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  1. Article ; Online: Multi-Locus Microsatellite Typing of Colonising and Invasive

    Birnie, Joshua D / Ahmed, Tanveer / Kidd, Sarah E / Westall, Glen P / Snell, Gregory I / Peleg, Anton Y / Morrissey, Catherine Orla

    Journal of fungi (Basel, Switzerland)

    2024  Volume 10, Issue 2

    Abstract: Aspergillus ... ...

    Abstract Aspergillus fumigatus
    Language English
    Publishing date 2024-01-24
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2784229-0
    ISSN 2309-608X ; 2309-608X
    ISSN (online) 2309-608X
    ISSN 2309-608X
    DOI 10.3390/jof10020095
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  2. Article ; Online: Virulence attributes of successful methicillin-resistant

    Jiang, Jhih-Hang / Cameron, David R / Nethercott, Cara / Aires-de-Sousa, Marta / Peleg, Anton Y

    Clinical microbiology reviews

    2023  Volume 36, Issue 4, Page(s) e0014822

    Abstract: Methicillin- ... ...

    Abstract Methicillin-resistant
    MeSH term(s) Humans ; Methicillin-Resistant Staphylococcus aureus/genetics ; Staphylococcus aureus ; Virulence ; Anti-Bacterial Agents ; Community-Acquired Infections ; Exotoxins/genetics ; Exotoxins/metabolism ; Staphylococcal Infections/drug therapy ; Staphylococcal Infections/epidemiology ; Virulence Factors/genetics
    Chemical Substances Anti-Bacterial Agents ; Exotoxins ; Virulence Factors
    Language English
    Publishing date 2023-11-20
    Publishing country United States
    Document type Journal Article ; Review
    ZDB-ID 645015-5
    ISSN 1098-6618 ; 0893-8512
    ISSN (online) 1098-6618
    ISSN 0893-8512
    DOI 10.1128/cmr.00148-22
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    In stock of ZB MED Cologne/Königswinter

    Zs.A 2409: Show issues Location:
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    Jg. 1995 - 2021: Lesesall (2.OG)
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  3. Article ; Online: EHR-QC: A streamlined pipeline for automated electronic health records standardisation and preprocessing to predict clinical outcomes.

    Ramakrishnaiah, Yashpal / Macesic, Nenad / Webb, Geoffrey I / Peleg, Anton Y / Tyagi, Sonika

    Journal of biomedical informatics

    2023  Volume 147, Page(s) 104509

    Abstract: The adoption of electronic health records (EHRs) has created opportunities to analyse historical data for predicting clinical outcomes and improving patient care. However, non-standardised data representations and anomalies pose major challenges to the ... ...

    Abstract The adoption of electronic health records (EHRs) has created opportunities to analyse historical data for predicting clinical outcomes and improving patient care. However, non-standardised data representations and anomalies pose major challenges to the use of EHRs in digital health research. To address these challenges, we have developed EHR-QC, a tool comprising two modules: the data standardisation module and the preprocessing module. The data standardisation module migrates source EHR data to a standard format using advanced concept mapping techniques, surpassing expert curation in benchmarking analysis. The preprocessing module includes several functions designed specifically to handle healthcare data subtleties. We provide automated detection of data anomalies and solutions to handle those anomalies. We believe that the development and adoption of tools like EHR-QC is critical for advancing digital health. Our ultimate goal is to accelerate clinical research by enabling rapid experimentation with data-driven observational research to generate robust, generalisable biomedical knowledge.
    MeSH term(s) Humans ; Electronic Health Records ; Benchmarking ; Empirical Research ; Research Design
    Language English
    Publishing date 2023-10-11
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2057141-0
    ISSN 1532-0480 ; 1532-0464
    ISSN (online) 1532-0480
    ISSN 1532-0464
    DOI 10.1016/j.jbi.2023.104509
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  4. Article: Ventricular Assist Device-Specific Infections.

    Qu, Yue / Peleg, Anton Y / McGiffin, David

    Journal of clinical medicine

    2021  Volume 10, Issue 3

    Abstract: Ventricular assist device (VAD)-specific infections, in particular, driveline infections, are a concerning complication of VAD implantation that often results in significant morbidity and even mortality. The presence of a percutaneous driveline at the ... ...

    Abstract Ventricular assist device (VAD)-specific infections, in particular, driveline infections, are a concerning complication of VAD implantation that often results in significant morbidity and even mortality. The presence of a percutaneous driveline at the skin exit-site and in the subcutaneous tunnel allows biofilm formation and migration by many bacterial and fungal pathogens. Biofilm formation is an important microbial strategy, providing a shield against antimicrobial treatment and human immune responses; biofilm migration facilitates the extension of infection to deeper tissues such as the pump pocket and the bloodstream. Despite the introduction of multiple preventative strategies, driveline infections still occur with a high prevalence of ~10-20% per year and their treatment outcomes are frequently unsatisfactory. Clinical diagnosis, prevention and management of driveline infections are being targeted to specific microbial pathogens grown as biofilms at the driveline exit-site or in the driveline tunnel. The purpose of this review is to improve the understanding of VAD-specific infections, from basic "bench" knowledge to clinical "bedside" experience, with a specific focus on the role of biofilms in driveline infections.
    Language English
    Publishing date 2021-01-25
    Publishing country Switzerland
    Document type Journal Article ; Review
    ZDB-ID 2662592-1
    ISSN 2077-0383
    ISSN 2077-0383
    DOI 10.3390/jcm10030453
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  5. Article ; Online: The clinical application of beta-lactam antibiotic therapeutic drug monitoring in the critical care setting.

    Pai Mangalore, Rekha / Peel, Trisha N / Udy, Andrew A / Peleg, Anton Y

    The Journal of antimicrobial chemotherapy

    2023  Volume 78, Issue 10, Page(s) 2395–2405

    Abstract: Critically ill patients have increased variability in beta-lactam antibiotic (beta-lactam) exposure due to alterations in their volume of distribution and elimination. Therapeutic drug monitoring (TDM) of beta-lactams, as a dose optimization and ... ...

    Abstract Critically ill patients have increased variability in beta-lactam antibiotic (beta-lactam) exposure due to alterations in their volume of distribution and elimination. Therapeutic drug monitoring (TDM) of beta-lactams, as a dose optimization and individualization tool, has been recommended to overcome this variability in exposure. Despite its potential benefit, only a few centres worldwide perform beta-lactam TDM. An important reason for the low uptake is that the evidence for clinical benefits of beta-lactam TDM is not well established. TDM also requires the availability of specific infrastructure, knowledge and expertise. Observational studies and systematic reviews have demonstrated that TDM leads to an improvement in achieving target concentrations, a reduction in potentially toxic concentrations and improvement of clinical and microbiological outcomes. However, a small number of randomized controlled trials have not shown a mortality benefit. Opportunities for improved study design are apparent, as existing studies are limited by their inclusion of heterogeneous patient populations, including patients that may not even have infection, small sample size, variability in the types of beta-lactams included, infections caused by highly susceptible bacteria, and varied sampling, analytical and dosing algorithm methods. Here we review the fundamentals of beta-lactam TDM in critically ill patients, the existing clinical evidence and the practical aspects involved in beta-lactam TDM implementation.
    MeSH term(s) Humans ; Anti-Bacterial Agents/therapeutic use ; Drug Monitoring/methods ; Critical Illness/therapy ; beta-Lactams/therapeutic use ; Critical Care/methods ; Monobactams
    Chemical Substances Anti-Bacterial Agents ; beta-Lactams ; Monobactams
    Language English
    Publishing date 2023-07-17
    Publishing country England
    Document type Review ; Journal Article
    ZDB-ID 191709-2
    ISSN 1460-2091 ; 0305-7453
    ISSN (online) 1460-2091
    ISSN 0305-7453
    DOI 10.1093/jac/dkad223
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    In stock of ZB MED Cologne/Königswinter

    Zs.A 1197: Show issues Location:
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    Zs.MO 124: Show issues

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  6. Article ; Online: Horizontal Gene Transfer, Fitness Costs and Mobility Shape the Spread of Antibiotic Resistance Genes into Experimental Populations of Acinetobacter Baylyi.

    Sezmis, Aysha L / Woods, Laura C / Peleg, Anton Y / McDonald, Michael J

    Molecular biology and evolution

    2023  Volume 40, Issue 3

    Abstract: Horizontal gene transfer (HGT) is important for microbial evolution, but how evolutionary forces shape the frequencies of horizontally transferred genetic variants in the absence of strong selection remains an open question. In this study, we evolve ... ...

    Abstract Horizontal gene transfer (HGT) is important for microbial evolution, but how evolutionary forces shape the frequencies of horizontally transferred genetic variants in the absence of strong selection remains an open question. In this study, we evolve laboratory populations of Acinetobacter baylyi (ADP1) with HGT from two clinically relevant strains of multidrug-resistant Acinetobacter baumannii (AB5075 and A9844). We find that DNA can cross the species barrier, even without strong selection, and despite substantial DNA sequence divergence between the two species. Our results confirm previous findings that HGT can drive the spread of antibiotic resistance genes (ARGs) without selection for that antibiotic, but not for all of the resistance genes present in the donor genome. We quantify the costs and benefits of horizontally transferred variants and use whole population sequencing to track the spread of ARGs from HGT donors into antibiotic-sensitive recipients. We find that even though most ARGs are taken up by populations of A. baylyi, the long-term fate of an individual gene depends both on its fitness cost and on the type of genetic element that carries the gene. Interestingly, we also found that an integron, but not its host plasmid, is able to spread in A. baylyi populations despite its strong deleterious effect. Altogether, our results show how HGT provides an evolutionary advantage to evolving populations by facilitating the spread of non-selected genetic variation including costly ARGs.
    MeSH term(s) Anti-Bacterial Agents ; Gene Transfer, Horizontal ; Plasmids ; Drug Resistance, Microbial ; Acinetobacter baumannii/genetics
    Chemical Substances Anti-Bacterial Agents
    Language English
    Publishing date 2023-02-14
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 998579-7
    ISSN 1537-1719 ; 0737-4038
    ISSN (online) 1537-1719
    ISSN 0737-4038
    DOI 10.1093/molbev/msad028
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    Zs.A 2137: Show issues Location:
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  7. Article ; Online: Corrigendum to "Chemoenzymatic surface decoration of Nisin-shelled nanoemulsions: Novel targeted drug-nanocarriers for cancer applications" [Ultrason. Sonochem. 90 (2022) 106183].

    Hashad, Rania A / Singla, Ritu / Bhangu, Sukhvir Kaur / Jap, Edwina / Zhu, Haiyan / Peleg, Anton Y / Blakeway, Luke / Hagemeyer, Christoph E / Cavalieri, Francesca / Ashokkumar, Muthupandian / Alt, Karen

    Ultrasonics sonochemistry

    2024  Volume 105, Page(s) 106862

    Language English
    Publishing date 2024-04-05
    Publishing country Netherlands
    Document type Published Erratum
    ZDB-ID 1208333-1
    ISSN 1873-2828 ; 1350-4177
    ISSN (online) 1873-2828
    ISSN 1350-4177
    DOI 10.1016/j.ultsonch.2024.106862
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    Zs.A 4441: Show issues Location:
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  8. Article ; Online: Remdesivir for the Treatment of Covid-19 - Preliminary Report.

    McMahon, James H / Udy, Andrew / Peleg, Anton Y

    The New England journal of medicine

    2020  Volume 383, Issue 10, Page(s) 992–993

    MeSH term(s) Adenosine Monophosphate/analogs & derivatives ; Alanine/analogs & derivatives ; Betacoronavirus ; COVID-19 ; Coronavirus Infections/drug therapy ; Humans ; Pandemics ; Pneumonia, Viral ; SARS-CoV-2 ; COVID-19 Drug Treatment
    Chemical Substances remdesivir (3QKI37EEHE) ; Adenosine Monophosphate (415SHH325A) ; Alanine (OF5P57N2ZX)
    Keywords covid19
    Language English
    Publishing date 2020-07-10
    Publishing country United States
    Document type Letter ; Comment
    ZDB-ID 207154-x
    ISSN 1533-4406 ; 0028-4793
    ISSN (online) 1533-4406
    ISSN 0028-4793
    DOI 10.1056/NEJMc2022236
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  9. Article ; Online: Ventricular Assist Device-Specific Infections

    Yue Qu / Anton Y. Peleg / David McGiffin

    Journal of Clinical Medicine, Vol 10, Iss 3, p

    2021  Volume 453

    Abstract: Ventricular assist device (VAD)-specific infections, in particular, driveline infections, are a concerning complication of VAD implantation that often results in significant morbidity and even mortality. The presence of a percutaneous driveline at the ... ...

    Abstract Ventricular assist device (VAD)-specific infections, in particular, driveline infections, are a concerning complication of VAD implantation that often results in significant morbidity and even mortality. The presence of a percutaneous driveline at the skin exit-site and in the subcutaneous tunnel allows biofilm formation and migration by many bacterial and fungal pathogens. Biofilm formation is an important microbial strategy, providing a shield against antimicrobial treatment and human immune responses; biofilm migration facilitates the extension of infection to deeper tissues such as the pump pocket and the bloodstream. Despite the introduction of multiple preventative strategies, driveline infections still occur with a high prevalence of ~10–20% per year and their treatment outcomes are frequently unsatisfactory. Clinical diagnosis, prevention and management of driveline infections are being targeted to specific microbial pathogens grown as biofilms at the driveline exit-site or in the driveline tunnel. The purpose of this review is to improve the understanding of VAD-specific infections, from basic “bench” knowledge to clinical “bedside” experience, with a specific focus on the role of biofilms in driveline infections.
    Keywords ventricular assist device ; driveline infections ; exit-site ; driveline tunnel ; biofilms ; epidemiology ; Medicine ; R
    Subject code 610
    Language English
    Publishing date 2021-01-01T00:00:00Z
    Publisher MDPI AG
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  10. Article ; Online: Anti-infective characteristics of a new Carbothane ventricular assist device driveline.

    Qu, Yue / McGiffin, David / Sanchez, Lina Duque / Gengenbach, Thomas / Easton, Chris / Thissen, Helmut / Peleg, Anton Y

    Biofilm

    2023  Volume 5, Page(s) 100124

    Abstract: Objectives: Driveline infections are a major complication of ventricular assist device (VAD) therapy. A newly introduced Carbothane driveline has preliminarily demonstrated anti-infective potential against driveline infections. This study aimed to ... ...

    Abstract Objectives: Driveline infections are a major complication of ventricular assist device (VAD) therapy. A newly introduced Carbothane driveline has preliminarily demonstrated anti-infective potential against driveline infections. This study aimed to comprehensively assess the anti-biofilm capability of the Carbothane driveline and explore its physicochemical characteristics.
    Methods: We assessed the Carbothane driveline against biofilm formation of leading microorganisms causing VAD driveline infections, including
    Results: All organisms were able to attach to the smooth and velour sections of the Carbothane driveline. Early microbial adherence, at least for
    Conclusion: This study provides experimental evidence to support the anti-biofilm activity of the Carbothane driveline and uncovered specific physicochemical features that may explain its ability to inhibit biofilm formation.
    Language English
    Publishing date 2023-04-17
    Publishing country Netherlands
    Document type Journal Article
    ISSN 2590-2075
    ISSN (online) 2590-2075
    DOI 10.1016/j.bioflm.2023.100124
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