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Here we report the findings of a comprehensive analysis of the lung microbiome composition of three patients with long-term pneumonia due to\n            <jats:named-content content-type=\"genus-species\">L. pneumophila<\/jats:named-content>\n            and its evolution during antibiotic treatment. This work adds to our understanding of how the microbiome changes during disease and antibiotic treatment and points to microorganisms and their interactions that might be beneficial. In addition to bacteria and fungi, our analyses included archaea and eukaryotes (protozoa), showing that both are present in the pulmonary microbiota and that they might also play a role in the response to the microbiome disturbance.\n          <\/jats:p>","DOI":"10.1128\/mbio.00889-20","type":"journal-article","created":{"date-parts":[[2020,5,18]],"date-time":"2020-05-18T13:18:21Z","timestamp":1589807901000},"update-policy":"https:\/\/doi.org\/10.1128\/asmj-crossmark-policy-page","source":"Crossref","is-referenced-by-count":16,"title":["Persistent Legionnaires\u2019 Disease and Associated Antibiotic Treatment Engender a Highly Disturbed Pulmonary Microbiome Enriched in Opportunistic Microorganisms"],"prefix":"10.1128","volume":"11","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-3995-5571","authenticated-orcid":false,"given":"Ana Elena","family":"P\u00e9rez-Cobas","sequence":"first","affiliation":[{"name":"Institut Pasteur, Biologie des Bact\u00e9ries Intracellulaires, Paris, 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