{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,12]],"date-time":"2026-02-12T08:40:11Z","timestamp":1770885611465,"version":"3.50.1"},"reference-count":31,"publisher":"BMJ","issue":"9","license":[{"start":{"date-parts":[[2024,9,12]],"date-time":"2024-09-12T00:00:00Z","timestamp":1726099200000},"content-version":"unspecified","delay-in-days":11,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"National Health and Medical Research Council (NHMRC) Australia","award":["1191571"],"award-info":[{"award-number":["1191571"]}]}],"content-domain":{"domain":["bmj.com"],"crossmark-restriction":true},"short-container-title":["BMJ Open"],"accepted":{"date-parts":[[2024,8,7]]},"published-print":{"date-parts":[[2024,9]]},"abstract":"<jats:sec>\n                    <jats:title>Introduction<\/jats:title>\n                    <jats:p>The human gut microbiota has the potential to modulate the outcomes of several human diseases. This effect is likely to be mediated through interaction with the host immune system. This protocol details the establishment of a biorepository of clinically annotated samples, which we will use to explore correlations between the gut microbiota and the immune system of immune-compromised patients. We aim to identify microbiome-related risk factors for adverse outcomes.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Methods and analyses<\/jats:title>\n                    <jats:p>This is a protocol for the development of a biorepository of clinically annotated samples collected prospectively across three centres in Melbourne, Australia. Participants will be recruited across the following clinical streams: (1) acute leukaemia and allogeneic stem cell transplant; (2) end-stage liver disease and liver transplant; (3) patients receiving any cancer immunotherapies (eg, chimeric antigen receptor therapy); (4) deceased organ donors and (5) healthy adult controls. Participants will be asked to provide paired peripheral blood and microbiota samples (stool and saliva) at either (1) single time point for healthy controls and deceased organ donors or (2) longitudinally over multiple prespecified or event-driven time points for the remaining cohorts. Sampling of fluid from bronchoalveolar lavage and colonoscopy or biopsy of tissues undertaken during routine care will also be performed.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Ethics and dissemination<\/jats:title>\n                    <jats:p>Ethical approval has been obtained from the relevant local ethics committee (The Royal Melbourne Hospital Human Research Ethics Committee). The results of this study will be disseminated by various scientific platforms including social media, international presentations and publication in peer-reviewed journals.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Trial registration number<\/jats:title>\n                    <jats:p>ACTRN12623001105639. Date registered 20 October 2023.<\/jats:p>\n                  <\/jats:sec>","DOI":"10.1136\/bmjopen-2024-085504","type":"journal-article","created":{"date-parts":[[2024,9,12]],"date-time":"2024-09-12T14:48:43Z","timestamp":1726152523000},"page":"e085504","update-policy":"https:\/\/doi.org\/10.1136\/crossmarkpolicy","source":"Crossref","is-referenced-by-count":1,"title":["Protocol for a clinically annotated biorepository of samples from Australian immune-compromised patients to investigate the host\u2013microbiome interaction"],"prefix":"10.1136","volume":"14","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-1232-5884","authenticated-orcid":false,"given":"Olivia C","family":"Smibert","sequence":"first","affiliation":[{"name":"Peter MacCallum Cancer Centre, Melbourne, Victoria, Australia"},{"name":"Sir Peter MacCallum Department of Oncology, University of Melbourne, Melbourne, Victoria, Australia"},{"name":"Department of Infectious Diseases, Peter MacCallum Cancer Centre, Melbourne, Victoria, Australia"},{"name":"Department of Infectious Diseases & Immunology, Austin Health, Melbourne, Victoria, Australia"},{"name":"National Centre for Infections in Cancer, Peter MacCallum Cancer Centre, Melbourne, Victoria, Australia"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5111-6367","authenticated-orcid":false,"given":"Jason A","family":"Trubiano","sequence":"additional","affiliation":[{"name":"Department of Infectious Diseases & Immunology, Austin Health, Melbourne, Victoria, Australia"},{"name":"National Centre for Infections in Cancer, Peter MacCallum Cancer Centre, Melbourne, Victoria, Australia"},{"name":"Department of Infectious Diseases, University of Melbourne, The Peter Doherty Institute for Infection and Immunity, Melbourne, Victoria, Australia"},{"name":"Centre for Antibiotic Allergy and Research, Department of Infectious Diseases, Austin Health, Heidelberg, Victoria, Australia"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jason C","family":"Kwong","sequence":"additional","affiliation":[{"name":"Department of Infectious Diseases & Immunology, Austin Health, Melbourne, Victoria, Australia"},{"name":"Department of Microbiology & Immunology, The Peter Doherty Institute for Infection and Immunity, The University of Melbourne, Melbourne, Victoria, Australia"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Kate A","family":"Markey","sequence":"additional","affiliation":[{"name":"Translational Science and Therapeutics Division, Fred Hutchinson Cancer Center (FHCC), Seattle, Washington, USA"},{"name":"Department of Medicine, University of Washington, Seattle, Washington, USA"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Monica A","family":"Slavin","sequence":"additional","affiliation":[{"name":"Sir Peter MacCallum Department of Oncology, University of Melbourne, Melbourne, Victoria, Australia"},{"name":"Department of Infectious Diseases, Peter MacCallum Cancer Centre, Melbourne, Victoria, Australia"},{"name":"National Centre for Infections in Cancer, Peter MacCallum Cancer Centre, Melbourne, Victoria, Australia"},{"name":"Department of Infectious Diseases, University of Melbourne, The Peter Doherty Institute for Infection and Immunity, Melbourne, Victoria, Australia"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"239","published-online":{"date-parts":[[2024,9,12]]},"reference":[{"key":"2025121422475368000_14.9.e085504.1","unstructured":"Registry ABMTR . 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