A5024598201- Genomics and Phylogenetic Studies
- Microbial Community Ecology and Physiology
- Agricultural Systems and Practices
- Salmonella and Campylobacter epidemiology
- Vibrio bacteria research studies
- COVID-19 epidemiological studies
- Phytochemical Studies and Bioactivities
- Cancer Treatment and Pharmacology
- CRISPR and Genetic Engineering
- COVID-19 Clinical Research Studies
- Steroid Chemistry and Biochemistry
- Plant Disease Resistance and Genetics
- Single-cell and spatial transcriptomics
- Protist diversity and phylogeny
- Chromosomal and Genetic Variations
- Aquaculture disease management and microbiota
- COVID-19 and healthcare impacts
- Developmental Biology and Gene Regulation
- Probiotics and Fermented Foods
- Animal Genetics and Reproduction
- Wheat and Barley Genetics and Pathology
- Congenital heart defects research
- Bacteriophages and microbial interactions
- Autophagy in Disease and Therapy
- Cell Image Analysis Techniques
Genomics (United Kingdom)
2020-2025
St George's, University of London
2025
Norwich Research Park
2018-2024
Earlham Institute
2016-2024
John Innes Centre
2009
Advances in genome sequencing and assembly technologies are generating many high-quality sequences, but assemblies of large, repeat-rich polyploid genomes, such as that bread wheat, remain fragmented incomplete. We have generated a new wheat whole-genome shotgun sequence using combination optimized data types an algorithm designed to deal with large complex genomes. The represents >78% the scaffold N50 88.8 kb has high fidelity input data. Our annotation combines strand-specific Illumina...
Abstract We have developed an efficient and inexpensive pipeline for streamlining large-scale collection genome sequencing of bacterial isolates. Evaluation this method involved a worldwide research collaboration focused on the model organism Salmonella enterica , 10KSG consortium. Following optimization logistics that shipping isolates as thermolysates in ambient conditions, project assembled diverse 10,419 from low- middle-income countries. The genomes were sequenced using LITE library...
Abstract Background There is a high prevalence of COVID-19 in university-age students, who are returning to campuses. little evidence regarding the feasibility universal, asymptomatic testing help control outbreaks this population. This study aimed pilot mass on university research park, assess and acceptability scaling up all staff students. Methods was cross-sectional park East England. All students (5625) were eligible participate. participants offered four PCR swabs, which they...
The genetic code is one of the most highly conserved features across life. Only a few lineages have deviated from “universal” code. Amongst variants reported to date, codons UAA and UAG virtually always same translation, suggesting that their evolution coupled. Here, we report genome transcriptome sequencing novel uncultured ciliate, belonging Oligohymenophorea class, where translation stop changed specify different amino acids. Genomic transcriptomic analyses revealed has been reassigned...
Abstract Background Sex-based differences in cardiovascular and performance parameters among masters athletes are incompletely characterized. This study aimed to explore cardiac structure function, exercise performance, predictors of maximal oxygen consumption (VO2max) during cardiopulmonary testing (CPET) asymptomatic male female athletes. Methods A total 681 (aged over 40 years with more than 10 endurance exercise) from UK running, cycling, triathlon clubs were included, 466 (68.4%) 215...
Abstract We have developed an efficient and inexpensive pipeline for streamlining large-scale collection genome sequencing of bacterial isolates. Evaluation this method involved a worldwide research collaboration focused on the model organism Salmonella enterica , 10KSG consortium. By optimising logistics that collected isolates as thermolysates, permitting shipment in ambient conditions, project assembled diverse 10,419 clinical environmental from low- middle-income countries less than one...
Advances in genome sequencing and assembly technologies are generating many high quality sequences, but assemblies of large, repeat-rich polyploid genomes, such as that bread wheat, remain fragmented incomplete. We have generated a new wheat whole-genome shotgun sequence using combination optimised data types an algorithm designed to deal with large complex genomes. The represents more than 78% the scaffold N50 88.8kbp has fidelity input data. Our annotation combines strand-specific Illumina...
Abstract Background The Nile tilapia ( Oreochromis niloticus ) is the third most important freshwater fish for aquaculture. Its success directly linked to continuous breeding efforts focusing on production traits such as growth rate and weight. Among those elite strains, Genetically Improved Farmed Tilapia (GIFT) programme initiated by WorldFish now distributed worldwide. To accelerate development of GIFT strain through genomic selection, a high-quality reference genome necessary. Results...
Dense genetic maps, together with the efficiency and accuracy of their construction, are integral to studies marker assisted selection for plant breeding. High-throughput multiplex markers that robust reproducible can contribute both accuracy. Multiplex often dominant so have low information content, this coupled pressure find alternatives radio-labelling, has led us adapt SSAP (sequence specific amplified polymorphism) method from a 33P labelling procedure fluorescently tagged analysed an...
Introduction: Vertebrate body axis formation initiates during gastrulation and continues within the tail bud at posterior end of embryo. Major structures in trunk are paired somites, which generate musculoskeletal system, spinal cord—forming part central nervous notochord, with important patterning functions. The specification these different cell lineages by key signalling pathways transcription factors is essential, however, a global map types expressed genes avian missing. Methods: Here...
Abstract Salmonellosis is an endemic human infection, associated with both sporadic cases and outbreaks throughout Colombia. Typhimurium the most common Colombian serovar of Salmonella enterica , responsible for 32.5% infections. Whole genome sequencing (WGS) being used increasingly in Europe USA to study epidemiology but there has not yet been a WGS-based analysis bloodstream infection Here, we analysed 209 sequences S . monophasic 4,[5],12:i:-isolates from Colombia 1999 2017. We core...
Macroautophagy is a ubiquitous homeostasis and health-promoting recycling process of eukaryotic cells, targeting misfolded proteins, damaged organelles intracellular infectious agents. Some pathogens such as Salmonella enterica serovar Typhimurium hijack this during pathogenesis. Here we investigate potential protein-protein interactions between host transcription factors secreted effector proteins their effect on gene transcription. A systems-level analysis identified that had the to affect...
Abstract The genetic code is one of the most highly conserved features across life. Only a few lineages have deviated from “universal” code. Amongst variants reported to date, codons UAA and UAG virtually always same translation, suggesting that their evolution coupled. Here, we report genome transcriptome sequencing novel ciliate, belonging Oligohymenophorea class, where translation stop changed specify different amino acids. Genomic transcriptomic analyses revealed has been reassigned...
Abstract Vertebrate body axis formation initiates during gastrulation and continues within the tail bud at posterior end of embryo. Major structures in trunk are paired somites, which generate musculoskeletal system, spinal cord - forming part central nervous notochord, with important patterning functions. The specification these different cell lineages by key signalling pathways transcription factors is essential, however, a global map types expressed genes avian missing. Here we use...
Abstract Background Intestinal homeostasis depends on complex interactions between the microbiota, intestinal epithelium and host immune system. Paneth cells play an important role thanks to their release of antimicrobial peptides dysfunction has been shown contribute Crohn’s disease. The human gut commensal Bifidobacteria highlighted as a protective agent in IBD. Whilst specific modulating factors are largely unidentified, evidence suggests that can interact with cells. Such alter molecular...
Abstract Background There is a high prevalence of COVID-19 in university-age students, who are returning to university campuses. little evidence regarding the feasibility universal, asymptomatic testing control outbreaks this population. This study aimed pilot mass on research park, assess and acceptability scaling up all staff students. Methods was cross-sectional park East England. Staff students (5,625) were eligible participate. Polymerase chain reaction (PCR) offered participants....
Phase 2 of the Norwich COVID-19 testing initiative: an evaluationUniversity campuses have experienced widespread transmission severe acute respiratory syndrome coronavirus (SARS-CoV-2).The virus is particularly prevalent in student-age population 1 and more likely to be asymptomatic. 2he Testing Initiative phase (NTI2) was asymptomatic disease 2019 (COVID-19) polymerase chain reaction (PCR) programme introduced at University East Anglia campus between September December 2020.NTI2 followed a...
Background The Nile tilapia ( Oreochromis niloticus ) is the third most important freshwater fish for aquaculture. Its success directly linked to continuous breeding efforts focusing on production traits such as growth rate and weight. Among those elite strains, Genetically Improved Farmed Tilapia (GIFT) programme initiated by WorldFish now distributed worldwide. To accelerate development of GIFT strain through genomic selection, a high-quality reference genome necessary. Findings Using...
Non-typhoidal Salmonella(NTS)are typically associated with enterocolitis and linked to the industrialisation of food production. In recent years, NTS has been invasive disease (iNTS disease) causing an estimated 77,000 deaths each year worldwide; 80% mortality occurs in sub-Saharan Africa. New clades S. Typhimurium Enteritidis have identified, which are characterised by genomic degradation, altered prophage repertoires novel multidrug resistant plasmids. To understand how these contributing...