A5066500135- SARS-CoV-2 and COVID-19 Research
- Animal Virus Infections Studies
- Clostridium difficile and Clostridium perfringens research
- Microscopic Colitis
- Genomics and Phylogenetic Studies
- Bacteriophages and microbial interactions
- COVID-19 Clinical Research Studies
- Salmonella and Campylobacter epidemiology
- Viral gastroenteritis research and epidemiology
- Listeria monocytogenes in Food Safety
- Urinary Tract Infections Management
- Gastrointestinal motility and disorders
- Escherichia coli research studies
- Diverticular Disease and Complications
- Healthcare cost, quality, practices
- Antibiotic Resistance in Bacteria
- Plant Pathogenic Bacteria Studies
- Mycobacterium research and diagnosis
- Helicobacter pylori-related gastroenterology studies
- Vaccine Coverage and Hesitancy
- Plant Virus Research Studies
- Inflammatory Bowel Disease
- Gut microbiota and health
- Essential Oils and Antimicrobial Activity
- COVID-19 epidemiological studies
Norfolk and Norwich University Hospitals NHS Foundation Trust
2021-2025
Norfolk and Norwich University Hospital
2016-2024
Quadram Institute
2020-2024
Norwich Research Park
2020-2024
Public Health England
2021
National Institute for Health Research
2021
University of Oxford
2021
University of Bristol
2021
OG Technologies (United States)
2021
Health Protection Research Unit in Emerging and Zoonotic Infections at University of Liverpool
2021
We present CoronaHiT, a platform and throughput flexible method for sequencing SARS-CoV-2 genomes (≤ 96 on MinION or > Illumina NextSeq) depending changing requirements experienced during the pandemic. CoronaHiT uses transposase-based library preparation of ARTIC PCR products. Method performance was demonstrated by 2 plates containing 95 59 nanopore platforms comparing to LoCost method. Of 154 samples sequenced using all 3 methods, ≥ 90% genome coverage obtained 64.3% LoCost, 71.4%...
The COVID-19 pandemic has spread rapidly throughout the world. In UK, initial peak was in April 2020; county of Norfolk (UK) and surrounding areas, which a stable, low-density population, over 3200 cases were reported between March August 2020. As part activities national Genomics Consortium (COG-UK) we undertook whole genome sequencing SARS-CoV-2 genomes present positive clinical samples from region. These collected by four major hospitals, multiple minor care facilities community...
The first British Society of Gastroenterology (BSG) and Healthcare Infection (HIS)-endorsed faecal microbiota transplant (FMT) guidelines were published in 2018. Over the past 5 years, there has been considerable growth evidence base (including publication outcomes from large national FMT registries), necessitating an updated critical review literature a second edition BSG/HIS guidelines. These have produced accordance with National Institute for Health Care Excellence-accredited...
Salmonella is a significant public health pathogen responsible for wide spectrum of diseases, ranging from gastroenteritis to invasive non-typhoidal salmonellosis (iNTS) and enteric fever. Although advancements in whole genome sequencing (WGS) have improved surveillance outbreak investigations, traditional single-colony methods overlook within-host diversity, potentially underestimating the complexity infections. This study explores genome-wide diversity strains recovered stool samples eight...
ABSTRACT Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) was originally described as a illness; however, it is now known that the infection can spread to gastrointestinal tract, leading shedding in feces potentially being source of through wastewater. We aimed assess prevalence and persistence SARS-CoV-2 fecal saliva samples for up 7 weeks post-detection cohort 98 participants from Norfolk, United Kingdom using RT-qPCR. Secondary goals included sequencing viral isolates present...
The protection of fourth dose mRNA vaccination against SARS-CoV-2 is relevant to current global policy decisions regarding ongoing booster roll-out. We aimed estimate the effect vaccination, prior infection, and duration PCR positivity in a highly-vaccinated largely prior-COVID-19 infected cohort UK healthcare workers.
Abstract Background Urinary tract infections (UTIs) are a frequent cause for visits to primary care providers. In alignment globally, uropathogenic Escherichia coli (UPEC) the main aetiological agent UTIs in Norfolk and increasingly difficult treat due multi-drug resistance. Objectives We set out identify which clonal groups resistance genes disseminating community hospitals Norfolk, first study of its kind UPEC this region. Methods collected 199 clinical E. isolates causing hospital from...
Abstract The COVID-19 pandemic has spread rapidly throughout the world. In UK, initial peak was in April 2020; county of Norfolk (UK) and surrounding areas, which a stable, low-density population, over 3,200 cases were reported between March August 2020. As part activities national Genomics Consortium (COG-UK) we undertook whole genome sequencing SARS-CoV-2 genomes present positive clinical samples from region. These collected by four major hospitals, multiple minor care facilities community...
Abstract The COVID-19 pandemic has spread to almost every country in the world since it started China late 2019. Controlling requires a multifaceted approach including whole genome sequencing support public health interventions at local and national levels. One of most widely used methods for is ARTIC protocol, tiling PCR followed by Oxford Nanopore (ONT) up 96 samples time. There need, however, flexible, platform agnostic, method that can provide multiple throughput options depending on...
The timely and accurate diagnosis of bloodstream infection (BSI) is critical for patient management. With longstanding challenges routine blood culture, metagenomics a promising approach to rapidly provide sequence-based detection characterisation bloodborne bacteria. Long-read sequencing technologies have successfully supported the use clinical syndromes such as respiratory illness, modified approaches may address two requisite factors be used BSI diagnostic: depletion high level host DNA...
Campylobacter is the leading bacterial cause of infectious intestinal disease, but pathogen typically accounts for a very small proportion overall stool microbiome in each patient. Diagnosis even more difficult due to fastidious nature laboratory setting. This has, part, driven change recent years, from culture-based rapid PCR-based diagnostic assays which have improved detection, whilst creating knowledge gap our clinical and epidemiological understanding genotypes – no isolates sequence....
Abstract Background Campylobacter jejuni is a pervasive pathogen of major public health concern with complex ecology requiring accurate and informative approaches to define diversity during outbreak investigations. Source attribution analysis may be confounded if the genetic C. population not adequately captured in single specimen. The aim this study was determine genomic within individual stool specimens from four campylobacteriosis patients. Direct plating pre-culture filtration one...
Abstract Listeria monocytogenes is a rare cause of prosthetic joint infections (PJI). In this study, we describe case recurrent L. infections, 39 months apart, following debridement and retention hip. Despite numerous studies reporting persistent in human the genomic phenotypic changes that clinically relevant strains undergo host are poorly understood. Improved knowledge how PJI occurs needed to improve management infections. We used combination long- short-read sequencing identify any...
Conclusions:Our results indicate that C. difficile infections in IBD patients are difficult to treat and frequently recur.Recurrent disease is significantly associated with risk factors for CDI.Antibiotics directed against only partially improve the activity.Prospective studies identify who benefit from an antibiotic therapy urgently warranted.
differences were observed in the abundance of specific phyla, genera, or operational taxonomic units (OTU), overall microbiota composition was significantly different between 2 groups (Adonis test on Bray-Curtis dissimilarity, p-value 0.002).Interesting to note, abundances 9 genera before multiple testing correction, including Prevotella, Dorea, Methanosfera, and Paraprevotella.No significant association CD UC GRS quartiles composition, richness, taxa this cohort.Conclusions: The genetic...
Conclusions:Our results indicate that C. difficile infections in IBD patients are difficult to treat and frequently recur.Recurrent disease is significantly associated with risk factors for CDI.Antibiotics directed against only partially improve the activity.Prospective studies identify who benefit from an antibiotic therapy urgently warranted.
Synopsis Background Half of all women have experienced a urinary tract infection (UTI) in their lifetime and this remains persistent issue rural counties like Norfolk, UK. In alignment globally, Uropathogenic E. coli (UPEC) are the main etiological agent for UTIs Norfolk increasingly difficult to treat due multi-drug resistance (MDR). Objective We set out identify which clonal groups genes disseminating community hospitals first study its kind UPEC region. Methods collected 217 clinical...