{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,2]],"date-time":"2026-10-02T14:50:09Z","timestamp":1790952609803,"version":"4.1.0"},"reference-count":42,"publisher":"Oxford University Press (OUP)","issue":"4","license":[{"start":{"date-parts":[[2025,6,23]],"date-time":"2025-06-23T00:00:00Z","timestamp":1750636800000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/pages\/standard-publication-reuse-rights"}],"funder":[{"DOI":"10.13039\/501100001732","name":"Danish National Research Foundation","doi-asserted-by":"publisher","award":["DNRF126"],"award-info":[{"award-number":["DNRF126"]}],"id":[{"id":"10.13039\/501100001732","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100008363","name":"Danish Cancer Society","doi-asserted-by":"publisher","award":["R167-A108665-17-S2"],"award-info":[{"award-number":["R167-A108665-17-S2"]}],"id":[{"id":"10.13039\/100008363","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100003554","name":"Lundbeck Foundation","doi-asserted-by":"publisher","award":["R218-2016-1482"],"award-info":[{"award-number":["R218-2016-1482"]}],"id":[{"id":"10.13039\/501100003554","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100009708","name":"Novo Nordisk Foundation","doi-asserted-by":"publisher","award":["NNF15OC0014158"],"award-info":[{"award-number":["NNF15OC0014158"]}],"id":[{"id":"10.13039\/501100009708","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Svend Anderson Foundation"},{"name":"RED de SIDA","award":["RD16\/0025\/0041"],"award-info":[{"award-number":["RD16\/0025\/0041"]}]},{"DOI":"10.13039\/501100008530","name":"European Regional Development Fund","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100008530","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2025,10,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>A relationship among the gut microbiome composition, its resistome, and risk of clinical infections may exist and was explored here by using 663 shotgun-sequenced fecal samples from 276 stem cell transplants. Enterococcus faecium, Escherichia coli, and Enterococcus faecalis were the 3 most prevalent causes of clinical infection, with vancomycin resistance in E faecium as the most common antibiotic resistance feature. Associations among the gut microbiome, resistome, and clinical infections were tested, with significant findings (false discovery rate &amp;lt;0.05) evaluated in multivariable analysis. A 10% increase in gut abundance of E faecium was positively associated with subsequent clinical infection with E faecium (odds ratio, 1.14; P = .02). Additionally, a 1% increase in vanA gene abundance was positively associated with vancomycin-resistant E faecium infection (odds ratio, 1.27; P &amp;lt; .01). Here we used metagenomics to enhance the understanding of infectious sources and to identify patients at risk of clinical infection with antibiotic-resistant bacterial strains.<\/jats:p>","DOI":"10.1093\/infdis\/jiaf330","type":"journal-article","created":{"date-parts":[[2025,6,28]],"date-time":"2025-06-28T22:16:46Z","timestamp":1751149006000},"page":"806-814","source":"Crossref","is-referenced-by-count":2,"title":["The Gut Microbiome and Its Resistome as Predictors of Clinical Infections and Phenotypic Antibiotic Resistance in Hematopoietic Stem Cell Transplant Recipients"],"prefix":"10.1093","volume":"232","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-2400-0382","authenticated-orcid":false,"given":"Jens C","family":"N\u00f8rgaard","sequence":"first","affiliation":[{"name":"PERSIMUNE Centre of Excellence"},{"name":"Department of Hematology, Rigshospitalet , Copenhagen ,","place":["Denmark"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ramtin Z","family":"Marandi","sequence":"additional","affiliation":[{"name":"PERSIMUNE Centre of Excellence"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-4450-0010","authenticated-orcid":false,"given":"Emma Elizabeth","family":"Ilett","sequence":"additional","affiliation":[{"name":"PERSIMUNE Centre of Excellence"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-2426-9472","authenticated-orcid":false,"given":"Arda","family":"Gulay","sequence":"additional","affiliation":[{"name":"PERSIMUNE Centre of Excellence"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6553-691X","authenticated-orcid":false,"given":"Roger","family":"Paredes","sequence":"additional","affiliation":[{"name":"IrsiCaixa Institute , Badalona ,","place":["Spain"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8901-7850","authenticated-orcid":false,"given":"Jens D","family":"Lundgren","sequence":"additional","affiliation":[{"name":"PERSIMUNE Centre of Excellence"},{"name":"Department of Clinical Medicine, Copenhagen University ,","place":["Denmark"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-2804-0560","authenticated-orcid":false,"given":"Mette","family":"J\u00f8rgensen","sequence":"additional","affiliation":[{"name":"PERSIMUNE Centre of Excellence"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5991-2958","authenticated-orcid":false,"given":"Henrik","family":"Sengel\u00f8v","sequence":"additional","affiliation":[{"name":"Department of Hematology, Rigshospitalet , Copenhagen ,","place":["Denmark"]},{"name":"Department of Clinical Medicine, Copenhagen University 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