with Andes/ARG, an ANDV strain previously isolated from the same geographical area in the Argentinian Patagonia, from a rodent specimen. Our findings revealed high infectiousness and efficient hamster-to-hamster transmission through direct contact experiments, although ARG-Epuyén appeared to be less pathogenic than Andes/ARG.

Source: PLoS Neglected Tropical Diseases, https://journals.plos.org/plosntds/article?id=10.1371/journal.pntd.0013205

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#Persistence and Active #Replication Status of #Oropouche Virus in Different Body Sites: Longitudinal Analysis of a #Traveler Infected with a Strain Spreading in Latin America

Abstract

An unprecedented outbreak of Oropouche virus (OROV) is occurring in the Americas, characterized by thousands of confirmed cases and a wide geographical spread, including areas outside the Amazon Basin. Little is known about this neglected arbovirus regarding its pathophysiological aspects and potentially different transmission modes. This study describes the clinical course of a man who returned from a trip to Cuba and presented to our hospital 4 days after the onset of febrile symptoms. The patient was diagnosed with Oropouche fever and was followed for 177 days after the onset of symptoms. We performed a longitudinal investigation of the samples collected from several body sites (whole blood, serum, urine, and semen) with the aim of providing further insights into OROV infection dynamics, using the detection of antigenomic RNA as a marker of active viral replication. Clinical samples that were longitudinally collected over the course of OROV infection showed consistently higher amounts of antigenomic RNA compared to genomic RNA, even after viral clearance from serum. Moreover, our case study showed the persistence of OROV RNA in serum of less than 15 days from the onset of symptoms, as compared to up to one month in urine, three months in semen, and four months in whole blood. Our study suggests that Oropouche virus may persist in an actively replicating state in different body sites for long periods of time, with important implications for transmission dynamics. Furthermore, our results provide a diagnostic indication, suggesting that serum is inferior to both urine and whole blood as preferred diagnostic samples. Further studies are needed to determine the pathogenetic implications of these findings, as they have been derived from a single case and must be confirmed using a larger number of cases.

Source: Viruses, https://www.mdpi.com/1999-4915/17/6/852

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The #Seroprevalence of #Influenza A Virus #Infections in Polish #Cats During a Feline #H5N1 Influenza #Outbreak in 2023

Abstract

Recently, cats have emerged as potential incidental hosts for avian and human influenza A viruses (IAVs), including the highly pathogenic avian influenza (HPAI) H5N1 virus. Following an unprecedented outbreak of H5N1 HPAI in cats in Poland in June 2023, we conducted a cross-sectional epidemiological study to assess the seroprevalence of IAV, especially H5Nx, infections in domestic cats. Eight hundred thirty-five serum samples collected in June 2023 were tested using a competitive ELISA for antibodies to IAV nucleoprotein. Positive or doubtful samples were further screened for H5-specific antibodies. The overall seropositivity for IAV was 8.5% (CI 95%: 6.8%, 10.6%; 71/835 cats), and 23/68 IAV-seropositive cats (33.8%) were also seropositive for H5 antigen. Multivariable analysis identified young age (≤8 years) and male sex as significant risk factors for H5 seropositivity, while non-H5-IAV seropositivity was more common in cats aged ≥12 years. These findings suggest different exposure pathways and host risk profiles for H5 and non-H5 IAVs and underscore the importance of enhanced surveillance in cats, particularly in regions affected by HPAI outbreaks. Given the susceptibility of cats to both avian and human IAVs, including subclinical infections, there is a theoretical risk for viral reassortment. Preventive measures, including vaccinating humans and restricting outdoor access for cats, should be considered in endemic areas.

Source: Viruses, https://www.mdpi.com/1999-4915/17/6/855

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Sunday, June 15, 2025

The Annunciation, Dante Gabriel Rossetti (1849 - 1850)

 


Public Domain.

Source: WikiArt, https://www.wikiart.org/en/dante-gabriel-rossetti/the-annunciation

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#SARS-CoV-2 #antibody #immunity across three #continents: the West #Africa, West #Indies, West #London Consortium

Abstract

Background

The experience of the COVID-19 pandemic has differed across continents. We hypothesized that regional differences in SARS-CoV-2 immunity might explain this observation. We therefore established the WWW Consortium in Ghana, W Africa; Jamaica, W Indies; and W London. Here, we describe the extent to which antibody immunity differs between these geographic locations. 

Methods

The WWW Consortium harmonises across the HERITAGE (Accra, Ghana), WINDFall (Kingston, Jamaica) and Legacy (London, UK) studies, establishing sharing frameworks for samples, metadata, and data; related permissions and oversight; and associated physical and cloud infrastructure. With centralised testing, we performed serological assessments across all three locations at two snapshots in 2024 (April 1st - August 18th; August 19th - December 31st) using high-throughput live virus neutralization and anti-nucleocapsid IgG, including n=763 individuals. 

Findings

We found that across all sites most participants had detectable neutralising antibody titres against JN.1 and XEC - the predominant variants in 2024. There were site-related differences in immunity: vaccine-included SARS-CoV-2 strains were better neutralised by participants from the Legacy study - Ancestral, BA.5, XBB.1.5 initially, and JN.1 after a homologous booster in autumn 2024. For HERITAGE, neutralisation of both alpha- (HCoV-229E) and beta-coronaviruses (HCoV-OC43) was higher than WINDFall suggesting a cross-coronavirus serological response in West Africa. Finally, antigenic cartography identified two distinct antibody landscapes, with JN.1 and XEC antigenically distant in Legacy, but not in HERITAGE and WINDFall. 

Interpretation

There is international heterogeneity in SARS-CoV-2 antibody immunity. Global recommendations for vaccine strain selection should incorporate data from diverse populations to ensure accurate, equitable recommendations. 

Funding: The Wellcome Trust.

Source: MedRxIV, https://www.medrxiv.org/content/10.1101/2025.06.13.25329588v1

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Campus-based #genomic #surveillance uncovers early emergence of a future dominant A(#H3N2) #influenza clade

Abstract

We conducted genomic surveillance of seasonal influenza during the 2022-2023 northern hemisphere flu season on a large university setting in Southwest Arizona USA to understand the diversity, evolution, and spread within a local environment and how it relates to national data. Through high-throughput sequencing and bioinformatics, we identified 100 positive samples (19%) from 516 clinical swabs collected at the student health clinic. We observed a dominance of subtype A(H3N2) which was consistent nationally for the 2022-2023 season. However, we found stark differences when examining subtype-specific H3 clades, which included an early dominance of clade 2a.3a.1 variants contrasting from country-level data in which 2b variants were most abundant. These variants might have contributed to the early seasonal peak on campus which lagged national trends by one month. We used phylodynamics to understand the timing, source, and impact of clade-specific introductions on campus and observed introductions of 2b variants from North America, Europe, and Asia in early 2022 which possibly contributed to its later-season dominance on campus towards the end of 2022. We also observed the impact of 2b variants in our Bayesian epidemiological model, as its its emergence and rapid rise coincided with the peak of infection on campus. We found several highly prevalent H3 mutations in known epitope sites that have been observed in multiple 3c.2a clades. In particular, we note the presence of N96S (N=57, 63%) which is a defining mutation of 2a.3 and 2a.3a.1 variants and has been shown to create a new potential N-glycosylation site in the globular head. We estimated vaccine effectiveness via an H3 epitope model with a range of 0.13-0.48 which overlaps with estimates for that year. Taken together, the abundance of antigenic drift mutations, in addition to our identification of numerous sequons found within HA1 (globular head) with high glycosylation potential likely contributed to moderate vaccine effectiveness on campus for that season. As 2a.3a.1 variants became nearly the exclusive H3 clade nationally in 2023-2024 as well as 2024-2025, our identification of their dominance on campus highlights the importance of monitoring local settings as potential early examples for national and influenza trajectories. By using high-throughput sequencing and multiple bioinformatics methods, we show the importance of genomic epidemiology in semi-closed, highly-dense university settings and its potential for early insight of seasonal influenza diversity at a national scale.

Source: MedRxIV, https://www.medrxiv.org/content/10.1101/2025.06.13.25329559v1

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