Jessica A. Wisniewski
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View article: Nanopore sequencing enables highly accurate genotyping and identification of resistance determinants in key nosocomial pathogens
Nanopore sequencing enables highly accurate genotyping and identification of resistance determinants in key nosocomial pathogens Open
Whole genome sequencing of bacterial pathogens can positively impact infectious disease management in clinical contexts, both in individual settings and assisting infection prevention efforts. However, logistical issues have often prevente…
View article: AMR-GNN: A multi-representation graph neural network framework to enable genomic antimicrobial resistance prediction
AMR-GNN: A multi-representation graph neural network framework to enable genomic antimicrobial resistance prediction Open
Whole-genome sequencing (WGS) data are an invaluable resource for understanding antimicrobial resistance (AMR) mechanisms. However, WGS data are high-dimensional and the lack of standardized genomic representations is a key barrier to AMR …
View article: Complex pathways to ceftolozane-tazobactam resistance in clinical <i>Pseudomonas aeruginosa</i> isolates: a genomic epidemiology study
Complex pathways to ceftolozane-tazobactam resistance in clinical <i>Pseudomonas aeruginosa</i> isolates: a genomic epidemiology study Open
Objectives We aimed to conduct a comprehensive genomic analysis of ceftolozane/tazobactam (C/T) resistance mechanisms in Pseudomonas aeruginosa by combining novel institutional data with publicly available sequencing data. Methods We analy…
View article: Genomic diversity of clinically relevant bacterial pathogens from an acute care hospital in Suva, Fiji
Genomic diversity of clinically relevant bacterial pathogens from an acute care hospital in Suva, Fiji Open
Objectives Antimicrobial resistance (AMR) is a global health threat, with third-generation cephalosporin–resistant (3GCR) and carbapenem-resistant infections of particular concern. There is currently a lack of genomic data on AMR organisms…
View article: Mechanistic insights and clinical implications of cross-reactive anti-prophage antibodies and bacterial heteroresistance on phage therapeutic failure
Mechanistic insights and clinical implications of cross-reactive anti-prophage antibodies and bacterial heteroresistance on phage therapeutic failure Open
Phage therapy is an exciting strategy against antimicrobial-resistant bacterial infections, but critical knowledge gaps regarding its clinical application persist. Studying a patient with a life-threatening, chronic bacterial infection who…
View article: Hospital <i>Enterococcus faecium</i> demonstrates distinct environmental and patient reservoirs: a genomic point prevalence survey
Hospital <i>Enterococcus faecium</i> demonstrates distinct environmental and patient reservoirs: a genomic point prevalence survey Open
We assessed the hospital environment as a reservoir of vancomycin-resistant E. faecium (VRE) and compared environmental VRE isolates to bloodstream infection E. faecium isolates. We identified distinct environmental and patient reservoirs,…
View article: Targeted sequencing of <i>Enterobacterales</i> bacteria using CRISPR-Cas9 enrichment and Oxford Nanopore Technologies
Targeted sequencing of <i>Enterobacterales</i> bacteria using CRISPR-Cas9 enrichment and Oxford Nanopore Technologies Open
Sequencing DNA directly from patient samples enables faster pathogen characterization compared to traditional culture-based approaches, but often yields insufficient sequence data for effective downstream analysis. CRISPR-Cas9 enrichment i…
View article: Ceftolozane/tazobactam disrupts <i>Pseudomonas aeruginosa</i> biofilms under static and dynamic conditions
Ceftolozane/tazobactam disrupts <i>Pseudomonas aeruginosa</i> biofilms under static and dynamic conditions Open
Background Pseudomonas aeruginosa biofilms limit the efficacy of currently available antibacterial therapies and pose significant clinical challenges. Pseudomonal biofilms are complicated further when other markers of persistence such as m…
View article: Wild-Type Domestication: Loss of Intrinsic Metabolic Traits Concealed by Culture in Rich Media
Wild-Type Domestication: Loss of Intrinsic Metabolic Traits Concealed by Culture in Rich Media Open
Bacteria are typically isolated on rich media to maximise isolation success, removing them from their native evolutionary context. This eliminates selection pressures, enabling otherwise deleterious genomic events to accumulate. Here, we p…
View article: Hospital<i>Enterococcus faecium</i>demonstrates distinct environmental and patient reservoirs: a genomic point prevalence survey
Hospital<i>Enterococcus faecium</i>demonstrates distinct environmental and patient reservoirs: a genomic point prevalence survey Open
Objectives Enterococcus faecium is a common cause of hospital-acquired infections and is associated with vancomycin resistance. The hospital environment is often a reservoir for E. faecium due to its ability to survive on surfaces. In 2019…
View article: A Finger-Actuated Sample-Dosing Capillary-Driven Microfluidic Device for Loop-Mediated Isothermal Amplification
A Finger-Actuated Sample-Dosing Capillary-Driven Microfluidic Device for Loop-Mediated Isothermal Amplification Open
Loop-mediated isothermal amplification (LAMP) has attracted significant attention for rapid and accurate point-of-care diagnostics. However, integrating sample introduction, lysis, amplification, and detection steps into an easy-to-use, di…
View article: Predicting <i>Pseudomonas aeruginosa</i> drug resistance using artificial intelligence and clinical MALDI-TOF mass spectra
Predicting <i>Pseudomonas aeruginosa</i> drug resistance using artificial intelligence and clinical MALDI-TOF mass spectra Open
Matrix-assisted laser desorption/ionization–time of flight mass spectrometry (MALDI-TOF MS) is widely used in clinical microbiology laboratories for bacterial identification but its use for detection of antimicrobial resistance (AMR) remai…
View article: Targeted sequencing of<i>Enterobacterales</i>bacteria using CRISPR-Cas9 enrichment and Oxford Nanopore Technologies
Targeted sequencing of<i>Enterobacterales</i>bacteria using CRISPR-Cas9 enrichment and Oxford Nanopore Technologies Open
Sequencing DNA directly from patient samples enables faster pathogen characterisation compared to traditional culture-based approaches, but often yields insufficient sequence data for effective downstream analysis. CRISPR-Cas9 enrichment i…
View article: Genomic investigation of multispecies and multivariant <i>bla</i><sub>NDM</sub> outbreak reveals key role of horizontal plasmid transmission
Genomic investigation of multispecies and multivariant <i>bla</i><sub>NDM</sub> outbreak reveals key role of horizontal plasmid transmission Open
Objectives: New Delhi metallo-β-lactamases (NDMs) are major contributors to the spread of carbapenem resistance globally. In Australia, NDMs were previously associated with international travel, but from 2019 we noted increasing incidence …
View article: Pilot study to evaluate the need and implementation of a multifaceted nurse-led antimicrobial stewardship intervention in residential aged care
Pilot study to evaluate the need and implementation of a multifaceted nurse-led antimicrobial stewardship intervention in residential aged care Open
Objectives To evaluate the need and feasibility of a nurse-led antimicrobial stewardship (AMS) programme in two Australian residential aged care homes (RACHs) to inform a stepped-wedged, cluster randomized controlled trial (SW-cRCT). Metho…
View article: Predicting<i>Pseudomonas aeruginosa</i>drug resistance using artificial intelligence and clinical MALDI-TOF mass spectra
Predicting<i>Pseudomonas aeruginosa</i>drug resistance using artificial intelligence and clinical MALDI-TOF mass spectra Open
Matrix-assisted laser desorption/ionization–time of flight mass spectrometry (MALDI-TOF MS) is widely used in clinical microbiology laboratories for bacterial identification but its use for prediction of antimicrobial resistance (AMR) rema…
View article: Genomic investigation of multi-species and multi-variant blaNDM outbreak reveals key role of horizontal IncN and IncX3 plasmid transfer
Genomic investigation of multi-species and multi-variant blaNDM outbreak reveals key role of horizontal IncN and IncX3 plasmid transfer Open
Objectives New Delhi metallo-beta-lactamases (NDMs) are major contributors to the spread of carbapenem resistance globally. In Australia, NDMs were previously associated with international travel but from 2019 we noted increasing NDM episo…
View article: Genomic dissection of endemic carbapenem resistance: metallo-beta-lactamase gene dissemination through clonal, plasmid and integron transfer pathways
Genomic dissection of endemic carbapenem resistance: metallo-beta-lactamase gene dissemination through clonal, plasmid and integron transfer pathways Open
Infections caused by metallo-beta-lactamase-producing organisms (MBLs) are a global health threat. Our understanding of transmission dynamics and how MBLs establish endemicity remains limited. We analysed two decades of bla IMP-4 evolution…
View article: Genomic dissection of endemic carbapenem resistance: metallo-beta-lactamase gene dissemination through clonal, plasmid and integron transfer pathways
Genomic dissection of endemic carbapenem resistance: metallo-beta-lactamase gene dissemination through clonal, plasmid and integron transfer pathways Open
Dataset of blaIMP-4 genomes from Alfred Hospital, Melbourne
View article: SARS-CoV-2 infection results in immune responses in the respiratory tract and peripheral blood that suggest mechanisms of disease severity
SARS-CoV-2 infection results in immune responses in the respiratory tract and peripheral blood that suggest mechanisms of disease severity Open
Respiratory tract infection with SARS-CoV-2 results in varying immunopathology underlying COVID-19. We examine cellular, humoral and cytokine responses covering 382 immune components in longitudinal blood and respiratory samples from hospi…
View article: A Highly Specific Holin-Mediated Mechanism Facilitates the Secretion of Lethal Toxin TcsL in Paeniclostridium sordellii
A Highly Specific Holin-Mediated Mechanism Facilitates the Secretion of Lethal Toxin TcsL in Paeniclostridium sordellii Open
Protein secretion is generally mediated by a series of distinct pathways in bacteria. Recently, evidence of a novel bacterial secretion pathway involving a bacteriophage-related protein has emerged. TcdE, a holin-like protein encoded by to…
View article: Identity and Nation: Comparing Egyptian and Israeli Bedouin Policy
Identity and Nation: Comparing Egyptian and Israeli Bedouin Policy Open
In many ways, the Egyptian and Israeli states fail to 'see' the Bedouin and therefore situate them as a group "in but not of the global order," an order where nations and states represent contingent identities and socio-political organizat…
View article: Crystal structure of TcpK in complex with oriT DNA of the antibiotic resistance plasmid pCW3
Crystal structure of TcpK in complex with oriT DNA of the antibiotic resistance plasmid pCW3 Open
Conjugation is fundamental for the acquisition of new genetic traits and the development of antibiotic resistance in pathogenic organisms. Here, we show that a hypothetical Clostridium perfringens protein, TcpK, which is encoded by the tet…
View article: Functional analysis of the conjugation system from Clostridium perfringens
Functional analysis of the conjugation system from Clostridium perfringens Open
In Clostridium perfringens, toxins that cause histotoxic and gastrointestinal diseases have been identified on a family of large conjugative plasmids. The tcp transfer locus was initially identified on the prototype conjugative plasmid, pC…