A5086428560- Gut microbiota and health
- Genomics and Phylogenetic Studies
- Aquaculture disease management and microbiota
- Smart Agriculture and AI
- Salmonella and Campylobacter epidemiology
- Animal Nutrition and Physiology
- Marine Bivalve and Aquaculture Studies
- Microbial Community Ecology and Physiology
- Gene expression and cancer classification
- Environmental DNA in Biodiversity Studies
- Agriculture, Soil, Plant Science
- Aquaculture Nutrition and Growth
European Bioinformatics Institute
2022-2025
Abstract The MGnify platform (https://www.ebi.ac.uk/metagenomics) facilitates the assembly, analysis and archiving of microbiome-derived nucleic acid sequences. provides access to taxonomic assignments functional annotations for nearly half a million analyses covering metabarcoding, metatranscriptomic, metagenomic datasets, which are derived from wide range different environments. Over past 3 years, has not only grown in terms number datasets contained but also increased breadth provided,...
Abstract The HoloFood project used a hologenomic approach to understand the impact of host–microbiota interactions on salmon and chicken production by analysing multiomic data, phenotypic characteristics, associated metadata in response novel feeds. project’s raw derived analyses, are deposited public, open archives (BioSamples, European Nucleotide Archive, MetaboLights, MGnify), so making use these diverse data types may require access multiple resources. This is especially complex where...
Abstract Understanding the development of functional attributes host-associated microbial communities is essential for developing novel microbe-based solutions sustainable animal production. We applied multi-omics to 388 broiler chicken caecal samples characterise and model dynamics 822 bacterial strains. Although community diversity metrics increased with age as expected, overall metabolic capacity activity microbiota exhibited an unexpected decrease. This drop occurred due spread...
<title>Abstract</title> Unravelling the colonisation dynamics and physiological effects of zoonotic bacteria such as <italic>Campylobacter</italic> is imperative to prevent foodborne diseases. We employed a hologenomic approach jointly analyse metabolic networks gene expression caecal microbiota, with intestinal 613 broiler chickens that did not undergo an opportunistic colonisation. report early development distinct microbial enterotype enriched <italic>Bacteroides fragilis_A</italic>,...