ETIDIOH - NEW

  Highlights • All clades of monkeypox virus (MPXV) continue to circulate in several countries. When mpox outbreaks are not rapidly contained and human-to-human transmission is not interrupted , they continue to pose a risk of sustained community transmission .   • Since the last edition of this report, no new countries have reported cases of clade Ib MPXV for the first time.   • Nineteen countries in Africa have reported ongoing mpox transmission in the past six weeks. Clade IIb MPXV continues to be reported in West Africa , while Central African countries report both clade Ia and clade Ib MPXV, and East African countries report clade Ib MPXV .  • The recent overall downward trend of confirmed cases across the continent is driven by the decrease in cases in Sierra Leone , the Democratic Republic of the Congo , and some reporting delays. Challenges with access to testing continue in the Democratic Republic of the Congo.   • An upward trend has bee...

  {Excerpt} Time Period: June 29, 2025 - July 05, 2025 -- H5 Detection :  2 sites ( 0.6% ) -- No Detection :  330 sites ( 99.4% ) -- No samples in last week :  77 sites (...) Source: US Centers for Disease Control and Prevention,  https://www.cdc.gov/nwss/rv/wwd-h5.html ____

Abstract Although vaccines and treatments have strengthened our ability to combat the COVID-19 pandemic , new variants of SARS-CoV-2 continue to emerge in human populations. Because the evolution of SARS-CoV-2 is driven by mutation , a better understanding of its mutation rate and spectrum could improve our ability to forecast the trajectory of the pandemic . Here, we use circular RNA consensus sequencing (CirSeq) to determine the mutation rate of six SARS-CoV-2 variants and perform a short-term evolution experiment to determine the impact of these mutations on viral fitness. Our analyses indicate that the SARS-CoV-2 genome mutates at a rate of ∼1.5 × 10−6/base per viral passage and that the spectrum is dominated by C → U transitions. Moreover, we find that the mutation rate is significantly reduced in regions that form base-pairing interactions and that mutations that affect these secondary structures are especially harmful to viral fitness. In this work, we show that the biased mutat...

Abstract The current study aimed to investigate the genetic characterization and evolution of low pathogenic avian influenza virus H9N2 in Egypt . Ten H9N2 viruses were recently isolated from samples collected between 2019 and 2023. Phylogenetic analysis of the haemagglutinin (HA) gene segment of the H9N2 isolates showed a relatedness with G1 H9 4.2 lineage and clustered within genotype III of the Egyptian strains identified earlier in 2018. The majority of H9N2 strains had seven and eight glycosylation sites in HA and neuraminidase (NA) respectively . All strains carried H191 and L234 residues in their hemagglutinin which are markers facilitating avian-to-human cross species barrier transmission . No stalk deletions were detected in NA gene. In addition, genetic analysis of the NA and M encoding proteins revealed the absence of substitutions associated with resistance to oseltamivir and amantadine . The NA showed S372A and R403W substitutions which were previously detected in H3N2 and...