{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,1]],"date-time":"2026-10-01T22:31:41Z","timestamp":1790893901612,"version":"4.1.0"},"reference-count":64,"publisher":"American Society for Microbiology","issue":"3","license":[{"start":{"date-parts":[[2025,3,25]],"date-time":"2025-03-25T00:00:00Z","timestamp":1742860800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/journals.asm.org\/non-commercial-tdm-license"}],"funder":[{"name":"HHS | National Institutes of Health","award":["T32GM132057"],"award-info":[{"award-number":["T32GM132057"]}]},{"DOI":"10.13039\/100001260","name":"National Organization for Rare Disorders","doi-asserted-by":"crossref","award":["17003, 17005"],"award-info":[{"award-number":["17003, 17005"]}],"id":[{"id":"10.13039\/100001260","id-type":"DOI","asserted-by":"crossref"}]}],"content-domain":{"domain":["journals.asm.org"],"crossmark-restriction":true},"short-container-title":["mSphere"],"published-print":{"date-parts":[[2025,3,25]]},"abstract":"<jats:title>ABSTRACT<\/jats:title>\n          <jats:sec>\n            <jats:title\/>\n            <jats:p>Recent work has demonstrated that cancer-specific microbial communities often colonize tumor tissues. However, untangling low-biomass signals from environmental contamination makes this research technically challenging. We utilize pseudomyxoma peritonei (PMP), a cancer characterized by the spread of mucus-secreting cells throughout the peritoneal cavity, to develop a robust workflow for identifying reproducible tumor microbiomes. Typically originating from the rupture of an appendiceal tumor into the peritoneal cavity, metastasized tumors have been previously shown to harbor a core set of microbes. However, that work did not control for the potential contamination of these low microbial biomass samples. We expand upon these prior findings by characterizing the microbiome of 70 additional PMP tumors and six normal peritoneal control tissues along with appropriate laboratory controls. Additionally, DNA from a subset of 25 tissues was extracted and sequenced at an independent laboratory. We found evidence of reproducible microbial signatures between the replicates of six different PMP tumors that include a set of core taxa that may be introduced from surgical contamination, as well as patient-specific taxa that are also commonly implicated in colorectal cancer. In addition, preoperative chemotherapy treatment was found to reduce tumor microbiome diversity. Our findings demonstrate how independent sample replication can be a powerful approach to investigate low-biomass microbial communities associated with tumor tissues that will improve low microbial biomass research.<\/jats:p>\n            <jats:sec>\n              <jats:title>IMPORTANCE<\/jats:title>\n              <jats:p>Recent work has demonstrated that microbial communities colonize over 30 different types of tumor tissues. The origin of these communities and their possible involvement in carcinogenesis or cancer treatment outcomes remains an unclear, yet important area of research. A current major challenge in characterizing low-biomass, tumor-associated microbiomes is the introduction of environmental contamination during collection, handling, DNA extraction, PCR, and sequencing. Here, we provide a framework for replicating low-biomass tumor microbiome samples to help identify tumors with robust microbial signals and low background contamination. Using this replication approach, we show that pseudomyxoma peritonei (PMP) tumors host reproducible microbial communities, including organisms that have previously been associated with colorectal cancer. Incorporating sample replication into future tumor microbiome studies is a promising approach that will help identify robust signals and increase reproducibility in the field.<\/jats:p>\n            <\/jats:sec>\n          <\/jats:sec>","DOI":"10.1128\/msphere.00652-24","type":"journal-article","created":{"date-parts":[[2025,2,20]],"date-time":"2025-02-20T14:00:21Z","timestamp":1740060021000},"update-policy":"https:\/\/doi.org\/10.1128\/asmj-crossmark-policy-page","source":"Crossref","is-referenced-by-count":5,"title":["Cross-laboratory replication of pseudomyxoma peritonei tumor microbiome reveals reproducible microbial signatures"],"prefix":"10.1128","volume":"10","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-1891-5909","authenticated-orcid":true,"given":"Victoria F.","family":"Nieciecki","sequence":"first","affiliation":[{"name":"Graduate Program in Cell & Molecular Biology, Colorado State University","place":["Fort Collins, USA"]},{"name":"Department of Animal Sciences, Colorado State University","place":["Fort Collins, USA"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Faith C.","family":"Blum","sequence":"additional","affiliation":[{"name":"Department of Microbiology and Immunology, Uniformed Services University","place":["Bethesda, USA"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ryan C.","family":"Johnson","sequence":"additional","affiliation":[{"name":"Independent Researcher","place":["Gaithersburg, USA"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Traci L.","family":"Testerman","sequence":"additional","affiliation":[{"name":"School of Medicine, University of South Carolina","place":["Columbia, USA"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Tom J.","family":"McAvoy","sequence":"additional","affiliation":[{"name":"Department of Chemical and Biomolecular Engineering, University of Maryland","place":["College Park, USA"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mary Caitlin","family":"King","sequence":"additional","affiliation":[{"name":"Department of Surgical Oncology, The Institute for Cancer Care at Mercy, Mercy Medical Center","place":["Baltimore, USA"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Vadim","family":"Gushchin","sequence":"additional","affiliation":[{"name":"Department of Surgical Oncology, The Institute for Cancer Care at Mercy, Mercy Medical Center","place":["Baltimore, USA"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jeannette M.","family":"Whitmire","sequence":"additional","affiliation":[{"name":"Department of Microbiology and Immunology, Uniformed Services University","place":["Bethesda, USA"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Kenneth G.","family":"Frey","sequence":"additional","affiliation":[{"name":"Genomics & Bioinformatics Department, Naval Medical Research Command, NMRC-Frederick","place":["Fort Detrick, USA"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lindsay","family":"Glang","sequence":"additional","affiliation":[{"name":"Genomics & Bioinformatics Department, Naval Medical Research Command, NMRC-Frederick","place":["Fort Detrick, USA"]},{"name":"Leidos","place":["Reston, USA"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Dessiree","family":"Pe\u00f1a-Gomez","sequence":"additional","affiliation":[{"name":"Genomics & Bioinformatics Department, Naval Medical Research Command, NMRC-Frederick","place":["Fort Detrick, USA"]},{"name":"Leidos","place":["Reston, USA"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5744-8493","authenticated-orcid":true,"given":"Kimberly A.","family":"Bishop-Lilly","sequence":"additional","affiliation":[{"name":"Genomics & Bioinformatics Department, Naval Medical Research Command, NMRC-Frederick","place":["Fort Detrick, USA"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Armando","family":"Sardi","sequence":"additional","affiliation":[{"name":"Department of Surgical Oncology, The Institute for Cancer Care at Mercy, Mercy Medical Center","place":["Baltimore, USA"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7095-5177","authenticated-orcid":true,"given":"D. 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