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whole-genome sequencing

  • Polyclonal Dissemination of NDM-1- and NDM-9-Producing <span class="named-content genus-species" id="named-content-1">Escherichia coli</span> and <span class="named-content genus-species" id="named-content-2">Klebsiella pneumoniae</span> in French Polynesia
    Epidemiology and Surveillance
    Polyclonal Dissemination of NDM-1- and NDM-9-Producing Escherichia coli and Klebsiella pneumoniae in French Polynesia

    The whole-genome sequencing analysis revealed a polyclonal dissemination of NDM-1 and NDM-9 variants in Escherichia coli (n = 20) and Klebsiella pneumoniae (n = 2) in Tahiti since 2015 via interspecies transfer of three different blaNDM-carrying plasmids (IncR,...

    Saoussen Oueslati, Cécile Emeraud, Victor Grosperrin, Marc Levy, Garance Cotellon, Elodie Creton, Lauraine Gauthier, Rémy A. Bonnin, Thierry Naas, Laurent Dortet
  • Whole-Genome and Targeted-Amplicon Sequencing of Fluconazole-Susceptible and -Resistant <span class="named-content genus-species" id="named-content-1">Candida parapsilosis</span> Isolates from Kuwait Reveals a Previously Undescribed N1132D Polymorphism in <em>CDR1</em>
    Letter to the Editor
    Whole-Genome and Targeted-Amplicon Sequencing of Fluconazole-Susceptible and -Resistant Candida parapsilosis Isolates from Kuwait Reveals a Previously Undescribed N1132D Polymorphism in CDR1
    Mohammad Asadzadeh, Mohammed Dashti, Suhail Ahmad, Wadha Alfouzan, Abbas Alameer
  • Dynamics of <em>bla</em><sub>KPC-2</sub> Dissemination from Non-CG258 <em>Klebsiella pneumoniae</em> to Other <em>Enterobacterales</em> via IncN Plasmids in an Area of High Endemicity
    Epidemiology and Surveillance
    Dynamics of blaKPC-2 Dissemination from Non-CG258 Klebsiella pneumoniae to Other Enterobacterales via IncN Plasmids in an Area of High Endemicity

    Carbapenem-resistant Enterobacterales (CRE) pose a significant threat to global public health. The most important mechanism for carbapenem resistance is the production of carbapenemases. Klebsiella pneumoniae carbapenemase (KPC) represents one of the main carbapenemases worldwide. Complex mechanisms of blaKPC dissemination have been...

    Ana M. Rada, Elsa De La Cadena, Carlos Agudelo, Cesar Capataz, Nataly Orozco, Cristian Pallares, An Q. Dinh, Diana Panesso, Rafael Ríos, Lorena Diaz, Adriana Correa, Blake M. Hanson, Maria V. Villegas, Cesar A. Arias, Eliana Restrepo
  • Antimicrobial Resistance of <span class="named-content genus-species" id="named-content-1">Neisseria gonorrhoeae</span> Isolates from High-Risk Men in Johannesburg, South Africa
    Epidemiology and Surveillance
    Antimicrobial Resistance of Neisseria gonorrhoeae Isolates from High-Risk Men in Johannesburg, South Africa

    Neisseria gonorrhoeae antimicrobial drug resistance has emerged worldwide; however, the situation in sub-Saharan Africa is not well documented. We investigated the molecular epidemiology and occurrence of antimicrobial resistance in Neisseria gonorrhoeae infections in two core transmission groups of...

    Liteboho D. Maduna, Marleen M. Kock, Brian M. J. W. van der Veer, Oscar Radebe, James McIntyre, Lieke B. van Alphen, Remco P. H. Peters
  • Free
    Genomic Profiling of Evolving Daptomycin Resistance in a Patient with Recurrent <span class="named-content genus-species" id="named-content-1">Staphylococcus argenteus</span> Sepsis
    Editor's Pick Challenging Clinical Case in Antimicrobial Resistance
    Genomic Profiling of Evolving Daptomycin Resistance in a Patient with Recurrent Staphylococcus argenteus Sepsis

    Staphylococcus argenteus is a novel staphylococcal species associated with invasive disease. We report the first case of daptomycin/vancomycin-resistant S. argenteus, initially speciated as Staphylococcus aureus, that developed...

    Samantha Hao, Mazin Abdelghany, Amy Lyden, Rene Sit, Michelle Tan, Cristina M. Tato, Joseph L. DeRisi, Steve Miller, Sarah B. Doernberg, Charles Langelier
  • <em>ramR</em> Deletion in an <span class="named-content genus-species" id="named-content-1">Enterobacter hormaechei</span> Isolate as a Consequence of Therapeutic Failure of Key Antibiotics in a Long-Term Hospitalized Patient
    Mechanisms of Resistance
    ramR Deletion in an Enterobacter hormaechei Isolate as a Consequence of Therapeutic Failure of Key Antibiotics in a Long-Term Hospitalized Patient

    Genome changes are central to the adaptation of bacteria, especially under antibiotic pressure. The aim of this study was to report phenotypic and genomic adaptations undergone by an Enterobacter hormaechei clinical strain that became highly resistant to key antimicrobials during a 4-month period in a patient hospitalized in an intensive care unit (ICU). All six...

    François Gravey, Vincent Cattoir, Frédéric Ethuin, Laetitia Fabre, Racha Beyrouthy, Richard Bonnet, Simon Le Hello, François Guérin
  • Antifungal Susceptibility of Clinical Yeast Isolates from a Large Canadian Reference Laboratory and Application of Whole-Genome Sequence Analysis To Elucidate Mechanisms of Acquired Resistance
    Epidemiology and Surveillance
    Antifungal Susceptibility of Clinical Yeast Isolates from a Large Canadian Reference Laboratory and Application of Whole-Genome Sequence Analysis To Elucidate Mechanisms of Acquired Resistance

    To understand the epidemiology and susceptibility patterns of yeast infections in Ontario, Canada, we examined 4,715 clinical yeast isolates submitted to our laboratory for antifungal susceptibility testing from 2014 to 2018. Candida albicans was the most frequently submitted species (43.0%), followed by C...

    Lisa R. McTaggart, Ana Cabrera, Kirby Cronin, Julianne V. Kus
  • Role of Whole-Genome Sequencing in Characterizing the Mechanism of Action of <em>para</em>-Aminosalicylic Acid and Its Resistance
    Mechanisms of Resistance
    Role of Whole-Genome Sequencing in Characterizing the Mechanism of Action of para-Aminosalicylic Acid and Its Resistance

    para-Aminosalicylic acid (PAS) remains one of the drugs of last resort for the treatment of tuberculosis, but its mechanism of action is still not completely understood. The main aim of this project was to identify new potential mechanisms of action and resistance to PAS by performing whole-genome sequencing on PAS-resistant laboratory mutants. A new variant in the folC gene was identified, as well as some other...

    Giovanni Satta, Adam A. Witney, Neelu Begum, Julio Ortiz Canseco, Andrew N. Boa, Timothy D. McHugh
  • Genomic Analysis Reveals Antibiotic-Susceptible Clones and Emerging Resistance in <span class="named-content genus-species" id="named-content-1">Neisseria gonorrhoeae</span> in Saskatchewan, Canada
    Epidemiology and Surveillance
    Genomic Analysis Reveals Antibiotic-Susceptible Clones and Emerging Resistance in Neisseria gonorrhoeae in Saskatchewan, Canada

    Whole-genome sequencing was used to identify mutations in antibiotic resistance-conferring genes to compare susceptibility predictions with MICs and to ascertain strain types in 99 isolates of Neisseria gonorrhoeae. Genotypes associated with susceptibility, as well as MIC creep or emerging resistance, were noted. Phylogenomic analysis revealed three distinctive clades...

    Nidhi R. Parmar, Reema Singh, Irene Martin, Sumudu R. Perera, Walter Demczuk, Anthony Kusalik, Jessica Minion, Jo-Anne R. Dillon
  • Open Access
    Evidence for Expanding the Role of Streptomycin in the Management of Drug-Resistant <span class="named-content genus-species" id="named-content-1">Mycobacterium tuberculosis</span>
    Mechanisms of Resistance
    Evidence for Expanding the Role of Streptomycin in the Management of Drug-Resistant Mycobacterium tuberculosis

    In 2019, the WHO tuberculosis (TB) treatment guidelines were updated to recommend only limited use of streptomycin, in favor of newer agents or amikacin as the preferred aminoglycoside for drug-resistant Mycobacterium tuberculosis. However, the emergence of resistance to newer drugs, such as bedaquiline, has prompted a reanalysis of antitubercular drugs in search of...

    Keira A. Cohen, Katharine E. Stott, Vanisha Munsamy, Abigail L. Manson, Ashlee M. Earl, Alexander S. Pym

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