{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,30]],"date-time":"2026-09-30T23:57:38Z","timestamp":1790812658502,"version":"4.1.0"},"reference-count":46,"publisher":"American Society for Microbiology","issue":"5","license":[{"start":{"date-parts":[[2026,5,13]],"date-time":"2026-05-13T00:00:00Z","timestamp":1778630400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"},{"start":{"date-parts":[[2026,5,13]],"date-time":"2026-05-13T00:00:00Z","timestamp":1778630400000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/journals.asm.org\/non-commercial-tdm-license"}],"funder":[{"DOI":"10.13039\/100000030","name":"Centers for Disease Control and Prevention","doi-asserted-by":"publisher","award":["GR150201607"],"award-info":[{"award-number":["GR150201607"]}],"id":[{"id":"10.13039\/100000030","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100000030","name":"Centers for Disease Control and Prevention","doi-asserted-by":"publisher","award":["NU51CK000372"],"award-info":[{"award-number":["NU51CK000372"]}],"id":[{"id":"10.13039\/100000030","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["journals.asm.org"],"crossmark-restriction":true},"short-container-title":["J Clin Microbiol"],"published-print":{"date-parts":[[2026,5,13]]},"abstract":"ABSTRACT<\/jats:title>\n \n \n \n We report a rapid increase in dermatophyte infections in New York City and surrounding counties from 2022 to 2024. Reported cases include 135 of\n Trichophyton indotineae<\/jats:italic>\n (\n Ti<\/jats:italic>\n ), 39 of\n Trichophyton mentagrophytes<\/jats:italic>\n genotype VII (\n Tm<\/jats:italic>\n VII), and 14 of\n T. mentagrophytes<\/jats:italic>\n genotype II* (\n Tm<\/jats:italic>\n II*). These numbers highlight the urgent need for rapid, high-throughput identification, drug-resistance testing, and surveillance of these pathogens. To address these challenges, an automated deep learning model was developed using internal transcribed spacer (ITS) sequences from 28 well-defined genotypes of\n Trichophyton interdigitale\/T. mentagrophytes<\/jats:italic>\n Species Complex (\n TiTm<\/jats:italic>\n SC).\n Ti<\/jats:italic>\n , previously classified as\n T. mentagrophytes<\/jats:italic>\n genotype VIII, is now recognized as a distinct species. The model enabled rapid and accurate identification of all 28 genotypes directly from Sanger sequencing output files.\n In vitro<\/jats:italic>\n antifungal susceptibility testing (AFST) demonstrated that 57% of\n Ti<\/jats:italic>\n isolates exhibited high minimum inhibitory concentrations (MICs) to the first-line drug terbinafine, and 38%\u201352% showed elevated MICs to azoles. In contrast, all\n Tm<\/jats:italic>\n VII and\n Tm<\/jats:italic>\n II* isolates had low MICs to both terbinafine and azoles. Whole-genome sequencing (WGS) of a subset of\n Ti<\/jats:italic>\n ,\n Tm<\/jats:italic>\n VII, and\n Tm<\/jats:italic>\n II* isolates revealed evidence of both clonal transmission and independent introductions. This integrated approach, combining rapid identification, drug resistance testing, and transmission analysis, is expected to improve patient care and infection control measures.\n <\/jats:p>\n \n IMPORTANCE<\/jats:title>\n \n This report presents a comprehensive laboratory investigation into the emergence and rapid spread of\n Trichophyton indotineae<\/jats:italic>\n (\n Ti<\/jats:italic>\n ),\n Trichophyton mentagrophytes<\/jats:italic>\n genotype VII (\n Tm<\/jats:italic>\n VII), and\n T. mentagrophytes<\/jats:italic>\n genotype II* (\n Tm<\/jats:italic>\n II*) in New York City and its surrounding counties. A high-throughput pipeline for the identification of\n Trichophyton<\/jats:italic>\n species and genotypes is described. Approximately 57% of\n Ti<\/jats:italic>\n isolates exhibited elevated minimum inhibitory concentrations (MICs) to terbinafine, while 38%\u201352% demonstrated elevated MICs to azoles, raising significant concern. Whole-genome sequencing revealed evidence of both clonal spread and independent introductions of\n Ti<\/jats:italic>\n ,\n Tm<\/jats:italic>\n VII, and\n Tm<\/jats:italic>\n II*. These findings have important implications for patient care and infection control measures.\n <\/jats:p>\n <\/jats:sec>\n <\/jats:sec>","DOI":"10.1128\/jcm.00156-26","type":"journal-article","created":{"date-parts":[[2026,4,10]],"date-time":"2026-04-10T13:00:20Z","timestamp":1775826020000},"update-policy":"https:\/\/doi.org\/10.1128\/asmj-crossmark-policy-page","source":"Crossref","is-referenced-by-count":7,"title":["The emergence of superficial dermatophytosis due to\n Trichophyton indotineae<\/i>\n and\n Trichophyton mentagrophytes<\/i>\n genotypes VII and II* in New York: a need for comprehensive testing approaches"],"prefix":"10.1128","volume":"64","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-9771-2623","authenticated-orcid":false,"given":"Gabrielle C.","family":"Todd","sequence":"first","affiliation":[{"id":[{"id":"https:\/\/ror.org\/04hf5kq57","id-type":"ROR","asserted-by":"publisher"}],"name":"Wadsworth Center Mycology Laboratory, New York State Department of 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