Browsing by Author "Alafi, Stephen"

Now showing 1 - 4 of 4
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    Draft genome of Orthopoxvirus monkeypox virus hMpxV/Uganda/MUWRP-H1922SL/2025 detected in Uganda
    (American Society for Microbiology, 2026-06-15) Alafi, Stephen; Wokorach, Godfrey; Tugume, Titus; Erima, Bernard; Mworozi, Edison A.; sensamba, Jude T. S; Kiyengo, James; Kibuuka, Hannah; Musinguzi, Ambrose K.; Koehler, Jeffrey W.; ichardson, Joshua B. R; Paola, Nicholas Di; Kugelman, Jeffrey; Wabwire-Mangen, Fred; Byarugaba, Denis K.
    Mpox virus from Clade I exhibits high virulence and poses significant mortality risks, especially among children. We isolated a strain of the mpox virus (hMpxV/Uganda/MUWRP-H1922SL/2025) from an adult woman in Uganda. Using phylogenetic tree analysis and PoxServer evaluation, we determined that this strain belongs to Clade/Lineage Ib.
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    Draft genome sequence of Acinetobacter haemolyticus strain MUWRP1017 isolated from the pus of a female inpatient at Bwera General Hospital in Uganda
    (American Society for Microbiology, 2024-08-20) Wokorach, Godfrey; Erima, Bernard; Alafi, Stephen; Kabatesi, Hope O.; Muhindo, Julius T.; Najjuka, Florence; Kiyengo, James; Kibuuka, Hannah; Musinguzi, Ambrose K.; Wabwire-Mangen, Fred; Byarugaba, Denis K.
    The bacterium Acinetobacter haemolyticus, with a genome size of 3.4 Mb, was isolated from a pus swab of a wound on the left lower limb above the ankle joint of a female patient. This strain carries the antimicrobial resistance genes cephalosporinase blaADC-25, oxallinase blaOXA-264, floR, and sul2 and other resistance and virulence genes.
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    Genomic architecture of fourth-generation cephalosporin-resistant Klebsiella pneumoniae Species Complex (KpSC) from patients and their hospital environment in Uganda
    (Springer Nature, 2026-06-01) Byarugaba, Denis K.; Wokorach, Godfrey; Hounmanou, Yaovi M.H.; Wanyana, Agnes; Alafi, Stephen; Wabwire‑Mangen, Fred; Christensen, Henrik; Olsen, John E.
    The emergence of fourth-generation cephalosporin-resistant (4GCR) K. pneumoniae species complex (KpSC) is a human health concern due to limited therapeutic options and association of the bacteria with severe morbidity and mortality. This study investigated the genomic characteristics of 4GCR K. pneumoniae species complex strains from patients and their hospital environment in Uganda. Twenty-seven isolates were obtained from two tertiary healthcare hospitals in Uganda. Whole genomic sequence (WGS) analysis revealed dominance of phylogroup Kp1 (70.4%). Isolates were highly diverse genetically, representing 15 clonal groups and 10 different serotypes, with isolates of CG17 (6/27) and serotype O5 (25%) as the most common. Core genome SNP-based phylogenetic comparison placed Ugandan strains together with strains from African lineages; however, with a few strains clustering with global references. Most strains carried multiple resistance genes, particularly CTX-M-15 (24/27) and aminoglycoside-modifying enzymes. A search for virulence factors revealed that most isolates carried few virulence genes, particularly those associated with hypervirulence. A yersiniabactin loci was detected in a subset of Kp1 isolates. Ten plasmid replicons and multiple insertion sequences were detected that may mediate resistance dissemination. These findings provide evidence of 4GCR KpSC in clinical settings and patient environments in Uganda. This underscores the need for ongoing genomic surveillance and antimicrobial stewardship to enable early detection of resistant strains and prevent localized clusters from escalating into widespread outbreaks in hospitals across the country.
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    Genomic epidemiology of multidrug-resistant Escherichia coli and Klebsiella pneumoniae in Kenya, Uganda, and Jordan
    (CDC, 2024-11-11) Byarugaba, Denis K.; Osman, Tamer S.; Sayyouh, Omar M.; Wokorach, Godfrey; Kigen, Collins K.; Muturi, James W.; Onyonyi, Vanessa N.; Said, Mayar M.; Nasrat, Salwa A.; Gazo, Mahmoud; Erima, Bernard; Alafi, Stephen; Kabatesi, Hope O.; Wabwire-Mangen, Fred; Kibuuka, Hannah; Sapre, Anjali P.; Bartlett, Katelyn V.; Lebreton, Francois; Martin, Melissa J.; Mahugu, Evelyn W.; Smith, Hunter J.; Musila, Lillian A.
    Surveillance of antimicrobial resistance in Kenya, Uganda, and Jordan identified multidrug-resistant high-risk bacterial clones: Escherichia coli sequence types 131, 1193, 69, 167, 10, 648, 410, 405 and Klebsiella pneumoniae sequence types 14, 147, 307, 258. Clones emerging in those countries exhibited high resistance mechanism diversity, highlighting a serious threat for multidrug resistance.