A5089396799- Antibiotic Resistance in Bacteria
- Primary Care and Health Outcomes
- Bacterial Identification and Susceptibility Testing
- Food Security and Health in Diverse Populations
- Enterobacteriaceae and Cronobacter Research
- Vibrio bacteria research studies
- Infections and bacterial resistance
- HIV, Drug Use, Sexual Risk
- Streptococcal Infections and Treatments
- Antimicrobial Resistance in Staphylococcus
- Respiratory viral infections research
- Antibiotic Use and Resistance
- Infective Endocarditis Diagnosis and Management
- Colorectal Cancer Screening and Detection
- Pneumonia and Respiratory Infections
- Mycobacterium research and diagnosis
- Advanced biosensing and bioanalysis techniques
- Respiratory and Cough-Related Research
- Microbial infections and disease research
- Berberine and alkaloids research
- Innovation Policy and R&D
- Ear Surgery and Otitis Media
- SARS-CoV-2 detection and testing
- Bacterial biofilms and quorum sensing
- Tracheal and airway disorders
Finnish Institute for Health and Welfare
2013-2024
University of Turku
2014
Significance Epidemics of microbial infections are a considerable threat to human and animal health. Analysis 3,615 genome sequences, coupled with virulence studies in animals, permitted us delineate the nature timing molecular events that contributed an ongoing global epidemic caused by group A Streptococcus , “flesh-eating” pathogen. We clarified decades-long uncertainty about sequence genomic alterations underpinned epidemic. Analyses this type crucial for developing better strategies...
Background The war in Ukraine led to migration of Ukrainian people. Early 2022, several European national surveillance systems detected multidrug-resistant (MDR) bacteria related patients. Aim To investigate the genomic epidemiology New Delhi metallo-β-lactamase (NDM)-producing Providencia stuartii from patients among countries. Methods Whole-genome sequencing 66 isolates sampled 2022–2023 10 countries enabled whole-genome multilocus sequence typing (wgMLST), identification resistance genes,...
Abstract Background Antimicrobial resistance (AMR) is a critical threat to human health. Escherichia coli and Klebsiella pneumoniae are clinically the most important species associated with AMR common carbapenemase-producing (CP) Enterobacterales detected in specimens Finland. Wastewater surveillance has emerged as potential approach for population-level of AMR, wastewater could offer reflection from larger population one sample minimal recognized ethical issues. In this study, we...
In December 2018, a ceftazidime-avibactam (CAZ-AVI)-resistant KPC-2-producing Klebsiella pneumoniae strain was isolated in Finland. CAZ-AVI resistance observed 34 days after treatment trauma patient transferred from hospital Greece who had been colonised with blaKPC-2-producing K. ST39, and later developed bloodstream infection. The CAZ-AVI-resistant contained novel 15 amino acid insertion the KPC-2 protein causing structural changes proximal to active site.
Whole genome sequencing data of 874 Escherichia coli isolates carrying blaNDM-5 from 13 European Union/European Economic Area countries between 2012 and June 2022 showed the predominance sequence types ST167, ST405, ST410, ST361 ST648, an increasing frequency detection. Nearly a third (30.6%) these were associated with infections more than half (58.2%) predicted to be multidrug-resistant. Further spread E. would leave limited treatment options for serious infections.
Analysis of sequencing data for 143 blaNDM-1- and blaOXA-48-positive Klebsiella pneumoniae isolates from 13 European national collections the public domain resulted in identification 15 previously undetected multi-country transmission clusters. For 10 clusters, cases had prior travel/hospitalisation history countries outside Union including Egypt, Iran, Morocco, Russia, Serbia, Tunisia Turkey. These findings highlight benefit whole genome sequencing-based surveillance sharing control...
Analysis of 594 isolates Escherichia coli sequence type (ST)131 and its single locus variants carrying carbapenemase genes from 17 European Union/European Economic Area countries revealed acquisition 18 variants, mainly in ST131 clades A C. Most frequent were bla OXA-244 (n = 230) OXA-48 224), detected 14 12 countries, respectively. Isolates have increased rapidly since 2021. The increasing detection the E. high-risk lineage is a public health concern.
Abstract Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) variants may have different characteristics, e.g., in transmission, mortality, and the effectiveness of vaccines, indicating importance variant detection at population level. Wastewater-based surveillance SARS-CoV-2 RNA fragments has been shown to be an effective way monitor COVID-19 pandemic Wastewater is a complex sample matrix affected by environmental factors PCR inhibitors, causing insufficient coverage sequencing,...
Rhinovirus is the most common virus causing respiratory tract illnesses in children. Rhinoviruses are classified into species A, B and C. We examined associations between different rhinovirus illness severity.This a retrospective observational cohort study on confirmed infections 134 children 3-23 months of age, who were enrolled 2 prospective studies bronchiolitis acute otitis media, respectively, conducted simultaneously Turku University Hospital, Turku, Finland, September 2007 December...
Abstract Carbapenemase-producing Enterobacterales (CPE) pose an increasing threat to patient safety and healthcare systems globally. We present molecular epidemiology of CPE in Finland during 2012–2018 with detailed characteristics strains causing clusters the same time period. All Finnish clinical microbiology laboratories send isolates reduced susceptibility carbapenems or producing carbapenemase reference laboratory for further characterization by whole genome sequencing (WGS). In total,...
Multi-drug resistance is emerging in Citrobacter freundii, which the third most common carbapenemase-producing (CP) Enterobacteriaceae humans Finland due to recent outbreaks. The objective of this study was determine if wastewater surveillance (WWS) could detect CP C. freundii strains causing infections humans. Selective culturing used isolate from hospital environment, wastewater, and untreated municipal Helsinki, Finland, between 2019 2022. Species were identified using MALDI-TOF,...
Background Two epidemiologically-unrelated clusters of Klebsiella pneumoniae carbapenemase (KPC)-producing K. were detected among several healthcare facilities (HCF) in Finland by routine surveillance using whole genome sequencing (WGS). Aim The objective was to investigate transmission chains stop further spread the responsible strain. Methods In this observational retrospective study, cases defined as patients with KPC-3 sequence type (ST)512 strain from August 2013 May 2018. Environmental...
Background Escherichia coli is the leading cause of urinary tract infections (UTI) and bloodstream (BSI), emergence antimicrobial resistance (AMR) in E. causes concern. Aim To investigate changes proportion extended-spectrum β-lactamase (ESBL) producing isolates among isolated from urine blood Finland during 2008–2019. Methods Susceptibility testing 1,568,488 (90% female, 10% male) 47,927 (61% 39% all Finnish clinical microbiology laboratories 2008–2019 was performed according to guidelines...
Carbapenemase-producing Enterobacterales (CPE) have spread widely into health care facilities (HCF) but clusters caused by carbapenemase-producing (CP) Citrobacter freundii been uncommon until recent years. Here we describe CP C. detected in Finland during 2016-20.As a part of the national CPE surveillance, clinical microbiology laboratories send potential isolates to reference laboratory for confirmation and further characterization. Whole genome sequencing (WGS) with Illumina MiSeq...
Abstract Knowledge of the genomic variation among different strains a pathogenic microbial species can help in selecting optimal candidates for diagnostic assays and vaccine development. Pooled sequencing (Pool-seq) is cost effective approach population level genetic studies that require large numbers samples such as various microbe. To test use Pool-seq identifying variation, we pooled DNA 100 Streptococcus pyogenes emm types two pools, each containing 50 strains. We used four variant...