A5062482828- Antimicrobial Resistance in Staphylococcus
- Bacterial Identification and Susceptibility Testing
- Bacterial biofilms and quorum sensing
- Antibiotic Resistance in Bacteria
- Genomics and Phylogenetic Studies
- Microbial Metabolism and Applications
- SARS-CoV-2 and COVID-19 Research
- Bacterial Genetics and Biotechnology
- Streptococcal Infections and Treatments
- Microbial infections and disease research
- Bacteriophages and microbial interactions
- Probiotics and Fermented Foods
- Biochemical and Structural Characterization
- Long-Term Effects of COVID-19
- Clostridium difficile and Clostridium perfringens research
- Mycobacterium research and diagnosis
- SARS-CoV-2 detection and testing
- COVID-19 epidemiological studies
- Plant Pathogenic Bacteria Studies
- Vasculitis and related conditions
- Infective Endocarditis Diagnosis and Management
- Sinusitis and nasal conditions
- Bacterial Infections and Vaccines
- Milk Quality and Mastitis in Dairy Cows
- RNA and protein synthesis mechanisms
University of Cambridge
2016-2025
Wellcome Sanger Institute
2018-2025
Addenbrooke's Hospital
2016-2024
Oxford Health NHS Foundation Trust
2023
University of Oxford
2023
European Bioinformatics Institute
2021
University of Leicester
2007-2016
Tianjin University of Science and Technology
2011
University Hospitals of Leicester NHS Trust
2007-2010
Manchester Royal Infirmary
2006-2007
TADB ( http://bioinfo-mml.sjtu.edu.cn/TADB/ ) is an integrated database that provides comprehensive information about Type 2 toxin–antitoxin (TA) loci, genetic features are richly distributed throughout bacterial and archaeal genomes. Two-gene much less frequently three-gene TA loci code for cognate partners have been hypothesized or demonstrated to play key roles in stress response, physiology stabilization of horizontally acquired elements. offers a unique compilation both predicted...
Abstract The discovery of antibiotics more than 80 years ago has led to considerable improvements in human and animal health. Although antibiotic resistance environmental bacteria is ancient, pathogens thought be a modern phenomenon that driven by the clinical use 1 . Here we show particular lineages methicillin-resistant Staphylococcus aureus —a notorious pathogen—appeared European hedgehogs pre-antibiotic era. Subsequently, these spread within local hedgehog populations between secondary...
Monitoring the spread of SARS-CoV-2 and reconstructing transmission chains has become a major public health focus for many governments around world. The modest mutation rate rapid prevents reconstruction from consensus genome sequences, but within-host genetic diversity could theoretically help identify close contacts. Here we describe patterns in 1181 samples sequenced to high depth duplicate. 95.1% show mutations at detectable allele frequencies. Analyses mutational spectra revealed strong...
ICEberg (http://db-mml.sjtu.edu.cn/ICEberg/) is an integrated database that provides comprehensive information about integrative and conjugative elements (ICEs) found in bacteria. ICEs are self-transmissible can integrate into excise from a host chromosome. An ICE contains three typical modules, integration excision, conjugation, regulation collectively promote vertical inheritance periodic lateral gene flow. Many carry likely virulence determinants, antibiotic-resistant factors and/or genes...
ABSTRACT Methicillin-resistant Staphylococcus aureus (MRSA) is a global human health problem causing infections in both hospitals and the community. Companion animals, such as cats, dogs, horses, are also frequently colonized by MRSA can become infected. We sequenced genomes of 46 multilocus sequence type (ST) 22 isolates from cats dogs United Kingdom compared these to an extensive population framework same lineage. Phylogenomic analyses showed that all companion animal were interspersed...
Summary ‘Dated‐tip’ methods of molecular dating use DNA sequences sampled at different times, to estimate the age their most recent common ancestor. Several tests ‘temporal signal’ are available determine whether data sets suitable for such analysis. However, it remains unclear these reliable. We investigate performance several temporal signal, including some recently suggested modifications. simulated (where true evolutionary history is known), and whole genomes methicillin‐resistant S...
Genome sequencing is revolutionizing clinical microbiology and our understanding of infectious diseases. Previous studies have largely relied on the a single isolate from each individual. However, it not clear what degree bacterial diversity exists within, transmitted between individuals. Understanding this 'cloud diversity' key to accurate identification transmission pathways. Here, we report deep methicillin-resistant Staphylococcus aureus among staff animal patients involved in network at...
Longitudinal genomic and epidemiological surveillance of methicillin-resistant Staphylococcus aureus in the UK reveals extensive transmission hospitals community.
ObjectivesMethicillin-resistant Staphylococcus aureus (MRSA) is an important global health problem. MRSA resistance to β-lactam antibiotics mediated by the mecA or mecC genes, which encode alternative penicillin-binding protein (PBP) 2a that has a low affinity antibiotics. Detection of mec genes PBP2a regarded as gold standard for diagnosis MRSA. We identified four isolates lacked but were still phenotypically resistant pencillinase-resistant
Whole-genome sequencing (WGS) can be used in genomic epidemiology investigations to confirm or refute outbreaks of bacterial pathogens, and support targeted efficient infection control interventions. We aimed define a genetic relatedness cutoff, quantified as number single-nucleotide polymorphisms (SNP), for meticillin-resistant Staphylococcus aureus (MRSA), above which recent (ie, within 6 months) patient-to-patient transmission could ruled out.We did retrospective epidemiological analysis...
BackgroundDNA sequencing could become an alternative to in vitro antibiotic susceptibility testing (AST) methods for determining resistance by detecting genetic determinants associated with decreased susceptibility. Here, we aimed assess and improve the accuracy of determination from Enterococcus faecium genomes diagnosis surveillance purposes.MethodsIn this retrospective diagnostic study, first conducted a literature search PubMed on Jan 14, 2021, compile catalogue genes mutations...
Abstract Staphylococcus aureus is an important human pathogen and a commensal of the nose skin. Survival persistence during colonisation are likely major drivers S. evolution. Here we applied genome-wide mutation enrichment approach to genomic dataset 3060 colonization isolates from 791 individuals. Despite limited within-host genetic diversity, observed excess protein-altering mutations in metabolic genes, regulators quorum-sensing ( agrA agrC ) known antibiotic targets fusA , pbp2 dfrA...
Abstract Objectives MDR methicillin-resistant Staphylococcus pseudintermedius (MRSP) strains have emerged rapidly as major canine pathogens and present serious treatment issues concerns to public health due their, albeit low, zoonotic potential. A further understanding of the genetics resistance arising from a broadly susceptible background S. is needed. Methods We sequenced genomes 12 isolates varied STs phenotypes. Results Nine distinct clonal lineages had acquired either staphylococcal...
ObjectivesMethicillin resistance in Staphylococcus spp. results from the expression of an alternative penicillin-binding protein 2a (encoded by mecA) with a low affinity for β-lactam antibiotics. Recently, novel variant mecA known as mecC (formerly mecALGA251) was identified aureus isolates both humans and animals. In this study, we two sciuri subsp. carnaticus bovine infections that harbour three different homologues: mecA, mecA1 mecC.
There are limited data available on the epidemiology and prevalence of methicillin-resistant Staphylococcus aureus (MRSA) in human population that encode recently described mecA homologue, mecC. To address this knowledge gap we undertook a prospective study England to determine mecC among MRSA isolates. Three hundred thirty-five sequential isolates from individual patients were collected each six clinical microbiology laboratories during 2011–12. These tested by PCR or genome sequencing...
ObjectivesmecC methicillin-resistant Staphylococcus aureus (MRSA) represent a newly recognized form of MRSA, distinguished by the possession divergent mecA homologue, mecC. The first isolate to be identified came from bovine milk, but there are few data on prevalence mecC MRSA among dairy cattle. aim this study was conduct farms in Great Britain.
ABSTRACT Recently, a novel variant of mecA known as mecC ( LGA251 ) was identified in Staphylococcus aureus isolates from both humans and animals. In this study, we xylosus isolate that harbors new allotype the gene, mecC1 . Whole-genome sequencing revealed forms part class E mec complex mecI-mecR1-mecC1-blaZ located at orfX locus likely staphylococcal cassette chromosome element (SCC remnant, which also contains number other genes present on type XI SCC
Background: Bacterial whole-genome sequencing (WGS) has the potential to identify reservoirs of multidrugresistant organisms and transmission these pathogens across healthcare networks.We used WGS define vancomycin-resistant enterococci (VRE) within a long-term care facility (LTCF), between this an acute hospital in United Kingdom (UK).Methods: A longitudinal prospective observational study faecal VRE carriage was conducted LTCF Cambridge, UK.Stool samples were collected at recruitment, then...