{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,4]],"date-time":"2026-09-04T01:14:32Z","timestamp":1788484472523,"version":"build-2803163510"},"reference-count":68,"publisher":"Microbiology Society","issue":"2","license":[{"start":{"date-parts":[[2025,2,13]],"date-time":"2025-02-13T00:00:00Z","timestamp":1739404800000},"content-version":"unspecified","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Bangerter-Rhyner-Stiftung","award":["STIDirect"],"award-info":[{"award-number":["STIDirect"]}]},{"DOI":"10.13039\/501100005363","name":"Universidad de Buenos Aires","doi-asserted-by":"crossref","award":["UBACYT 20020150100223BA"],"award-info":[{"award-number":["UBACYT 20020150100223BA"]}],"id":[{"id":"10.13039\/501100005363","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/501100005363","name":"Universidad de Buenos Aires","doi-asserted-by":"crossref","award":["20020190100357BA"],"award-info":[{"award-number":["20020190100357BA"]}],"id":[{"id":"10.13039\/501100005363","id-type":"DOI","asserted-by":"crossref"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2025,2,13]]},"abstract":"<jats:title>Graphical Abstract<\/jats:title>\n               <jats:p>Using target enrichment, RNA baits designed around a panel of bacterial sexually transmitted infections were used to fish target DNA from the clinical sample, leading to complete bacterial genome sequences.<\/jats:p>\n               <jats:p>\n                  <jats:inline-graphic xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" xlink:href=\"mgen001353-f1.png\"\/>\n               <\/jats:p>","DOI":"10.1099\/mgen.0.001353","type":"journal-article","created":{"date-parts":[[2025,2,13]],"date-time":"2025-02-13T08:17:58Z","timestamp":1739434678000},"source":"Crossref","is-referenced-by-count":6,"title":["Evaluating methods for genome sequencing of Chlamydia trachomatis and other sexually transmitted bacteria directly from clinical swabs"],"prefix":"10.1099","volume":"11","author":[{"given":"Karina Andrea","family":"B\u00fcttner","sequence":"first","affiliation":[{"name":"Member of the ESCMID Study Group on Mycoplasma and Chlamydia (ESGMAC), Basel, Switzerland"},{"name":"Universidad de Buenos Aires, Instituto de Fisiopatolog\u00eda y Bioqu\u00edmica Cl\u00ednica (INFIBIOC), Buenos Aires, Argentina"},{"name":"Universidad de Buenos Aires, Facultad de Farmacia y Bioqu\u00edmica, Departamento de Bioqu\u00edmica Cl\u00ednica, C\u00e1tedra de Microbiolog\u00eda Cl\u00ednica, Buenos Aires, Argentina"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Vera","family":"Bregy","sequence":"additional","affiliation":[{"name":"Institute of Medical Microbiology, University of Z\u00fcrich, Zurich, Switzerland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Fanny","family":"Wegner","sequence":"additional","affiliation":[{"name":"Institute of Medical Microbiology, University of Z\u00fcrich, Zurich, Switzerland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Srinithi","family":"Purushothaman","sequence":"additional","affiliation":[{"name":"Institute of Medical Microbiology, University of Z\u00fcrich, Zurich, Switzerland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Frank","family":"Imkamp","sequence":"additional","affiliation":[{"name":"Institute of Medical Microbiology, University of Z\u00fcrich, Zurich, Switzerland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Tim","family":"Roloff Handschin","sequence":"additional","affiliation":[{"name":"Institute of Medical Microbiology, University of Z\u00fcrich, Zurich, Switzerland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mirja H.","family":"Puolakkainen","sequence":"additional","affiliation":[{"name":"Department of Virology and Immunology, University of Helsinki, Helsinki, Finland"},{"name":"Department of Virology and Helsinki University Hospital, Helsinki, Finland"},{"name":"Member of the ESCMID Study Group on Mycoplasma and Chlamydia (ESGMAC), Basel, Switzerland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Eija","family":"Hiltunen-Back","sequence":"additional","affiliation":[{"name":"Department of Dermatology and Allergology, University of Helsinki and HUS Helsinki University Hospital, Helsinki, Finland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Domnique","family":"Braun","sequence":"additional","affiliation":[{"name":"Department of Infectious Diseases, University Hospital Z\u00fcrich, University of Zurich, Z\u00fcrich, Switzerland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ibrahim","family":"Kisakesen","sequence":"additional","affiliation":[{"name":"Life Sciences and Diagnostic Group, Agilent Technologies France, Les Ulis, France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Andreas","family":"Schreiber","sequence":"additional","affiliation":[{"name":"Life Sciences and Diagnostic Group, Agilent Technologies France, Les Ulis, France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Andrea Carolina","family":"Entrocassi","sequence":"additional","affiliation":[{"name":"Universidad de Buenos Aires, Instituto de Fisiopatolog\u00eda y Bioqu\u00edmica Cl\u00ednica (INFIBIOC), Buenos Aires, Argentina"},{"name":"Universidad de Buenos Aires, Facultad de Farmacia y Bioqu\u00edmica, Departamento de Bioqu\u00edmica Cl\u00ednica, C\u00e1tedra de Microbiolog\u00eda Cl\u00ednica, Buenos Aires, Argentina"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mar\u00eda Luc\u00eda","family":"Gallo Vaulet","sequence":"additional","affiliation":[{"name":"Universidad de Buenos Aires, Instituto de Fisiopatolog\u00eda y Bioqu\u00edmica Cl\u00ednica (INFIBIOC), Buenos Aires, Argentina"},{"name":"Universidad de Buenos Aires, Facultad de Farmacia y Bioqu\u00edmica, Departamento de Bioqu\u00edmica Cl\u00ednica, C\u00e1tedra de Microbiolog\u00eda Cl\u00ednica, Buenos Aires, Argentina"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Deysi","family":"L\u00f3pez Aquino","sequence":"additional","affiliation":[{"name":"Divisi\u00f3n Cirug\u00eda, Hospital Fern\u00e1ndez, Buenos Aires, Argentina"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Laura","family":"Svidler L\u00f3pez","sequence":"additional","affiliation":[{"name":"Divisi\u00f3n Cirug\u00eda, Hospital Fern\u00e1ndez, Buenos Aires, Argentina"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Luciana","family":"La Rosa","sequence":"additional","affiliation":[{"name":"Centro Privado de Cirug\u00eda y Coloproctolog\u00eda, Buenos Aires, Argentina"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Adrian","family":"Egli","sequence":"additional","affiliation":[{"name":"Institute of Medical Microbiology, University of Z\u00fcrich, Zurich, Switzerland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Marcelo","family":"Rodr\u00edguez Fermepin","sequence":"additional","affiliation":[{"name":"Member of the ESCMID Study Group on Mycoplasma and Chlamydia (ESGMAC), Basel, Switzerland"},{"name":"Universidad de Buenos Aires, Instituto de Fisiopatolog\u00eda y Bioqu\u00edmica Cl\u00ednica (INFIBIOC), Buenos Aires, Argentina"},{"name":"Universidad de Buenos Aires, Facultad de Farmacia y Bioqu\u00edmica, Departamento de Bioqu\u00edmica Cl\u00ednica, C\u00e1tedra de Microbiolog\u00eda Cl\u00ednica, Buenos Aires, Argentina"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-6082-5114","authenticated-orcid":false,"given":"Helena MB","family":"Seth-Smith","sequence":"additional","affiliation":[{"name":"Member of the ESCMID Study Group on Mycoplasma and Chlamydia (ESGMAC), Basel, Switzerland"},{"name":"Institute of Medical Microbiology, University of Z\u00fcrich, Zurich, Switzerland"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"name":"On behalf of the ESCMID Study Group for Mycoplasma and Chlamydia infections (ESGMAC)*","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"345","reference":[{"key":"R1","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btad728"},{"key":"R2","article-title":"Implementing the global health sector strategies on HIV, viral hepatitis and sexually transmitted infections, 2022\u20132030: report on progress and gaps, 2nd edn","year":"2024"},{"key":"R3","doi-asserted-by":"publisher","DOI":"10.1186\/s12879-022-07544-7"},{"key":"R4","doi-asserted-by":"publisher","DOI":"10.1016\/S1473-3099(21)00448-5"},{"key":"R5","doi-asserted-by":"publisher","DOI":"10.1016\/S1473-3099(17)30310-9"},{"key":"R6","doi-asserted-by":"publisher","DOI":"10.1056\/NEJMra1907194"},{"key":"R7","article-title":"Chlamydia [Internet]","year":"2023"},{"key":"R8","article-title":"Gonorrhoea (neisseria gonorrhoeae infection)[Internet]","year":"2024"},{"key":"R9","doi-asserted-by":"crossref","first-page":"385","DOI":"10.1038\/nrmicro.2016.30","article-title":"Chlamydia cell biology and pathogenesis","volume":"14","author":"Elwell","year":"2016","journal-title":"Nat Rev Microbiol"},{"key":"R10","doi-asserted-by":"publisher","DOI":"10.1097\/QCO.0b013e32835c2159"},{"key":"R11","doi-asserted-by":"publisher","DOI":"10.1111\/1462-2920.13694"},{"key":"R12","doi-asserted-by":"publisher","DOI":"10.1071\/MA24033"},{"key":"R13","doi-asserted-by":"publisher","DOI":"10.3389\/fmicb.2023.1277468"},{"key":"R14","doi-asserted-by":"publisher","DOI":"10.1099\/mgen.0.000836"},{"key":"R15","doi-asserted-by":"publisher","DOI":"10.1186\/s12864-015-2053-8"},{"key":"R16","doi-asserted-by":"publisher","DOI":"10.1128\/genomeA.00950-16"},{"key":"R17","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2164-15-973"},{"key":"R18","doi-asserted-by":"publisher","DOI":"10.1016\/j.ijmm.2017.11.004"},{"key":"R19","doi-asserted-by":"publisher","DOI":"10.1099\/mgen.0.000888"},{"key":"R20","doi-asserted-by":"publisher","DOI":"10.1128\/JCM.00486-15"},{"key":"R21","doi-asserted-by":"publisher","DOI":"10.1007\/s00248-016-0902-x"},{"key":"R22","doi-asserted-by":"publisher","DOI":"10.1186\/s12879-014-0591-3"},{"key":"R23","doi-asserted-by":"publisher","DOI":"10.1101\/gr.212647.116"},{"key":"R24","doi-asserted-by":"publisher","DOI":"10.1099\/mgen.0.000599"},{"key":"R25","doi-asserted-by":"publisher","DOI":"10.1177\/09564624211048662"},{"key":"R26","doi-asserted-by":"publisher","DOI":"10.1186\/s13071-019-3770-7"},{"key":"R27","doi-asserted-by":"publisher","DOI":"10.1128\/mSphere.01302-20"},{"key":"R28","doi-asserted-by":"publisher","DOI":"10.1099\/mgen.0.000313"},{"key":"R29","doi-asserted-by":"publisher","DOI":"10.1099\/mgen.0.001208"},{"key":"R30","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-019-11216-7"},{"key":"R31","doi-asserted-by":"publisher","DOI":"10.1038\/s41564-021-01000-z"},{"key":"R32","doi-asserted-by":"publisher","DOI":"10.1016\/S2666-5247(23)00154-4"},{"key":"R33","doi-asserted-by":"publisher","DOI":"10.1016\/S2666-5247(22)00035-0"},{"key":"R34","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pntd.0010063"},{"key":"R35","doi-asserted-by":"publisher","DOI":"10.2144\/btn-2020-0100"},{"key":"R36","doi-asserted-by":"publisher","DOI":"10.1128\/mbio.01889-23"},{"key":"R37","doi-asserted-by":"publisher","DOI":"10.3390\/pathogens13040275"},{"key":"R38","doi-asserted-by":"publisher","DOI":"10.3389\/fcimb.2023.1093178"},{"key":"R39","doi-asserted-by":"publisher","DOI":"10.1038\/s41598-018-31420-7"},{"key":"R40","doi-asserted-by":"publisher","DOI":"10.1186\/s40168-017-0387-y"},{"key":"R41","doi-asserted-by":"publisher","DOI":"10.1099\/mgen.0.000714"},{"key":"R42","doi-asserted-by":"publisher","DOI":"10.1038\/s41598-021-91956-z"},{"key":"R43","first-page":"1","article-title":"Centers for disease control and prevention. sexually transmitted diseases treatment guidelines, 2015","volume":"64","author":"Workowski","year":"2015","journal-title":"MMWR Recomm Rep"},{"key":"R44","doi-asserted-by":"publisher","DOI":"10.1111\/jdv.15729"},{"key":"R45","doi-asserted-by":"publisher","DOI":"10.3390\/microorganisms12020302"},{"key":"R46","doi-asserted-by":"publisher","DOI":"10.1093\/ije\/dyab141"},{"key":"R47","first-page":"21","article-title":"Importance of the choice and monitoring of culture systems and developments in the diagnosis of infection by Chlamydia","volume":"31 Suppl 1","author":"Rodr\u00edguez Fermepin","year":"1999","journal-title":"Rev Argent Microbiol"},{"key":"R48","doi-asserted-by":"publisher","DOI":"10.1128\/jcm.31.5.1060-1065.1993"},{"key":"R49","doi-asserted-by":"publisher","DOI":"10.3390\/microorganisms12030587"},{"key":"R50","doi-asserted-by":"publisher","DOI":"10.1111\/j.1574-6968.1984.tb01301.x"},{"key":"R51","doi-asserted-by":"publisher","DOI":"10.3390\/microorganisms7060153"},{"key":"R52","doi-asserted-by":"publisher","DOI":"10.1093\/ofid\/ofac217"},{"key":"R53","doi-asserted-by":"publisher","DOI":"10.1016\/j.mimet.2023.106719"},{"key":"R54","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btu170"},{"key":"R55","doi-asserted-by":"publisher","DOI":"10.1093\/gigascience\/giab008"},{"key":"R56","doi-asserted-by":"publisher","DOI":"10.1186\/s13059-019-1891-0"},{"key":"R57","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/bty149"},{"key":"R58","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/bty191"},{"key":"R59","doi-asserted-by":"crossref","DOI":"10.1007\/978-3-319-24277-4","volume-title":"ggplot2: Elegant Graphics for Data Analysis","author":"Wickham","year":"2016"},{"key":"R60"},{"key":"R61","year":"2019"},{"key":"R62","doi-asserted-by":"publisher","DOI":"10.1038\/nprot.2013.147"},{"key":"R63","doi-asserted-by":"publisher","DOI":"10.3389\/fcimb.2023.1064317"},{"key":"R64","doi-asserted-by":"publisher","DOI":"10.1038\/s41598-023-37134-9"},{"key":"R65","article-title":"Chlamydia trachomatis genomics: further ompa-genotype l2b global diversity, and description of ompa-genotype L4 from argentina","author":"B\u00fcttner","journal-title":"Microb Genom"},{"key":"R66","doi-asserted-by":"publisher","DOI":"10.1186\/s13073-024-01380-x"},{"key":"R67","doi-asserted-by":"publisher","DOI":"10.1128\/msphere.00030-24"},{"key":"R68","doi-asserted-by":"publisher","DOI":"10.1186\/s12864-019-5782-2"}],"container-title":["Microbial Genomics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.microbiologyresearch.org\/content\/journal\/mgen\/10.1099\/mgen.0.001353?crawler=true&mimetype=application\/pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,2,13]],"date-time":"2025-02-13T08:18:03Z","timestamp":1739434683000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.microbiologyresearch.org\/content\/journal\/mgen\/10.1099\/mgen.0.001353"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2025,2,13]]},"references-count":68,"journal-issue":{"issue":"2","published-print":{"date-parts":[[2025,2,13]]}},"URL":"https:\/\/doi.org\/10.1099\/mgen.0.001353","relation":{},"ISSN":["2057-5858"],"issn-type":[{"value":"2057-5858","type":"electronic"}],"subject":[],"published":{"date-parts":[[2025,2,13]]}}}