{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,30]],"date-time":"2026-07-30T10:29:53Z","timestamp":1785407393908,"version":"3.56.0"},"reference-count":38,"publisher":"American Society for Microbiology","issue":"3","license":[{"start":{"date-parts":[[2026,3,18]],"date-time":"2026-03-18T00:00:00Z","timestamp":1773792000000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"},{"start":{"date-parts":[[2026,3,18]],"date-time":"2026-03-18T00:00:00Z","timestamp":1773792000000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/journals.asm.org\/non-commercial-tdm-license"}],"funder":[{"name":"Noncommunicable Chronic Diseases-National Science and Technology Major Project","award":["2024ZD0522700, 2024ZD0540800"],"award-info":[{"award-number":["2024ZD0522700, 2024ZD0540800"]}]},{"DOI":"10.13039\/501100001809","name":"National Natural Science Foundation of China","doi-asserted-by":"publisher","award":["82570013"],"award-info":[{"award-number":["82570013"]}],"id":[{"id":"10.13039\/501100001809","id-type":"DOI","asserted-by":"publisher"}]},{"name":"Peking University People's Hospital Research and Development Funds","award":["RDEB2024-14"],"award-info":[{"award-number":["RDEB2024-14"]}]}],"content-domain":{"domain":["journals.asm.org"],"crossmark-restriction":true},"short-container-title":["Appl Environ Microbiol"],"published-print":{"date-parts":[[2026,3,18]]},"abstract":"<jats:title>ABSTRACT<\/jats:title>\n                  <jats:sec>\n                    <jats:title\/>\n                    <jats:p>\n                      <jats:italic toggle=\"yes\">Staphylococcus lugdunensis<\/jats:italic>\n                      , a coagulase-negative staphylococcus, has emerged as an opportunistic pathogen causing severe infections. It exhibits genetic diversity, with multiple sequence types, antimicrobial resistance (AMR) genes, and virulence factors. This study aimed to explore its genomic features and clinical implications. Six clinical isolates from Fujian, Beijing, and Wuhan were sequenced using Illumina and Oxford Nanopore platforms, and antimicrobial susceptibility was tested. Other 139 genomes were retrieved from GenBank. Multi-locus sequence typing, phylogenetic and recombination analyses, resistance\/virulence gene detection, plasmid replicon identification, and staphylococcal cassette chromosome\n                      <jats:italic toggle=\"yes\">mec<\/jats:italic>\n                      (SCC\n                      <jats:italic toggle=\"yes\">mec<\/jats:italic>\n                      ) typing were performed. Among 144 genomes, 19 sequence types (STs) were grouped into five clonal complexes (CCs), with CC3 (notably ST3) and ST27 predominating. Eighteen AMR genes were identified, with\n                      <jats:italic toggle=\"yes\">blaZ<\/jats:italic>\n                      (37.5%),\n                      <jats:italic toggle=\"yes\">qacD<\/jats:italic>\n                      (34.7%), and\n                      <jats:italic toggle=\"yes\">mecA<\/jats:italic>\n                      (14.6%) most frequent. Seven isolates carried \u22655 AMR genes. Virulence genes, including cap8E and esxA, were widely distributed. SCC\n                      <jats:italic toggle=\"yes\">mec<\/jats:italic>\n                      elements were identified in all\n                      <jats:italic toggle=\"yes\">mecA<\/jats:italic>\n                      -positive isolates, with type V predominant in ST3 and type II in ST6. Importantly, 76.2% of SCC\n                      <jats:italic toggle=\"yes\">mec<\/jats:italic>\n                      -positive isolates were infection-associated. Novel plasmids carrying multiple resistance genes were identified in two ST3 isolates. This study reveals extensive genetic diversity, widespread AMRs, and virulence determinants in\n                      <jats:italic toggle=\"yes\">S. lugdunensis<\/jats:italic>\n                      , providing insights for surveillance and therapy.\n                    <\/jats:p>\n                    <jats:sec>\n                      <jats:title>IMPORTANCE<\/jats:title>\n                      <jats:p>\n                        This study highlights a direct public health threat: we found that infection-associated strains of\n                        <jats:italic toggle=\"yes\">S. lugdunensis<\/jats:italic>\n                        frequently carry antimicrobial resistance genes and virulence factors, underscoring their potential to cause severe, hard-to-treat infections. It provides a genetic foundation for surveillance: the identification of predominant high-risk lineages and novel plasmids carrying multiple resistance genes offers crucial molecular targets for future tracking and monitoring of this emerging pathogen. It informs clinical decision-making: understanding the genetic basis of its resistance and virulence is a critical step toward developing more effective strategies for infection control and guiding targeted antibiotic therapy.\n                      <\/jats:p>\n                    <\/jats:sec>\n                  <\/jats:sec>","DOI":"10.1128\/aem.01893-25","type":"journal-article","created":{"date-parts":[[2026,2,23]],"date-time":"2026-02-23T14:00:36Z","timestamp":1771855236000},"update-policy":"https:\/\/doi.org\/10.1128\/asmj-crossmark-policy-page","source":"Crossref","is-referenced-by-count":0,"title":["Global genomic landscape of\n                    <i>Staphylococcus lugdunensis<\/i>\n                    : population structure, antimicrobial resistance, and virulence determinants"],"prefix":"10.1128","volume":"92","author":[{"given":"Donghong","family":"Yang","sequence":"first","affiliation":[{"id":[{"id":"https:\/\/ror.org\/035adwg89","id-type":"ROR","asserted-by":"publisher"}],"name":"Department of Respiratory and Critical Care Medicine, Peking University People\u2019s Hospital","place":["Beijing, China"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-2930-9920","authenticated-orcid":true,"given":"Pengcheng","family":"Du","sequence":"additional","affiliation":[{"id":[{"id":"https:\/\/ror.org\/01b5g4110","id-type":"ROR","asserted-by":"publisher"}],"name":"Medical Research Center, Beijing Institute of Respiratory Medicine and Beijing Chao-Yang Hospital, Capital Medical University","place":["Beijing, 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