{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,3]],"date-time":"2026-04-03T00:54:55Z","timestamp":1775177695427,"version":"3.50.1"},"reference-count":35,"publisher":"MDPI AG","issue":"3","license":[{"start":{"date-parts":[[2023,2,23]],"date-time":"2023-02-23T00:00:00Z","timestamp":1677110400000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["CIMB"],"abstract":"<jats:p>Lymphogranuloma venereum (LGV) is a systemic sexually transmitted infection caused by Chlamydia trachomatis serovars L1 to L3. The current LGV cases in Europe are mainly characterized by an anorectal syndrome, spreading within men who have sex with men (MSM). Whole-genome sequencing of LGV strains is crucial to the study of bacterial genomic variants and to improve strategies for contact tracing and prevention. In this study, we described the whole genome of a C. trachomatis strain (LGV\/17) responsible for a case of rectal LGV. LGV\/17 strain was isolated in 2017 in Bologna (North of Italy) from a HIV-positive MSM, presenting a symptomatic proctitis. After the propagation in LLC-MK2 cells, the strain underwent whole-genome sequencing by means of two platforms. Sequence type was determined using the tool MLST 2.0, whereas the genovariant was characterized by an ompA sequence evaluation. A phylogenetic tree was generated by comparing the LGV\/17 sequence with a series of L2 genomes, downloaded from the NCBI website. LGV\/17 belonged to sequence type ST44 and to the genovariant L2f. Nine ORFs encoding for polymorphic membrane proteins A-I and eight encoding for glycoproteins Pgp1-8 were detected in the chromosome and in the plasmid, respectively. LGV\/17 was closely related to other L2f strains, even in the light of a not-negligible variability. The LGV\/17 strain showed a genomic structure similar to reference sequences and was phylogenetically related to isolates from disparate parts of the world, indicative of the long-distance dynamics of transmission.<\/jats:p>","DOI":"10.3390\/cimb45030119","type":"journal-article","created":{"date-parts":[[2023,2,23]],"date-time":"2023-02-23T04:32:33Z","timestamp":1677126753000},"page":"1852-1859","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":8,"title":["Whole Genome Sequencing of a Chlamydia trachomatis Strain Responsible for a Case of Rectal Lymphogranuloma Venereum in Italy"],"prefix":"10.3390","volume":"45","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-7397-6560","authenticated-orcid":false,"given":"Antonella","family":"Marangoni","sequence":"first","affiliation":[{"name":"Section of Microbiology, Department of Medical and Surgical Science (DIMEC), University of Bologna, Via Massarenti 9, 40138 Bologna, Italy"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8942-0818","authenticated-orcid":false,"given":"Stefano","family":"Amadesi","sequence":"additional","affiliation":[{"name":"Microbiology Unit, IRCCS Azienda Ospedaliero-Universitaria di Bologna, Via Massarenti 9, 40138 Bologna, Italy"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Marielle Ezekielle","family":"Djusse","sequence":"additional","affiliation":[{"name":"Section of Microbiology, Department of Medical and Surgical Science (DIMEC), University of Bologna, Via Massarenti 9, 40138 Bologna, Italy"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7253-8799","authenticated-orcid":false,"given":"Claudio","family":"Foschi","sequence":"additional","affiliation":[{"name":"Section of Microbiology, Department of Medical and Surgical Science (DIMEC), University of Bologna, Via Massarenti 9, 40138 Bologna, Italy"},{"name":"Microbiology Unit, IRCCS Azienda Ospedaliero-Universitaria di Bologna, Via Massarenti 9, 40138 Bologna, Italy"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Valeria","family":"Gaspari","sequence":"additional","affiliation":[{"name":"Dermatology Unit, IRCCS S. Orsola-Malpighi Hospital, Via Massarenti 9, 40138 Bologna, Italy"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3093-363X","authenticated-orcid":false,"given":"Tiziana","family":"Lazzarotto","sequence":"additional","affiliation":[{"name":"Section of Microbiology, Department of Medical and Surgical Science (DIMEC), University of Bologna, Via Massarenti 9, 40138 Bologna, Italy"},{"name":"Microbiology Unit, IRCCS Azienda Ospedaliero-Universitaria di Bologna, Via Massarenti 9, 40138 Bologna, Italy"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-3791-8635","authenticated-orcid":false,"given":"Paolo","family":"Gaibani","sequence":"additional","affiliation":[{"name":"Microbiology Unit, IRCCS Azienda Ospedaliero-Universitaria di Bologna, Via Massarenti 9, 40138 Bologna, Italy"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"1968","published-online":{"date-parts":[[2023,2,23]]},"reference":[{"key":"ref_1","doi-asserted-by":"crossref","first-page":"377","DOI":"10.1097\/OLQ.0b013e31815d6df8","article-title":"New Chlamydia trachomatis L2 strains identified in a recent outbreak of lymphogranuloma venereum in Vienna, Austria","volume":"35","author":"Stary","year":"2008","journal-title":"Sex Transm. Dis."},{"key":"ref_2","doi-asserted-by":"crossref","first-page":"441","DOI":"10.1136\/sextrans-2020-054700","article-title":"Lymphogranuloma venereum genovariants in men having sex with men in Italy","volume":"97","author":"Marangoni","year":"2021","journal-title":"Sex Transm. Infect."},{"key":"ref_3","doi-asserted-by":"crossref","first-page":"30076","DOI":"10.2807\/1560-7917.ES.2015.20.48.30076","article-title":"Rapid increase in lymphogranuloma venereum in men who have sex with men, United Kingdom, 2003 to September 2015","volume":"20","author":"Childs","year":"2015","journal-title":"Euro Surveill."},{"key":"ref_4","doi-asserted-by":"crossref","first-page":"697","DOI":"10.1586\/14787210.2014.901169","article-title":"Lymphogranuloma venereum among men who have sex with men. An epidemiological and clinical review","volume":"12","year":"2014","journal-title":"Expert. Rev. Anti. Infect. Ther."},{"key":"ref_5","doi-asserted-by":"crossref","first-page":"19428","DOI":"10.2807\/ese.14.48.19428-en","article-title":"European Surveillance of Sexually Transmitted Infections (ESSTI) network. Lymphogranuloma venereum in Europe, 2003\u20132008","volume":"14","author":"Savage","year":"2009","journal-title":"Euro Surveill."},{"key":"ref_6","doi-asserted-by":"crossref","unstructured":"Foschi, C., Marangoni, A., D\u2019Antuono, A., Nardini, P., Compri, M., Bellavista, S., Filippini, A., Bacchi Reggiani, M.L., and Cevenini, R. (2014). Prevalence and predictors of Lymphogranuloma venereum in a high risk population attending a STD outpatients clinic in Italy. BMC Res. Notes, 7.","DOI":"10.1186\/1756-0500-7-225"},{"key":"ref_7","doi-asserted-by":"crossref","first-page":"582","DOI":"10.1136\/sextrans-2021-055368","article-title":"Universal lymphogranuloma venereum (LGV) testing of rectal chlamydia in men who have sex with men and detection of asymptomatic LGV","volume":"98","author":"Hughes","year":"2022","journal-title":"Sex. Transm. Infect."},{"key":"ref_8","doi-asserted-by":"crossref","first-page":"1777","DOI":"10.3201\/eid1611.100379","article-title":"Typing of lymphogranuloma venereum Chlamydia trachomatis strains","volume":"16","author":"Christerson","year":"2010","journal-title":"Emerg. Infect. Dis."},{"key":"ref_9","doi-asserted-by":"crossref","first-page":"1684","DOI":"10.1099\/jmm.0.000597","article-title":"Lymphogranuloma venereum rates increased and Chlamydia trachomatis genotypes changed among men who have sex with men in Sweden 2004-2016","volume":"66","author":"Isaksson","year":"2017","journal-title":"J. Med. Microbiol."},{"key":"ref_10","first-page":"e000313","article-title":"Chlamydia trachomatis: When the virulence-associated genome backbone imports a prevalence-associated major antigen signature","volume":"5","author":"Borges","year":"2019","journal-title":"Microb. Genom."},{"key":"ref_11","doi-asserted-by":"crossref","first-page":"219","DOI":"10.1111\/1469-0691.12256","article-title":"Clinical and epidemiological characterization of a lymphogranuloma venereum outbreak in Madrid, Spain: Co-circulation of two variants","volume":"20","author":"Puerta","year":"2014","journal-title":"Clin. Microbiol. Infect."},{"key":"ref_12","doi-asserted-by":"crossref","first-page":"1311","DOI":"10.3201\/eid1108.050535","article-title":"Real-time polymerase chain reaction to diagnose lymphogranuloma venereum","volume":"11","author":"Spaargaren","year":"2005","journal-title":"Emerg. Infect. Dis."},{"key":"ref_13","doi-asserted-by":"crossref","first-page":"760","DOI":"10.1099\/jmm.0.008607-0","article-title":"Genotyping of Chlamydia trachomatis from the endocervical specimens of high-risk women in Hungary","volume":"58","author":"Petrovay","year":"2009","journal-title":"J. Med. Microbiol."},{"key":"ref_14","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":"ref_15","doi-asserted-by":"crossref","first-page":"104035","DOI":"10.1016\/j.micpath.2020.104035","article-title":"Insights into penicillin-induced Chlamydia trachomatis persistence","volume":"142","author":"Foschi","year":"2020","journal-title":"Microb. Pathog."},{"key":"ref_16","doi-asserted-by":"crossref","unstructured":"Marangoni, A., Foschi, C., Nardini, P., Compri, M., and Cevenini, R. (2015). Evaluation of the Versant CT\/GC DNA 1.0 assay (kPCR) for the detection of extra-genital Chlamydia trachomatis and Neisseria gonorrhoeae infections. PLoS ONE, 10.","DOI":"10.1371\/journal.pone.0120979"},{"key":"ref_17","doi-asserted-by":"crossref","unstructured":"Gallo Vaulet, L., Entrocassi, C., Corominas, A.I., and Rodriguez Fermepin, M. (2010). Distribution study of Chlamydia trachomatis genotypes in symptomatic patients in Buenos Aires, Argentina: Association between genotype E and neonatal conjunctivitis. BMC Res. Notes, 3.","DOI":"10.1186\/1756-0500-3-34"},{"key":"ref_18","doi-asserted-by":"crossref","first-page":"471","DOI":"10.1016\/j.atherosclerosis.2015.05.023","article-title":"Chlamydia pneumoniae acute liver infection affects hepatic cholesterol and triglyceride metabolism in mice","volume":"41","author":"Marangoni","year":"2015","journal-title":"Atherosclerosis"},{"key":"ref_19","doi-asserted-by":"crossref","unstructured":"Marziali, G., Marangoni, A., Foschi, C., Re, M.C., and Calonghi, N. (2020). Effect of Sugars on Chlamydia trachomatis Infectivity. Pathogens, 9.","DOI":"10.3390\/pathogens9040298"},{"key":"ref_20","doi-asserted-by":"crossref","first-page":"262","DOI":"10.1016\/j.jgar.2022.06.021","article-title":"Genome characterization of a Klebsiella pneumoniae co-producing OXA-181 and KPC-121 resistant to ceftazidime\/avibactam, meropenem\/vaborbactam, imipenem\/relebactam and cefiderocol isolated from a critically ill patient","volume":"30","author":"Gaibani","year":"2022","journal-title":"J. Glob. Antimicrob. Resist."},{"key":"ref_21","doi-asserted-by":"crossref","first-page":"11","DOI":"10.1080\/21505594.2015.1111509","article-title":"Chlamydial polymorphic membrane proteins: Regulation, function and potential vaccine candidates","volume":"7","author":"Vasilevsky","year":"2016","journal-title":"Virulence"},{"key":"ref_22","doi-asserted-by":"crossref","first-page":"531","DOI":"10.1111\/j.1365-2958.1988.tb00060.x","article-title":"The structure of a plasmid of Chlamydia trachomatis believed to be required for growth within mammalian cells","volume":"2","author":"Comanducci","year":"1988","journal-title":"Mol. Microbiol."},{"key":"ref_23","doi-asserted-by":"crossref","first-page":"1854","DOI":"10.3389\/fmicb.2018.01854","article-title":"Unveiling the Multilocus Sequence Typing (MLST) Schemes and Core Genome Phylogenies for Genotyping Chlamydia trachomatis","volume":"9","author":"Camargo","year":"2018","journal-title":"Front. Microbiol."},{"key":"ref_24","doi-asserted-by":"crossref","unstructured":"Feodorova, V.A., Saltykov, Y.V., Kolosova, A.A., Rubanik, L.V., Poleshchuk, N.N., and Motin, V.L. (2022). Emergence of Novel Chlamydia trachomatis Sequence Types among Chlamydia Patients in the Republic of Belarus. Microorganisms, 10.","DOI":"10.3390\/microorganisms10020478"},{"key":"ref_25","doi-asserted-by":"crossref","unstructured":"Pannekoek, Y., Morelli, G., Kusecek, B., Morr\u00e9, S.A., Ossewaarde, J.M., Langerak, A.A., and van der Ende, A. (2008). Multi locus sequence typing of Chlamydiales: Clonal groupings within the obligate intracellular bacteria Chlamydia trachomatis. BMC Microbiol., 8.","DOI":"10.1186\/1471-2180-8-42"},{"key":"ref_26","doi-asserted-by":"crossref","first-page":"1385","DOI":"10.3201\/eid1509.090272","article-title":"Predicting phenotype and emerging strains among Chlamydia trachomatis infections","volume":"15","author":"Dean","year":"2009","journal-title":"Emerg Infect Dis."},{"key":"ref_27","doi-asserted-by":"crossref","first-page":"2844","DOI":"10.1128\/JCM.00128-11","article-title":"Evaluation of high-resolution typing methods for Chlamydia trachomatis in samples from heterosexual couples","volume":"49","author":"Bom","year":"2011","journal-title":"J. Clin. Microbiol."},{"key":"ref_28","doi-asserted-by":"crossref","first-page":"3218","DOI":"10.1128\/IAI.01566-08","article-title":"Chlamydia trachomatis-infected patients display variable antibody profiles against the nine-member polymorphic membrane protein family","volume":"77","author":"Tan","year":"2009","journal-title":"Infect. Immun."},{"key":"ref_29","doi-asserted-by":"crossref","first-page":"410","DOI":"10.1016\/j.micinf.2004.11.014","article-title":"Immunoreactivity and differential developmental expression of known and putative Chlamydia trachomatis membrane proteins for biologically variant serovars representing distinct disease groups","volume":"7","author":"Gomes","year":"2005","journal-title":"Microbes Infect."},{"key":"ref_30","doi-asserted-by":"crossref","first-page":"174","DOI":"10.1111\/j.1462-5822.2009.01389.x","article-title":"Variable expression of surface-exposed polymorphic membrane proteins in in vitro-grown Chlamydia trachomatis","volume":"12","author":"Tan","year":"2010","journal-title":"Cell Microbiol."},{"key":"ref_31","doi-asserted-by":"crossref","unstructured":"Kiselev, A.O., Stamm, W.E., Yates, J.R., and Lampe, M.F. (2007). Expression, processing, and localization of PmpD of Chlamydia trachomatis Serovar L2 during the chlamydial developmental cycle. PLoS ONE, 2.","DOI":"10.1371\/journal.pone.0000568"},{"key":"ref_32","doi-asserted-by":"crossref","first-page":"3819","DOI":"10.1128\/JB.00511-13","article-title":"Characterization of Chlamydia trachomatis plasmid-encoded open reading frames","volume":"195","author":"Gong","year":"2013","journal-title":"J. Bacteriol."},{"key":"ref_33","doi-asserted-by":"crossref","first-page":"2273","DOI":"10.1128\/IAI.00102-08","article-title":"The Chlamydia trachomatis plasmid is a transcriptional regulator of chromosomal genes and a virulence factor","volume":"76","author":"Carlson","year":"2008","journal-title":"Infect. Immun."},{"key":"ref_34","doi-asserted-by":"crossref","first-page":"636","DOI":"10.1128\/IAI.01305-12","article-title":"Chlamydia trachomatis plasmid-encoded Pgp4 is a transcriptional regulator of virulence-associated genes","volume":"81","author":"Song","year":"2013","journal-title":"Infect. Immun."},{"key":"ref_35","doi-asserted-by":"crossref","first-page":"100","DOI":"10.1111\/2049-632X.12024","article-title":"Transformation of a plasmid-free, genital tract isolate of Chlamydia trachomatis with a plasmid vector carrying a deletion in CDS6 revealed that this gene regulates inclusion phenotype","volume":"67","author":"Wang","year":"2013","journal-title":"Pathog. Dis."}],"container-title":["Current Issues in Molecular Biology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.mdpi.com\/1467-3045\/45\/3\/119\/pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,10,10]],"date-time":"2025-10-10T18:40:18Z","timestamp":1760121618000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.mdpi.com\/1467-3045\/45\/3\/119"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2023,2,23]]},"references-count":35,"journal-issue":{"issue":"3","published-online":{"date-parts":[[2023,3]]}},"alternative-id":["cimb45030119"],"URL":"https:\/\/doi.org\/10.3390\/cimb45030119","relation":{},"ISSN":["1467-3045"],"issn-type":[{"value":"1467-3045","type":"electronic"}],"subject":[],"published":{"date-parts":[[2023,2,23]]}}}