{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,18]],"date-time":"2026-03-18T02:00:35Z","timestamp":1773799235979,"version":"3.50.1"},"reference-count":16,"publisher":"Walter de Gruyter GmbH","issue":"3","license":[{"start":{"date-parts":[[2025,2,5]],"date-time":"2025-02-05T00:00:00Z","timestamp":1738713600000},"content-version":"unspecified","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0"}],"funder":[{"DOI":"10.13039\/501100008816","name":"University of Sri Jayewardenepura","doi-asserted-by":"publisher","award":["ASP\/RE\/2017\/74"],"award-info":[{"award-number":["ASP\/RE\/2017\/74"]}],"id":[{"id":"10.13039\/501100008816","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2025,9,19]]},"abstract":"Abstract<\/jats:title>\n \n Objectives<\/jats:title>\n \n Efficient real-time PCR kits are commercially available for the detection of\n Chlamydia trachomatis<\/jats:italic>\n (CT) genetic material, but at a price. As a result, cost-effective, sensitive and specific CT diagnostic tests are essential for resource limited countries. This study aims to describe the optimization of a loop mediated isothermal amplification (LAMP) assay for the detection of CT\n ompA<\/jats:italic>\n DNA in urine.\n <\/jats:p>\n <\/jats:sec>\n \n Methods<\/jats:title>\n \n Cost-saving modifications included using\n Bsm<\/jats:italic>\n polymerase and a nucleic acid gel stain. Crude DNA extraction (method-1) involved centrifuging urine at 14,000\u202fg for 30\u202fmin, heating the deposit at 95\u202f\u00b0C for 5\u202fmin, and centrifuging again at 17,000\u202f\n g<\/jats:italic>\n for 1\u202fmin. To boost sensitivity, urinary inhibitors were diluted with phosphate-buffered saline washes and a larger urine volume was used (method-2). The LAMP-SYBR GOLD assay was incubated at 56\u202f\u00b0C for 60\u202fmin, with nucleic acid gel stain color changes observed under UV light. Urine from 326 sexually transmitted diseases clinic attendees was tested with both LAMP-SYBR GOLD and real-time PCR, comparing sensitivity and specificity.\n <\/jats:p>\n <\/jats:sec>\n \n Results<\/jats:title>\n Analytical sensitivity of the LAMP-SYBR GOLD assay was 0.8 copies per reaction volume. Compared to real-time PCR, LAMP-SYBR GOLD assay had sensitivity, specificity, positive predictive and negative predictive values of 71.4\u202f, 99.7, 96.2, 96.7\u202f% respectively. Five of the seven false negative results obtained with method-1 were re-tested using method-2, providing in all the cases the expected positive results.<\/jats:p>\n <\/jats:sec>\n \n Conclusions<\/jats:title>\n The LAMP-SYBR GOLD assay showed a sensitivity of 71\u202f% and a high specificity for detecting CT in urine with extraction method-1. The use of method-2 could increase this sensitivity, likely due to the removal of urine inhibitors.<\/jats:p>\n <\/jats:sec>","DOI":"10.1515\/almed-2024-0117","type":"journal-article","created":{"date-parts":[[2025,2,4]],"date-time":"2025-02-04T06:52:42Z","timestamp":1738651962000},"page":"314-319","source":"Crossref","is-referenced-by-count":0,"title":["Detection of\n Chlamydia trachomatis ompA<\/i>\n DNA in urine by loop-mediated isothermal amplification (LAMP) assay"],"prefix":"10.1515","volume":"6","author":[{"given":"Hemali","family":"Attanayake","sequence":"first","affiliation":[{"name":"National STD AIDS Control Program , Colombo , Sri Lanka"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Charitha","family":"Goonasekara","sequence":"additional","affiliation":[{"name":"Department of Pre Clinical Sciences, Faculty of Medicine , General Sir John Kotelawala Defence University , Ratmalana , Sri Lanka"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Nalaka","family":"Abeygunasekera","sequence":"additional","affiliation":[{"name":"STD Clinic , Colombo South Teaching Hospital , Kalubowila , Sri Lanka"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jayanthi","family":"Elvitigala","sequence":"additional","affiliation":[{"name":"National STD AIDS Control Program , Colombo , Sri Lanka"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1132-5121","authenticated-orcid":false,"given":"Kamani Mangalika","family":"Gunasekera","sequence":"additional","affiliation":[{"name":"Department of Microbiology, Faculty of Medical Sciences , University of Sri Jayewardenepura , Nugegoda , Sri Lanka"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"374","published-online":{"date-parts":[[2025,2,5]]},"reference":[{"key":"2026031722235312411_j_almed-2024-0117_ref_001","doi-asserted-by":"crossref","unstructured":"Huai, P, Li, F, Chu, T, Liu, D, Liu, J, Zhang, F. 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SYBR gold nucleic acid gel stain; 2023. https:\/\/www.thermofisher.com\/order\/catalog\/product\/s11494 [Accessed 28 Apr 2023]."},{"key":"2026031722235312411_j_almed-2024-0117_ref_011","doi-asserted-by":"crossref","unstructured":"Edwards, T, Burke, PA, Smalley, HB, Gillies, L, Hobbsa, G. Loop-mediated isothermal amplification test for detection of Neisseria gonorrhoeae in urine samples and tolerance of the assay to the presence of urea. J Clin Microbiol 2014;52:2163\u20135. https:\/\/doi.org\/10.1128\/jcm.00314-14.","DOI":"10.1128\/JCM.00314-14"},{"key":"2026031722235312411_j_almed-2024-0117_ref_012","doi-asserted-by":"crossref","unstructured":"Jevtu\u0161evskaja, J, Uusna, J, Andresen, L, Kr\u00f5lov, K, Laanpere, M, Grellier, T, et al.. Combination with antimicrobial peptide lyses improves loop-mediated isothermal amplification based method for Chlamydia trachomatis detection directly in urine sample. 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