{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,30]],"date-time":"2026-07-30T13:34:27Z","timestamp":1785418467671,"version":"3.56.0"},"reference-count":49,"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"}],"content-domain":{"domain":["journals.asm.org"],"crossmark-restriction":true},"short-container-title":["mBio"],"published-print":{"date-parts":[[2026,5,13]]},"abstract":"<jats:title>ABSTRACT<\/jats:title>\n                  <jats:sec>\n                    <jats:title\/>\n                    <jats:p>\n                      Nationwide multicenter surveillance demonstrates a substantial burden of antimicrobial resistance among ocular bacterial pathogens. In the 2009\u20132018 ARMOR collection, methicillin-resistant\n                      <jats:italic toggle=\"yes\">Staphylococcus aureus<\/jats:italic>\n                      (MRSA) accounted for 34.9% of\n                      <jats:italic toggle=\"yes\">S. aureus<\/jats:italic>\n                      ocular isolates, and methicillin resistance was strongly associated with fluoroquinolone resistance. Ocular infections can destroy tissue within hours; timely microbiologic diagnosis and treatment adjustment are essential; however, culture is constrained by small specimen volumes, low inoculum, and prior antimicrobial exposure. To tackle multidrug-resistant (MDR) infections, we propose that phenotypic testing could be complemented with targeted whole-genome sequencing in cases of severe or persistent eye infections, to provide lineage characterization, resistance and virulence determinants, and critical features of pathogenic MDR bacteria that are clinically relevant to predict patient outcomes. A genome-informed workflow, sequencing from pure culture, and integration with phenotypic data could refine empiric therapy, enable earlier de-escalation, and strengthen surveillance of high-risk lineages to reduce vision-threatening treatment failures and save patients\u2019 vision.\n                    <\/jats:p>\n                  <\/jats:sec>","DOI":"10.1128\/mbio.00659-26","type":"journal-article","created":{"date-parts":[[2026,4,13]],"date-time":"2026-04-13T13:00:16Z","timestamp":1776085216000},"update-policy":"https:\/\/doi.org\/10.1128\/asmj-crossmark-policy-page","source":"Crossref","is-referenced-by-count":1,"title":["When culture-based whole-genome sequencing can change management in severe ocular bacterial infections"],"prefix":"10.1128","volume":"17","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-5329-2145","authenticated-orcid":false,"given":"In\u00e8s","family":"Fenniri","sequence":"first","affiliation":[{"id":[{"id":"https:\/\/ror.org\/01502ca60","id-type":"ROR","asserted-by":"publisher"}],"name":"Department of Ophthalmology, Hospices Civils de Lyon","place":["Lyon, France"]},{"name":"Department of Ophthalmology, Boston Children\u2019s Hospital, Harvard Medical School","place":["Boston, USA"]},{"name":"Department of Ophthalmology, Massachusetts Eye and Ear, Harvard Medical School","place":["Boston, USA"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0004-6685-7493","authenticated-orcid":true,"given":"Camille","family":"Andr\u00e9","sequence":"additional","affiliation":[{"name":"Department of Ophthalmology, Massachusetts Eye and Ear, Harvard Medical School","place":["Boston, USA"]},{"name":"Infectious Disease Institute, Massachusetts Eye and Ear, Harvard Medical School","place":["Boston, USA"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"235","reference":[{"key":"e_1_3_1_2_2","doi-asserted-by":"publisher","DOI":"10.1111\/ceo.14377"},{"key":"e_1_3_1_3_2","doi-asserted-by":"publisher","DOI":"10.1007\/s40123-021-00449-9"},{"key":"e_1_3_1_4_2","doi-asserted-by":"publisher","DOI":"10.1038\/s41433-020-01339-3"},{"key":"e_1_3_1_5_2","doi-asserted-by":"publisher","DOI":"10.1111\/ceo.14113"},{"key":"e_1_3_1_6_2","doi-asserted-by":"publisher","DOI":"10.1590\/S0042-96862001000300009"},{"key":"e_1_3_1_7_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.jtos.2021.08.013"},{"key":"e_1_3_1_8_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.ophtha.2023.12.035"},{"key":"e_1_3_1_9_2","doi-asserted-by":"publisher","DOI":"10.1128\/CMR.00113-16"},{"key":"e_1_3_1_10_2","doi-asserted-by":"publisher","DOI":"10.1586\/eop.10.52"},{"key":"e_1_3_1_11_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.ajo.2023.06.016"},{"key":"e_1_3_1_12_2","doi-asserted-by":"publisher","DOI":"10.1167\/iovs.66.6.58"},{"key":"e_1_3_1_13_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.ajo.2011.03.010"},{"key":"e_1_3_1_14_2","doi-asserted-by":"publisher","DOI":"10.1001\/jamaophthalmol.2020.0155"},{"key":"e_1_3_1_15_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.jcrs.2008.01.016"},{"key":"e_1_3_1_16_2","doi-asserted-by":"publisher","DOI":"10.1038\/srep28100"},{"key":"e_1_3_1_17_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0113843"},{"key":"e_1_3_1_18_2","unstructured":"World Health Organization. 2015. 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Polymerase chain reaction and its application in the diagnosis of infectious keratitis. 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