{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,30]],"date-time":"2026-10-30T12:24:30Z","timestamp":1793363070369,"version":"4.5.0"},"reference-count":75,"publisher":"Microbiology Society","issue":"6","license":[{"start":{"date-parts":[[2026,6,15]],"date-time":"2026-06-15T00:00:00Z","timestamp":1781481600000},"content-version":"unspecified","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/100000060","name":"National Institute of Allergy and Infectious Diseases","doi-asserted-by":"crossref","award":["R15AI130816-01A1"],"award-info":[{"award-number":["R15AI130816-01A1"]}],"id":[{"id":"10.13039\/100000060","id-type":"DOI","asserted-by":"crossref"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2026,6,15]]},"abstract":"<jats:p>\n                    <jats:italic>Citrobacter koseri<\/jats:italic>\n                    is a significant bacterial cause of community-acquired urinary tract infections in female college students. Given limited previous attention to genomic analysis and molecular epidemiology of this species, whole-genome sequencing was carried out for eight uropathogenic\n                    <jats:italic>C. koseri<\/jats:italic>\n                    clinical isolates. Six complete and two draft assemblies are presented. Genome organization was largely conserved between isolates, and comparative analysis with archived genomes suggests that more than 90% of\n                    <jats:italic>C. koseri<\/jats:italic>\n                    genes are conserved across the species. These isolates contained relatively few mobile genetic elements (plasmids, prophage, transposons and insertion elements) and extensive antiphage defence systems. Other than a single conserved chromosomal \u03b2-lactamase gene, little or no acquired antibiotic resistance was observed. Clues to urovirulence were sought among genes conserved in\n                    <jats:italic>C. koseri<\/jats:italic>\n                    but not found in other\n                    <jats:italic>Citrobacter<\/jats:italic>\n                    genomes, suggesting roles for iron acquisition, motility and adhesion.\n                  <\/jats:p>","DOI":"10.1099\/mgen.0.001751","type":"journal-article","created":{"date-parts":[[2026,6,15]],"date-time":"2026-06-15T16:15:53Z","timestamp":1781540153000},"source":"Crossref","is-referenced-by-count":1,"title":["Genomic analysis of antibiotic resistance and virulence factors in the uropathogen Citrobacter koseri"],"prefix":"10.1099","volume":"12","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-0037-2520","authenticated-orcid":false,"given":"Craig","family":"Stephens","sequence":"first","affiliation":[{"name":"Department of Public Health, Santa Clara University, Santa Clara, CA, USA"},{"name":"Department of Biology, Santa Clara University, Santa Clara, CA, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Braden","family":"Christenson","sequence":"additional","affiliation":[{"name":"Department of Biology, Santa Clara University, Santa Clara, CA, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Emily","family":"Patacsil","sequence":"additional","affiliation":[{"name":"Department of Biology, Santa Clara University, Santa Clara, CA, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ananya","family":"Velpuri","sequence":"additional","affiliation":[{"name":"Department of Biology, Santa Clara University, Santa Clara, CA, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Andrew","family":"Agustin","sequence":"additional","affiliation":[{"name":"Department of Biology, Santa Clara University, Santa Clara, CA, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Alanna","family":"Conrad","sequence":"additional","affiliation":[{"name":"Student Medical Services, Santa Clara University, Santa Clara, CA, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"345","reference":[{"key":"R1","doi-asserted-by":"publisher","DOI":"10.1038\/nrurol.2010.190"},{"key":"R2","doi-asserted-by":"publisher","DOI":"10.1038\/nrmicro3432"},{"key":"R3","doi-asserted-by":"publisher","DOI":"10.4103\/0974-7796.120297"},{"key":"R4","doi-asserted-by":"publisher","DOI":"10.4103\/2348-3334.196037"},{"key":"R5","volume-title":"The Prokaryotes","author":"Borenshtein","year":"2006"},{"key":"R6","doi-asserted-by":"publisher","DOI":"10.1097\/00006454-199910000-00010"},{"key":"R7","doi-asserted-by":"publisher","DOI":"10.1086\/515106"},{"key":"R8","doi-asserted-by":"publisher","DOI":"10.3389\/frabi.2023.1276982"},{"key":"R9","doi-asserted-by":"publisher","DOI":"10.3389\/fmicb.2019.02774"},{"key":"R10","doi-asserted-by":"publisher","DOI":"10.3390\/pathogens13090794"},{"key":"R11","doi-asserted-by":"publisher","DOI":"10.1128\/JCM.36.4.990-994.1998"},{"key":"R12","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.86.18.6973"},{"key":"R13","doi-asserted-by":"publisher","DOI":"10.1111\/j.1574-6968.2011.02225.x"},{"key":"R14","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pcbi.1005595"},{"key":"R15","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkaa434"},{"key":"R16","doi-asserted-by":"publisher","DOI":"10.1099\/mgen.0.000748"},{"key":"R17","doi-asserted-by":"publisher","DOI":"10.1128\/AAC.02412-14"},{"key":"R18","doi-asserted-by":"publisher","DOI":"10.1093\/jac\/dkaa390"},{"key":"R19","doi-asserted-by":"publisher","DOI":"10.1128\/JCM.03617-13"},{"key":"R20","doi-asserted-by":"publisher","DOI":"10.1128\/JCM.01269-20"},{"key":"R21","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkx343"},{"key":"R22","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkad382"},{"key":"R23","doi-asserted-by":"publisher","DOI":"10.1038\/s41467-022-30269-9"},{"key":"R24","doi-asserted-by":"publisher","DOI":"10.1016\/j.gpb.2022.10.002"},{"key":"R25","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btu153"},{"key":"R26","doi-asserted-by":"publisher","DOI":"10.1186\/s13059-020-02090-4"},{"key":"R27","doi-asserted-by":"publisher","DOI":"10.32942\/X2P62N"},{"key":"R28","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkae268"},{"key":"R29","article-title":"Snippy: fast haploid variant calling and core genome alignment","author":"Seemann","year":"2015"},{"key":"R30","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gku1196"},{"key":"R31","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkr1044"},{"key":"R32","doi-asserted-by":"publisher","DOI":"10.1128\/JB.00619-08"},{"key":"R33","doi-asserted-by":"publisher","DOI":"10.1007\/s00248-011-9880-1"},{"key":"R34","doi-asserted-by":"publisher","DOI":"10.1146\/annurev-micro-032521-022006"},{"key":"R35","doi-asserted-by":"publisher","DOI":"10.4161\/mge.1.1.16432"},{"key":"R36","doi-asserted-by":"publisher","DOI":"10.3390\/toxins10040151"},{"key":"R37","doi-asserted-by":"publisher","DOI":"10.1093\/labmed\/lmac072"},{"key":"R38","doi-asserted-by":"publisher","DOI":"10.1128\/IAI.00522-09"},{"key":"R39","doi-asserted-by":"publisher","DOI":"10.1002\/iub.1612"},{"key":"R40","doi-asserted-by":"publisher","DOI":"10.1016\/j.plasmid.2012.03.001"},{"key":"R41","doi-asserted-by":"publisher","DOI":"10.1128\/msystems.00326-22"},{"key":"R42","doi-asserted-by":"publisher","DOI":"10.1038\/nrmicro3569"},{"key":"R43","doi-asserted-by":"publisher","DOI":"10.1038\/nature15386"},{"key":"R44","doi-asserted-by":"publisher","DOI":"10.1099\/mic.0.036046-0"},{"key":"R45","doi-asserted-by":"publisher","DOI":"10.1093\/jac\/dkh235"},{"key":"R46","doi-asserted-by":"publisher","DOI":"10.1111\/j.1574-6968.2005.00028.x"},{"key":"R47","doi-asserted-by":"publisher","DOI":"10.7883\/yoken.JJID.2006.69"},{"key":"R48","doi-asserted-by":"publisher","DOI":"10.1016\/j.jgar.2019.07.011"},{"key":"R49","doi-asserted-by":"publisher","DOI":"10.1016\/j.jgar.2018.09.016"},{"key":"R50","doi-asserted-by":"publisher","DOI":"10.1128\/AAC.00150-21"},{"key":"R51","doi-asserted-by":"publisher","DOI":"10.3389\/fmicb.2022.930777"},{"key":"R52","doi-asserted-by":"publisher","DOI":"10.2147\/IDR.S435771"},{"key":"R53","doi-asserted-by":"publisher","DOI":"10.1128\/spectrum.00095-23"},{"key":"R54","doi-asserted-by":"publisher","DOI":"10.1128\/mBio.00749-17"},{"key":"R55","doi-asserted-by":"publisher","DOI":"10.1016\/S2666-5247(23)00342-7"},{"key":"R56","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gky1080"},{"key":"R57","doi-asserted-by":"publisher","DOI":"10.2217\/fmb-2017-0295"},{"key":"R58","doi-asserted-by":"publisher","DOI":"10.1128\/mbio.01035-22"},{"key":"R59","doi-asserted-by":"publisher","DOI":"10.1016\/j.micinf.2011.04.008"},{"key":"R60","doi-asserted-by":"publisher","DOI":"10.1002\/mbo3.244"},{"key":"R61","doi-asserted-by":"publisher","DOI":"10.1128\/IAI.72.5.2484-2493.2004"},{"key":"R62","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.0607898104"},{"key":"R63","doi-asserted-by":"publisher","DOI":"10.1128\/IAI.73.11.7657-7668.2005"},{"key":"R64","doi-asserted-by":"publisher","DOI":"10.1099\/jmm.0.46596-0"},{"key":"R65","doi-asserted-by":"publisher","DOI":"10.1016\/S0378-1097(03)00445-2"},{"key":"R66","doi-asserted-by":"publisher","DOI":"10.1159\/000077866"},{"key":"R67","doi-asserted-by":"publisher","DOI":"10.1111\/j.1574-6968.2006.00403.x"},{"key":"R68","doi-asserted-by":"publisher","DOI":"10.1093\/emboj\/19.12.2803"},{"key":"R69","doi-asserted-by":"publisher","DOI":"10.1128\/IAI.00348-13"},{"key":"R70","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2180-10-183"},{"key":"R71","doi-asserted-by":"publisher","DOI":"10.1038\/nrmicro.2016.190"},{"key":"R72","doi-asserted-by":"publisher","DOI":"10.1016\/j.molcel.2010.03.001"},{"key":"R73","doi-asserted-by":"publisher","DOI":"10.1128\/IAI.00372-06"},{"key":"R74","doi-asserted-by":"publisher","DOI":"10.3389\/fcimb.2017.00241"},{"key":"R75","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0011147"}],"container-title":["Microbial Genomics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.microbiologyresearch.org\/content\/journal\/mgen\/10.1099\/mgen.0.001751?crawler=true&mimetype=application\/pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,6,15]],"date-time":"2026-06-15T16:15:54Z","timestamp":1781540154000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.microbiologyresearch.org\/content\/journal\/mgen\/10.1099\/mgen.0.001751"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,6,15]]},"references-count":75,"journal-issue":{"issue":"6","published-print":{"date-parts":[[2026,6,15]]}},"URL":"https:\/\/doi.org\/10.1099\/mgen.0.001751","relation":{},"ISSN":["2057-5858"],"issn-type":[{"value":"2057-5858","type":"electronic"}],"subject":[],"published":{"date-parts":[[2026,6,15]]}}}