A5036117348- Bacteriophages and microbial interactions
- Plant Virus Research Studies
- Viral gastroenteritis research and epidemiology
- RNA and protein synthesis mechanisms
- X-ray Diffraction in Crystallography
- Microbial Community Ecology and Physiology
- Genomics and Phylogenetic Studies
- Crystallization and Solubility Studies
- 14-3-3 protein interactions
- COVID-19 Clinical Research Studies
- N-Heterocyclic Carbenes in Organic and Inorganic Chemistry
- SARS-CoV-2 and COVID-19 Research
- RNA modifications and cancer
- Crystallography and molecular interactions
- Bacterial Genetics and Biotechnology
- Advanced NMR Techniques and Applications
- Ubiquitin and proteasome pathways
- Long-Term Effects of COVID-19
- Vibrio bacteria research studies
- Diverse Scientific and Economic Studies
- RNA Research and Splicing
- Biochemical and Molecular Research
- CRISPR and Genetic Engineering
- Microbial infections and disease research
- Fungal and yeast genetics research
University of York
2012-2023
National Institutes of Health
2019-2022
University College Cork
2022
National Center for Biotechnology Information
2022
National Institute of Arthritis and Musculoskeletal and Skin Diseases
2019-2020
The development of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) vaccines and therapeutics will depend on understanding viral immunity. We studied T cell memory in 42 patients following recovery from COVID-19 (28 with mild disease 14 disease) 16 unexposed donors, using interferon-γ-based assays peptides spanning SARS-CoV-2 except ORF1. breadth magnitude responses were significantly higher as compared cases. Total spike-specific correlated antibody responses. identified 41...
COVID-19 is an ongoing global crisis in which the development of effective vaccines and therapeutics will depend critically on understanding natural immunity to virus, including role SARS-CoV-2-specific T cells. We have conducted a study 42 patients following recovery from COVID-19, 28 mild 14 severe cases, comparing their cell responses those 16 control donors. assessed immune memory using IFNγ based assays with overlapping peptides spanning SARS-CoV-2 apart ORF1. found breadth, magnitude...
The coronavirus nucleocapsid protein (N) controls viral genome packaging and contains numerous phosphorylation sites located within unstructured regions. Binding of phosphorylated SARS-CoV N to the host 14-3-3 in cytoplasm was reported regulate nucleocytoplasmic shuttling. All seven isoforms human are abundantly present tissues vulnerable SARS-CoV-2, where can constitute up ~1% expressed proteins during infection. Although association between SARS-CoV-2 represent one key host-pathogen...
Abstract CrAssphage and related viruses of the order Crassvirales (hereafter referred to as crassviruses) were originally discovered by cross-assembly metagenomic sequences. They are most abundant in human gut, found majority individual gut viromes, account for up 95% viral sequences some individuals 1–4 . Crassviruses likely have major roles shaping composition functionality microbiome, but structures virally encoded proteins unknown, with only generic predictions resulting from...
The hyperpolarization (HP) method signal amplification by reversible exchange (SABRE) uses para-hydrogen to sensitize substrate detection NMR. catalyst systems [Ir(H)2(IMes)(MeCN)2(R)]BF4 and [Ir(H)2(IMes)(py)2(R)]BF4 [py = pyridine; R PCy3 or PPh3; IMes 1,3-bis(2,4,6-trimethylphenyl)imidazol-2-ylidene], which contain both an electron-donating N-heterocyclic carbene a phosphine, are used here catalyze SABRE. They react with acetonitrile pyridine produce [Ir(H)2(NCMe)(py)(IMes)(PPh3)]BF4...
Double-stranded DNA viruses, including bacteriophages and herpesviruses, package their genomes into preformed capsids, using ATP-driven motors. Seeking to advance structural mechanistic understanding, we established in vitro packaging for a thermostable bacteriophage, P23-45 of Thermus thermophilus . Both the unexpanded procapsid expanded mature capsid can presence ATPase over 20 °C 70 temperature range, with optimum activity at 50 65 °C. Cryo-EM reconstructions immature capsids 3.7-Å 4.4-Å...
Double-stranded DNA viruses utilise machinery, made of terminase proteins, to package viral into the capsid. For cos bacteriophage, a defined signal, recognised by small terminase, flanks each genome unit. Here we present first structural data for virus packaging motor, assembled from bacteriophage HK97 procapsids encompassing portal protein, and containing site. The cryo-EM structure is consistent with termination state adopted after cleavage, density within large assembly ending abruptly...
The portal protein is a key component of many double-stranded DNA viruses, governing capsid assembly and genome packaging. Twelve subunits the define tunnel, through which translocated into capsid. It unknown how functions as gatekeeper, preventing slippage, whilst allowing its passage capsid, these processes are controlled. A cryo-EM structure thermostable virus P23-45, determined in situ procapsid-bound state, indicates mechanism that naturally safeguards against loss. This occurs via an...
Viruses in aquatic environments play a key role microbial population dynamics and nutrient cycling. In particular, bacteria of the phylum Bacteriodetes are known to participate recycling algal blooms. Studies phage–host interactions involving this hence important understand processes shaping bacterial viral communities ocean as well study, we isolated sequenced three strains flavobacteria—LMO6, LMO9, LMO8—and 38 virulent phages infecting them. These represent 15 species, occupying novel...
Visible surface films, termed slicks, can extensively cover freshwater and marine ecosystems, with coastal regions being particularly susceptible to their presence. The sea-surface microlayer (SML), the upper 1-mm at air-water interface in slicks (herein slick SML) harbors a distinctive bacterial community, but generally little is known about SML viruses. Using flow cytometry, metagenomics, cultivation, we characterized viruses bacteria brackish comparison non-slick as well seawater below...
Hyperpolarised NMR allows the tracking of DFT-rationalised outer sphere hydrogenation quinazoline.
Phage predation constitutes a major mortality factor for bacteria in aquatic ecosystems, and thus, directly impacts nutrient cycling microbial community dynamics. Yet, the population dynamics of specific phages across time scales from days to months remain largely unexplored, which limits our understanding their influence on succession. To investigate temporal changes diversity abundance infecting particular host strains, we isolated 121 phage strains that infected three bacterial hosts...
Background Subunit number is amongst the most important structural parameters that determine size, symmetry and geometry of a circular protein oligomer. The L-tryptophan biosynthesis regulator, TRAP, present in several Bacilli, good model system for investigating determinants oligomeric state. A short segment C-terminal residues defines whether TRAP forms an 11-mer or 12-mer assembly. To understand which state more stable, we examine stability wild type mutant proteins. Methodology/Principal...
Yersinia phage YerA41 is morphologically similar to jumbo bacteriophages. The isolated genomic material of could not be digested by restriction enzymes, and used as a template conventional DNA polymerases. Nucleoside analysis the material, carried out find whether this was due modified nucleotides, revealed presence ca 1 kDa substitution thymidine with apparent oligosaccharide character. We identified purified polymerase (DNAP) that replicate even without added primers. Cryo-electron...
Abstract The coronavirus nucleocapsid protein (N) controls viral genome packaging and contains numerous phosphorylation sites located within unstructured regions. Binding of phosphorylated SARS-CoV N to the host 14-3-3 in cytoplasm was reported regulate nucleocytoplasmic shuttling. All seven isoforms human are abundantly present tissues vulnerable SARS-CoV-2, where can constitute up ~1% expressed proteins during infection. Although association between SARS-CoV-2 represent one key...
Abstract Visible surface films, termed slicks, can extensively cover the sea surface, particularly in coastal regions. The sea-surface microlayer (SML), upper 1-mm at air-water interface slicks (slick SML) harbors a distinctive bacterial community, but little is known about SML viruses. Using flow cytometry, metagenomics, and cultivation, we investigated viruses community from brackish slick comparison to non-slick as well seawater below (SSW). We conducted size-fractionated filtration of...
Abstract Bacteriophages of the order Crassvirales (crassviruses) were originally discovered by cross-assembly metagenomic sequences. They are most abundant viruses in human gut, found majority individual gut viromes and account for up to ~95% viral sequences some individuals(1–4). Crassviruses likely play major roles shaping composition functionality microbiome, but structures phage-encoded proteins unknown, with only generic predictions resulting from bioinformatic analyses(4,5). Here we...
The portal protein is a key component of many double-stranded DNA viruses, governing capsid assembly and genome packaging. Twelve subunits the form ring with central tunnel, through which translocated into capsid. It unknown how functions as gatekeeper, preventing slippage, whilst allowing its passage these processes can be controlled by motor proteins. A cryo-EM structure protein, determined in situ for immature capsids thermostable bacteriophage P23-45, suggests domain adjustments coupled...
ADVERTISEMENT RETURN TO ISSUEPREVAddition/CorrectionNEXTORIGINAL ARTICLEThis notice is a correctionCorrection to Iridium(III) Hydrido N-Heterocyclic Carbene–Phosphine Complexes as Catalysts in Magnetization Transfer ReactionsMarianna Fekete, Oliver W. Bayfield, Simon B. Duckett*, Sam Hart, Ryan E. Mewis, Natalie Pridmore, Peter J. Rayner, and Adrian WhitwoodCite this: Inorg. Chem. 2014, 53, 5, 2749Publication Date (Web):February 11, 2014Publication History Published online11 February...
ABSTRACT Double-stranded DNA viruses utilise machinery, made of terminase proteins, to package viral into the capsid. For cos bacteriophage, a defined signal, recognised by small terminase, flanks each genome unit. Here we present first structural data for virus packaging motor, assembled from bacteriophage HK97 procapsids encompassing portal protein, and containing site. The cryo-EM structure is consistent with termination state adopted after cleavage, density within large assembly ending...