A5075179787- Bacteriophages and microbial interactions
- Genomics and Phylogenetic Studies
- Plant Virus Research Studies
- Plant and Fungal Interactions Research
- Microbial infections and disease research
- Viral gastroenteritis research and epidemiology
- Microbial Community Ecology and Physiology
- Animal Virus Infections Studies
- Polar Research and Ecology
- SARS-CoV-2 and COVID-19 Research
- Respiratory viral infections research
- RNA and protein synthesis mechanisms
- Monoclonal and Polyclonal Antibodies Research
- Plant Disease Resistance and Genetics
- Gut microbiota and health
- Plant Pathogenic Bacteria Studies
- Glycosylation and Glycoproteins Research
- Animal Disease Management and Epidemiology
- Salmonella and Campylobacter epidemiology
- Antibiotic Resistance in Bacteria
- Virus-based gene therapy research
- Zoonotic diseases and public health
- Vibrio bacteria research studies
- Fecal contamination and water quality
- Bacterial Genetics and Biotechnology
Quadram Institute
2019-2025
Norwich Research Park
2019-2025
University of East Anglia
2025
University of Liverpool
2017-2021
Genomics (United Kingdom)
2019
University of Pretoria
2013-2018
Ecologie Microbienne Lyon
2014
KU Leuven
2011-2012
This paper presents standards and best practices for reporting genome sequences of uncultivated viruses. We present an extension the Minimum Information about any (x) Sequence (MIxS) standard virus genomes. Uncultivated Virus Genome (MIUViG) were developed within Genomic Standards Consortium framework include origin, quality, annotation, taxonomic classification, biogeographic distribution in silico host prediction. Community-wide adoption MIUViG standards, which complement a Single...
Bacteriophage (phage) taxonomy has been in flux since its inception over four decades ago. Genome sequencing put pressure on the classification system and recent years have seen significant changes to phage taxonomy. Here, we reflect state of provide a roadmap for future, including abolition order Caudovirales families Myoviridae, Podoviridae, Siphoviridae. Furthermore, specify guidelines demarcation species, genus, subfamily family-level ranks tailed
With this informal guide, we try to assist both new and experienced phage researchers through two important stages that follow discovery; is, naming classification. Providing an appropriate name for a bacteriophage is not as trivial it sounds, the effects might be long-lasting in databases official taxon names. Phage classification responsibility of Bacterial Archaeal Viruses Subcommittee (BAVS) International Committee on Taxonomy (ICTV). While BAVS aims at providing holistic approach...
Abstract This article summarises the activities of Bacterial Viruses Subcommittee International Committee on Taxonomy for period March 2021−March 2022. We provide an overview new taxa proposed in 2021, approved by Executive Committee, and ratified vote Significant changes to taxonomy bacterial viruses were introduced: paraphyletic morphological families Podoviridae , Siphoviridae Myoviridae as well order Caudovirales abolished, a binomial system nomenclature species was established. In...
This article reports the changes to virus taxonomy approved and ratified by International Committee on Taxonomy of Viruses (ICTV) in March 2022. The entire ICTV was invited vote 174 taxonomic proposals Executive at its annual meeting July 2021. All were an absolute majority members. Of note, Study Groups have started implement new rule for uniform species naming that became effective 2021 mandates binomial 'Genus_name species_epithet' format with or without Latinization. As a result this...
The chicken is the most abundant food animal in world. However, despite its importance, gut microbiome remains largely undefined. Here, we exploit culture-independent and culture-dependent approaches to reveal extensive taxonomic diversity within this complex microbial community.
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%...
A universal taxonomy of viruses is essential for a comprehensive view the virus world and communicating complicated evolutionary relationships among viruses. However, there are major differences in conceptualisation approaches to classification nomenclature virologists, clinicians, agronomists, other interested parties. Here, we provide recommendations guide construction coherent taxonomy, based on expert scientific consensus. Firstly, assignments should be congruent with best attainable...
This article reports changes to virus taxonomy and taxon nomenclature that were approved ratified by the International Committee on Taxonomy of Viruses (ICTV) in April 2023. The entire ICTV membership was invited vote 174 taxonomic proposals had been Executive July 2022, as well a proposed revision Statutes. All revised Statutes majority voting membership. Of note, continued process renaming existing species accordance with recently mandated binomial format included gene transfer agents...
Abstract This article reports changes to virus taxonomy and taxon nomenclature that were approved ratified by the International Committee on Taxonomy of Viruses (ICTV) in April 2024. The entire ICTV membership was invited vote 203 taxonomic proposals had been Executive (EC) July 2023 at 55th EC meeting Jena, Germany, or second November 2023. All online vote. Taxonomic additions include one new phylum ( Ambiviricota ), class, nine orders, three suborders, 51 families, 18 subfamilies, 820...
The bacterium 'Dickeya solani', an aggressive biovar 3 variant of Dickeya dianthicola, causes rotting and blackleg in potato. To control this pathogen using bacteriophage therapy, we isolated characterized two closely related specific bacteriophages, vB_DsoM_LIMEstone1 vB_DsoM_LIMEstone2. LIMEstone phages have a T4-related genome organization share DNA similarity with Salmonella phage ViI. Microbiological molecular characterization the deemed them suitable promising for use therapy. reduced...
The Antarctic continent is considered the coldest and driest place on earth with simple ecosystems, devoid of higher plants. Soils in ice-free regions Antarctica are known to harbor a wide range microorganisms from primary producers grazers, yet their ecology particularly role viruses poorly understood. In this study, we examined virus community structures 14 soil samples Mackay Glacier region. Viral communities were extracted dsDNA was extracted, amplified using single-primer amplification,...
The metaviromes of two distinct Antarctic hyperarid desert soil communities have been characterized. Hypolithic communities, cyanobacterium-dominated assemblages situated on the ventral surfaces quartz pebbles embedded in pavement, showed higher virus diversity than surface soils, which correlated with previous bacterial community studies. Prokaryotic viruses (i.e., phages) represented largest viral component (particularly Mycobacterium both habitats, an identical hierarchical sequence...
Abstract Tailed bacteriophages are the most abundant and diverse viruses in world, with genome sizes ranging from 10 kbp to over 500 kbp. Yet, due historical reasons, all this diversity is confined a single virus order—Caudovirales, composed of just four families: Myoviridae, Siphoviridae, Podoviridae, newly created Ackermannviridae family. In recent years, morphology-based classification scheme has started crumble under constant flood phage sequences, revealing that tailed phages even more...
The discharge of human-derived wastewater represents a major threat to water quality with the potential for waterborne disease outbreaks mainly associated enteric viruses. To prevent illnesses, indicators fecal contamination are monitored in polluted areas, however, their prevalence often does not correlate well viral pathogens. In this study, we used crAssphage, recently discovered human-specific gut-associated bacteriophage, surveillance wastewater-derived contamination. Untreated and...
The aim of this study was to gain further insight into the diversity Escherichia coli phagesfollowed by enhanced work on taxonomic issues in that field. Therefore, we present genomiccharacterization and classification 50 bacteriophages against E. isolated fromvarious sources, such as manure or sewage. All phages were examined for their host range a setof different strains, originating, e.g., from human diagnostic laboratories poultry farms.Transmission electron microscopy revealed...
Abstract With this informal guide, we try to assist both new and experienced phage researchers through two important stages that follow discovery, i.e. naming classification. Providing an appropriate name for a bacteriophage is not as trivial it sounds the effects might be long-lasting in databases official taxon names. Phage classification responsibility of Bacterial Archaeal Viruses Subcommittee (BAVS) International Committee on Taxonomy (ICTV). While BAVS aims at providing holistic...