{"links":{"first":"https://www.ebi.ac.uk/metagenomics/api/v1/samples/SRS2719607/studies?format=json&page=1","last":"https://www.ebi.ac.uk/metagenomics/api/v1/samples/SRS2719607/studies?format=json&page=1","next":null,"prev":null},"data":[{"type":"studies","id":"MGYS00006499","attributes":{"bioproject":"PRJNA419860","accession":"MGYS00006499","samples-count":194,"is-private":false,"last-update":"2023-09-25T13:53:45","secondary-accession":"SRP125799","centre-name":"University of Geneva","public-release-date":null,"study-abstract":"Commensal microbiota play an important role in many physiological processes. Importantly, they pose a natural threshold to colonization with pathogenic bacteria by direct competition. Here we show that acute infection of the lung with influenza A viruses causes elimination of a substantial proportion of bacteria from the small intestine. This weakens the natural shield against pathogenic bacteria and renders the intestinal epithelium vulnerable for invading bacteria. We further show that influenza A virus infection up-regulates the activity of Paneth cells a major source of antimicrobial peptides in the small intestine. This suggests that influenza A viruses affect a host mechanism of microbiota regulation to cause bacterial depletion in the small intestine. Surprisingly, the same mechanism does not apply in the respiratory tract, where influenza A virus infection causes subtle qualitative but not quantitative changes in the commensal microbiota. Overall, our date provide the first description of microbiota dynamics in an acute infection animal model.","study-name":"Lung microbiota of C57BL/6J mice (Mus Musculus) Raw sequence reads","data-origination":"HARVESTED"},"relationships":{"analyses":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/studies/MGYS00006499/analyses?format=json"}},"publications":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/studies/MGYS00006499/publications?format=json"}},"biomes":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/studies/MGYS00006499/biomes?format=json"},"data":[{"type":"biomes","id":"root:Host-associated:Human:Respiratory system:Pulmonary system:Lung","links":{"self":"https://www.ebi.ac.uk/metagenomics/api/v1/biomes/root:Host-associated:Human:Respiratory%20system:Pulmonary%20system:Lung?format=json"}}]},"downloads":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/studies/MGYS00006499/downloads?format=json"}},"geocoordinates":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/studies/MGYS00006499/geocoordinates?format=json"}},"samples":{"links":{"related":"https://www.ebi.ac.uk/metagenomics/api/v1/studies/MGYS00006499/samples?format=json"}}},"links":{"self":"https://www.ebi.ac.uk/metagenomics/api/v1/studies/MGYS00006499?format=json"}}],"meta":{"pagination":{"page":1,"pages":1,"count":1}}}