{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,30]],"date-time":"2026-10-30T06:58:48Z","timestamp":1793343528064,"version":"4.5.0"},"reference-count":33,"publisher":"Oxford University Press (OUP)","issue":"1","license":[{"start":{"date-parts":[[2025,7,16]],"date-time":"2025-07-16T00:00:00Z","timestamp":1752624000000},"content-version":"vor","delay-in-days":196,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Dutch Organization for Scientific Research","award":["645.001.002"],"award-info":[{"award-number":["645.001.002"]}]},{"name":"National Institute for Public Health and the Environment"},{"name":"Vedanta Biosciences"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2025,1,17]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Fecal microbiota transplantation (FMT) is a promising treatment for the chronic immune-mediated disease ulcerative colitis (UC). However, the microbial dynamics underlying clinical remission remain poorly understood. To investigate these dynamics, we analysed data from 22 UC patients treated with four rounds of FMT donated by two healthy donors. Microbiota samples from patients were collected at nine timepoints before, during, and after treatment, covering a period of 14\u00a0weeks. Additionally, 27 donor samples were analysed. Species in the recipients\u2019 gut microbiota were categorised into ecological categories based on their origin and temporal dynamics: species already present in the recipient pre-FMT, species derived from the donor, or novel species, i.e. absent before FMT in both recipient and donor but detected during or after treatment. Overdispersed Poisson regression models were employed to model the number of species within each category over time. Furthermore, we investigated the change in relative abundance for recipient, colonising, and novel species. The results revealed that recipient species with higher relative abundances prior to FMT were more likely to persist following FMT. Notably, patients who achieved combined clinical and endoscopic remission at week 14 retained a higher number of recipient species compared to non-responders. In contrast, non-responders initially exhibited colonisation of more donor species than responders, but colonisation rate decreased over time in non-responders whereas colonisation rate remained stable in responders. These findings suggest that clinical remission following FMT is associated with controlled incorporation of donor species without replacement of resident species, which may reflect a resilient recipient gut community.<\/jats:p>","DOI":"10.1093\/ismeco\/ycaf119","type":"journal-article","created":{"date-parts":[[2025,7,15]],"date-time":"2025-07-15T13:14:39Z","timestamp":1752585279000},"source":"Crossref","is-referenced-by-count":2,"title":["Ecological resilience in ulcerative colitis: microbial dynamics of donor and resident species in a longitudinal fecal microbiota transplantation study"],"prefix":"10.1093","volume":"5","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-7422-9519","authenticated-orcid":false,"given":"Susanne","family":"Pinto","sequence":"first","affiliation":[{"name":"Department of Biomedical Data Sciences, Leiden University Medical Center , Einthovenweg 20, 2333 ZC Leiden ,","place":["the Netherlands"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9261-9315","authenticated-orcid":false,"given":"Elisa","family":"Beninc\u00e0","sequence":"additional","affiliation":[{"name":"Centre for Infectious Disease Control, National Institute for Public Health and the Environment (RIVM) , Antonie van Leeuwenhoeklaan 9, 3721 MA Bilthoven ,","place":["the Netherlands"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5892-5637","authenticated-orcid":false,"given":"Sam","family":"Nooij","sequence":"additional","affiliation":[{"name":"Leiden University Center for Infectious Diseases (LUCID) Research, Leiden University Medical Center , Albinusdreef 2, 2333 ZG Leiden ,","place":["the Netherlands"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1994-5421","authenticated-orcid":false,"given":"Elisabeth M","family":"Terveer","sequence":"additional","affiliation":[{"name":"Leiden University Center for Infectious Diseases (LUCID) Research, Leiden University Medical Center , Albinusdreef 2, 2333 ZG Leiden ,","place":["the Netherlands"]},{"name":"Netherlands Donor Feces Bank, LUCID Medical Microbiology & Infection Control, Leiden University Medical Center , Albinusdreef 2, 2333 ZG Leiden ,","place":["the Netherlands"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Josbert J","family":"Keller","sequence":"additional","affiliation":[{"name":"Netherlands Donor Feces Bank, LUCID Medical Microbiology & Infection Control, Leiden University Medical Center , Albinusdreef 2, 2333 ZG Leiden ,","place":["the Netherlands"]},{"name":"Department of Gastroenterology and Hepatology, Leiden University Medical Center , Albinusdreef 2, 2333 ZG Leiden ,","place":["the Netherlands"]},{"name":"Department of Gastroenterology, Haaglanden Medisch Centrum , Bronovolaan 5, 2597 AX The Hague ,","place":["the Netherlands"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9353-5431","authenticated-orcid":false,"given":"Andrea E","family":"van der Meulen \u2013 de Jong","sequence":"additional","affiliation":[{"name":"Department of Gastroenterology and Hepatology, Leiden University Medical Center , Albinusdreef 2, 2333 ZG Leiden ,","place":["the Netherlands"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-7787-0122","authenticated-orcid":false,"given":"Ewout W","family":"Steyerberg","sequence":"additional","affiliation":[{"name":"Department of Biomedical Data Sciences, Leiden University Medical Center , Einthovenweg 20, 2333 ZC Leiden ,","place":["the Netherlands"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-3389-5141","authenticated-orcid":false,"given":"Johannes A","family":"Bogaards","sequence":"additional","affiliation":[{"name":"Department of Epidemiology and Data Science, Amsterdam UMC location Vrije Universiteit , Van der Boechorststraat 7, 1081 BT Amsterdam ,","place":["the Netherlands"]},{"name":"Amsterdam Institute for Immunology & Infectious Diseases (AI&I), Amsterdam UMC , De Boelelaan 1089a, 1081 HV Amsterdam ,","place":["the Netherlands"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2025,7,16]]},"reference":[{"key":"2025082608170643900_ref1","doi-asserted-by":"publisher","first-page":"407","DOI":"10.1056\/NEJMoa1205037","article-title":"Duodenal infusion of donor feces for recurrent Clostridium difficile","volume":"368","author":"van Nood","year":"2013","journal-title":"N Engl J Med"},{"key":"2025082608170643900_ref2","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1111\/1469-0691.12418","article-title":"European Society of Clinical Microbiology and Infectious Diseases. 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