{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,20]],"date-time":"2026-10-20T17:14:56Z","timestamp":1792516496131,"version":"4.5.0"},"reference-count":90,"publisher":"Public Library of Science (PLoS)","issue":"1","license":[{"start":{"date-parts":[[2026,1,2]],"date-time":"2026-01-02T00:00:00Z","timestamp":1767312000000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100005278","name":"Universidad de Antioquia","doi-asserted-by":"publisher","award":["2023-64370"],"award-info":[{"award-number":["2023-64370"]}],"id":[{"id":"10.13039\/501100005278","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["www.plosone.org"],"crossmark-restriction":false},"short-container-title":["PLoS One"],"abstract":"<jats:p>\n                    Intestinal parasites continue to pose a significant public health burden in low- and middle-income countries and are increasingly recognized in developed regions. Traditional diagnostic methods, primarily based on microscopy, remain widely used despite limitations in sensitivity and taxonomic resolution. In this exploratory study, we applied a next-generation sequencing (NGS)-based metataxonomic approach, integrated with classical phylogenetic methods, to characterize intestinal parasites in rural Colombian populations. We compare its performance with conventional microscopy, focusing on both protist and geohelminth detection. Metataxonomics outperformed microscopy in detecting\n                    <jats:italic>Strongyloides stercoralis<\/jats:italic>\n                    and enabled precise species and subtype level assignment for\n                    <jats:italic>Blastocystis<\/jats:italic>\n                    and\n                    <jats:italic>Entamoeba<\/jats:italic>\n                    spp., revealing frequent mixed infections. Microscopy detected\n                    <jats:italic>Trichuris trichiura<\/jats:italic>\n                    ,\n                    <jats:italic>Giardia<\/jats:italic>\n                    ,\n                    <jats:italic>Cyclospora<\/jats:italic>\n                    , and\n                    <jats:italic>Chilomastix<\/jats:italic>\n                    more effectively, highlighting limitations of current primers and DNA extraction methods.\n                    <jats:italic>Cystoisospora<\/jats:italic>\n                    was only identified by NGS. These results demonstrate the utility of NGS-based metataxonomics for broad parasite detection while emphasizing areas for methodological improvement and providing a foundation for future, larger-scale studies.\n                  <\/jats:p>","DOI":"10.1371\/journal.pone.0330312","type":"journal-article","created":{"date-parts":[[2026,1,2]],"date-time":"2026-01-02T18:22:44Z","timestamp":1767378164000},"page":"e0330312","update-policy":"https:\/\/doi.org\/10.1371\/journal.pone.corrections_policy","source":"Crossref","is-referenced-by-count":1,"title":["Next-Gen intestinal parasite detection: Leveraging metataxonomics for improved diagnosis of intestinal protists and helminths"],"prefix":"10.1371","volume":"21","author":[{"given":"Katherine","family":"Bedoya-Urrego","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Nicolas","family":"Rozo-Montoya","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ana L.","family":"Galv\u00e1n-D\u00edaz","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Gisela M.","family":"Garcia-Montoya","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2578-4609","authenticated-orcid":true,"given":"Juan F.","family":"Alzate","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"340","published-online":{"date-parts":[[2026,1,2]]},"reference":[{"issue":"9","key":"pone.0330312.ref001","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pntd.0004111","article-title":"Effect of poor access to water and sanitation as risk factors for soil-transmitted helminth infection: selectiveness by the infective route","volume":"9","author":"A Echaz\u00fa","year":"2015","journal-title":"PLoS Negl Trop Dis"},{"key":"pone.0330312.ref002","doi-asserted-by":"crossref","first-page":"8884064","DOI":"10.1155\/2020\/8884064","article-title":"Prevalence and associated risk factors of human intestinal protozoan parasitic infections in ethiopia: a systematic review and meta-analysis","volume":"2020","author":"D Tegen","year":"2020","journal-title":"J Parasitol 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