{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,11,8]],"date-time":"2025-11-08T12:56:35Z","timestamp":1762606595285,"version":"3.37.3"},"reference-count":44,"publisher":"Public Library of Science (PLoS)","issue":"5","license":[{"start":{"date-parts":[[2015,5,22]],"date-time":"2015-05-22T00:00:00Z","timestamp":1432252800000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":["www.plosone.org"],"crossmark-restriction":false},"short-container-title":["PLoS ONE"],"DOI":"10.1371\/journal.pone.0126433","type":"journal-article","created":{"date-parts":[[2015,5,22]],"date-time":"2015-05-22T17:59:32Z","timestamp":1432317572000},"page":"e0126433","update-policy":"https:\/\/doi.org\/10.1371\/journal.pone.corrections_policy","source":"Crossref","is-referenced-by-count":8,"title":["Diversification and Distribution of Ruminant Chlamydia abortus Clones Assessed by MLST and MLVA"],"prefix":"10.1371","volume":"10","author":[{"given":"Victoria I.","family":"Siarkou","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Fabien","family":"Vorimore","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Nadia","family":"Vicari","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Simone","family":"Magnino","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Annie","family":"Rodolakis","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Yvonne","family":"Pannekoek","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Konrad","family":"Sachse","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"David","family":"Longbottom","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Karine","family":"Laroucau","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"340","published-online":{"date-parts":[[2015,5,22]]},"reference":[{"key":"ref1","first-page":"105","article-title":"Diseases of Sheep","author":"ID Aitken","year":"2007"},{"key":"ref2","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1016\/j.rvsc.2004.08.004","article-title":"Immunopathology of <italic>Chlamydophila abortus<\/italic> infection in sheep and mice","volume":"78","author":"K Kerr","year":"2005","journal-title":"Res Vet Sci"},{"key":"ref3","doi-asserted-by":"crossref","first-page":"217","DOI":"10.1053\/jcpa.2002.0629","article-title":"Animal chlamydioses and zoonotic implications","volume":"128","author":"D Longbottom","year":"2003","journal-title":"J Comp Pathol"},{"key":"ref4","first-page":"846","article-title":"Bergey&apos;s Manual of Systematic Bacteriology","volume":"4","author":"CC Kuo","year":"2011"},{"key":"ref5","doi-asserted-by":"crossref","first-page":"79","DOI":"10.1016\/j.syapm.2013.12.004","article-title":"Evidence for the existence of two new members of the family <italic>Chlamydiaceae<\/italic> and proposal of <italic>Chlamydia avium<\/italic> sp. nov. and <italic>Chlamydia gallinacea<\/italic> sp. nov","volume":"37","author":"K Sachse","year":"2014","journal-title":"Syst Appl Microbiol"},{"issue":"9","key":"ref6","doi-asserted-by":"crossref","first-page":"e74823","DOI":"10.1371\/journal.pone.0074823","article-title":"Isolation of a new <italic>Chlamydia<\/italic> species from the feral Sacred Ibis (<italic>Threskiornis aethiopicus<\/italic>): <italic>Chlamydia ibidis<\/italic>","volume":"8","author":"F Vorimore","year":"2013","journal-title":"PLoS One"},{"key":"ref7","doi-asserted-by":"crossref","first-page":"2525","DOI":"10.1099\/00221287-137-11-2525","article-title":"Restriction pattern of the major outer-membrane protein gene provides evidence for a homogeneous invasive group among ruminant isolates of <italic>Chlamydia psittaci<\/italic>","volume":"137","author":"E Denamur","year":"1991","journal-title":"J Gen Microbiol"},{"key":"ref8","doi-asserted-by":"crossref","first-page":"219","DOI":"10.1016\/0378-1135(94)00100-B","article-title":"Antigenic diversity of ruminant <italic>Chlamydia psittaci<\/italic> strains demonstrated by the indirect micro-immunofluorescence test with monoclonal antibodies","volume":"43","author":"J Salinas","year":"1995","journal-title":"Vet Microbiol"},{"key":"ref9","doi-asserted-by":"crossref","first-page":"415","DOI":"10.1099\/00207713-49-2-415","article-title":"Emended description of the order <italic>Chlamydiales<\/italic>, proposal of <italic>Parachlamydiaceae<\/italic> fam. nov. and <italic>Simkaniaceae<\/italic> fam. nov., each containing one monotypic genus, revised taxonomy of the family <italic>Chlamydiaceae<\/italic>, including a new genus and five new species, and standards for the identification of organisms","volume":"49","author":"KD Everett","year":"1999","journal-title":"Int J Syst Bacteriol"},{"key":"ref10","doi-asserted-by":"crossref","first-page":"735","DOI":"10.1016\/S0923-2508(99)80020-5","article-title":"AFLP allows the identification of genomic markers of ruminant <italic>Chlamydia psittaci<\/italic> strains useful for typing and epidemiological studies","volume":"149","author":"KS Boumedine","year":"1998","journal-title":"Res Microbiol"},{"key":"ref11","doi-asserted-by":"crossref","unstructured":"Siarkou V. In vivo studies of the immunological heterogeneity of abortion strains of <italic>Chlamydia psittaci<\/italic>. Ph.D. Thesis, Aristotle University of Thessaloniki. 1992. <comment>doi: <ext-link xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" ext-link-type=\"uri\" xlink:href=\"http:\/\/dx.doi.org\/10.12681\/eadd\/8983\" xlink:type=\"simple\">10.12681\/eadd\/8983<\/ext-link><\/comment> Available: <ext-link xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" ext-link-type=\"uri\" xlink:href=\"http:\/\/hdl.handle.net\/10442\/hedi\/8983\" xlink:type=\"simple\">http:\/\/hdl.handle.net\/10442\/hedi\/8983<\/ext-link>","DOI":"10.12681\/eadd\/8983"},{"key":"ref12","doi-asserted-by":"crossref","first-page":"145","DOI":"10.1016\/S0378-1135(01)00506-5","article-title":"Subspecies variation in Greek strains of <italic>Chlamydophila abortus<\/italic>","volume":"85","author":"V Siarkou","year":"2002","journal-title":"Vet Microbiol"},{"key":"ref13","doi-asserted-by":"crossref","first-page":"275","DOI":"10.1016\/0378-1135(96)00048-X","article-title":"Diversity among abortion strains of <italic>Chlamydia psittaci<\/italic> demonstrated by inclusion morphology, polypeptide profiles and monoclonal antibodies","volume":"51","author":"E Vretou","year":"1996","journal-title":"Vet Microbiol"},{"key":"ref14","doi-asserted-by":"crossref","first-page":"607","DOI":"10.1128\/IAI.69.1.607-612.2001","article-title":"Identification of protective epitopes by sequencing of the major outer membrane protein gene of a variant strain of <italic>Chlamydia psittaci<\/italic> serotype 1 (<italic>Chlamydophila abortus<\/italic>)","volume":"69","author":"E Vretou","year":"2001","journal-title":"Infect Immun"},{"key":"ref15","doi-asserted-by":"crossref","first-page":"7219","DOI":"10.1128\/IAI.71.12.7219-7222.2003","article-title":"Abortive potency of <italic>Chlamydophila abortus<\/italic> in pregnant mice is not directly correlated with placental and fetal colonization levels","volume":"71","author":"A Bouakane","year":"2003","journal-title":"Infect Immun"},{"key":"ref16","doi-asserted-by":"crossref","first-page":"771","DOI":"10.1136\/vr.157.24.771","article-title":"Protection of pregnant mice against placental and splenic infection by three strains of <italic>Chlamydophila abortus<\/italic> with a live 1B vaccine","volume":"157","author":"A Bouakane","year":"2005","journal-title":"Vet Rec"},{"key":"ref17","doi-asserted-by":"crossref","first-page":"284","DOI":"10.1016\/j.vetmic.2011.03.005","article-title":"Genetic variability of <italic>Chlamydophila abortus<\/italic> strains assessed by PCR-RFLP analysis of polymorphic membrane protein-encoding genes","volume":"151","author":"M Sait","year":"2011","journal-title":"Vet Microbiol"},{"key":"ref18","doi-asserted-by":"crossref","first-page":"629","DOI":"10.1101\/gr.3684805","article-title":"The <italic>Chlamydophila abortus<\/italic> genome sequence reveals an array of variable proteins that contribute to interspecies variation","volume":"15","author":"NR Thomson","year":"2005","journal-title":"Genome Res"},{"key":"ref19","doi-asserted-by":"crossref","first-page":"4276","DOI":"10.1128\/JB.05290-11","article-title":"Genome sequence of the <italic>Chlamydophila abortus<\/italic> variant strain LLG","volume":"193","author":"M Sait","year":"2011","journal-title":"J Bacteriol"},{"issue":"5","key":"ref20","doi-asserted-by":"crossref","first-page":"e19813","DOI":"10.1371\/journal.pone.0019813","article-title":"Evolutionary relationships among <italic>Chlamydophila abortus<\/italic> variant strains inferred by rRNA secondary structure-based phylogeny","volume":"6","author":"VI Siarkou","year":"2011","journal-title":"PLoS ONE"},{"key":"ref21","doi-asserted-by":"crossref","first-page":"335","DOI":"10.1016\/j.vetmic.2009.01.029","article-title":"Genotyping of <italic>Chlamydophila abortus<\/italic> strains by multilocus VNTR analysis","volume":"137","author":"K Laroucau","year":"2009","journal-title":"Vet Microbiol"},{"issue":"12","key":"ref22","doi-asserted-by":"crossref","first-page":"e14179","DOI":"10.1371\/journal.pone.0014179","article-title":"Multi locus sequence typing of <italic>Chlamydia<\/italic> reveals an association between <italic>Chlamydia psittaci<\/italic> genotypes and host species","volume":"5","author":"Y Pannekoek","year":"2010","journal-title":"PLoS ONE"},{"key":"ref23","doi-asserted-by":"crossref","first-page":"42","DOI":"10.1186\/1471-2180-8-42","article-title":"Multi locus sequence typing of <italic>Chlamydiales<\/italic>: clonal groupings within the obligate intracellular bacteria <italic>Chlamydia trachomatis<\/italic>","volume":"8","author":"Y Pannekoek","year":"2008","journal-title":"BMC Microbiol"},{"key":"ref24","doi-asserted-by":"crossref","first-page":"145","DOI":"10.1016\/j.tvjl.2008.02.025","article-title":"New real-time PCR tests for species-specific detection of <italic>Chlamydophila psittaci<\/italic> and <italic>Chlamydophila abortus<\/italic> from tissue samples","volume":"181","author":"A Pantchev","year":"2009","journal-title":"Vet J"},{"key":"ref25","doi-asserted-by":"crossref","first-page":"5653","DOI":"10.1016\/j.vaccine.2010.06.064","article-title":"Differential identification of <italic>Chlamydophila abortus<\/italic> live vaccine strain 1B and <italic>C<\/italic>. <italic>abortus<\/italic> field isolates by PCR-RFLP","volume":"28","author":"K Laroucau","year":"2010","journal-title":"Vaccine"},{"key":"ref26","doi-asserted-by":"crossref","first-page":"241","DOI":"10.1016\/j.mimet.2012.05.014","article-title":"High-resolution melt PCR analysis for rapid identification of <italic>Chlamydia abortus<\/italic> live vaccine strain 1B among <italic>C<\/italic>. <italic>abortus<\/italic> strains and field isolates","volume":"90","author":"F Vorimore","year":"2012","journal-title":"J. Microbiol. Methods."},{"key":"ref27","doi-asserted-by":"crossref","first-page":"1518","DOI":"10.1128\/JB.186.5.1518-1530.2004","article-title":"eBURST: inferring patterns of evolutionary descent among clusters of related bacterial genotypes from multilocus sequence typing data","volume":"186","author":"E Feil","year":"2004","journal-title":"J Bacteriol"},{"key":"ref28","doi-asserted-by":"crossref","first-page":"182","DOI":"10.1073\/pnas.98.1.182","article-title":"Recombination within natural populations of pathogenic bacteria: short-term empirical estimates and long-term phylogenetic consequences","volume":"98","author":"E Feil","year":"2001","journal-title":"Proc Natl. Acad. Sci. USA."},{"key":"ref29","doi-asserted-by":"crossref","first-page":"3307","DOI":"10.1128\/JB.185.11.3307-3316.2003","article-title":"How clonal is <italic>Staphylococcus aureus<\/italic>?","volume":"185","author":"E Feil","year":"2003","journal-title":"J Bacteriol"},{"key":"ref30","doi-asserted-by":"crossref","first-page":"2731","DOI":"10.1093\/molbev\/msr121","article-title":"MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods","volume":"28","author":"K Tamura","year":"2011","journal-title":"Mol Biol. Evol."},{"key":"ref31","first-page":"418","article-title":"Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions","volume":"3","author":"M Nei","year":"1986","journal-title":"Mol Biol Evol"},{"key":"ref32","doi-asserted-by":"crossref","first-page":"66","DOI":"10.1186\/1471-2180-5-66","article-title":"Evaluation and selection of tandem repeat loci for <italic>Streptococcus pneumoniae<\/italic> MLVA strain typing","volume":"5","author":"JL Koeck","year":"2005","journal-title":"BMC Microbiol"},{"key":"ref33","doi-asserted-by":"crossref","first-page":"214","DOI":"10.1128\/JCM.01351-07","article-title":"Emergence of clonal complex 17 <italic>Enterococcus faecium<\/italic> in The Netherlands","volume":"46","author":"J Top","year":"2008","journal-title":"J Clin Microbiol"},{"key":"ref34","doi-asserted-by":"crossref","first-page":"1439","DOI":"10.1093\/genetics\/154.4.1439","article-title":"Estimating recombinational parameters in <italic>Streptococcus pneumoniae<\/italic> from multilocus sequence typing data","volume":"154","author":"EJ Feil","year":"2000","journal-title":"Genetics"},{"key":"ref35","doi-asserted-by":"crossref","first-page":"3933","DOI":"10.1093\/molbev\/mss198","article-title":"Population genomics of <italic>Chlamydia trachomatis<\/italic>: insights on drift, selection, recombination, and population structure","volume":"29","author":"SJ Joseph","year":"2012","journal-title":"Mol Biol Evol"},{"key":"ref36","first-page":"e00604","article-title":"Comparative analysis of <italic>Chlamydia psittaci<\/italic> genomes reveals the recent emergence of a pathogenic lineage with a broad host range","volume":"4","author":"TD Read","year":"2013","journal-title":"MBio"},{"key":"ref37","doi-asserted-by":"crossref","first-page":"355","DOI":"10.1186\/1471-2164-8-355","article-title":"Genetic diversity of the obligate intracellular bacterium <italic>Chlamydophila pneumoniae<\/italic> by genome-wide analysis of single nucleotide polymorphisms: evidence for highly clonal population structure","volume":"8","author":"T Rattei","year":"2007","journal-title":"BMC Genomics"},{"key":"ref38","doi-asserted-by":"crossref","first-page":"53","DOI":"10.1146\/annurev.micro.62.081307.162832","article-title":"Evolution, population structure, and phylogeography of genetically monomorphic bacterial pathogens","volume":"62","author":"M Achtman","year":"2008","journal-title":"Annu Rev Microbiol"},{"key":"ref39","first-page":"255","article-title":"Evolution","author":"DJ Futuyma","year":"2009"},{"key":"ref40","first-page":"279","article-title":"Evolution","author":"DJ Futuyma","year":"2009"},{"key":"ref41","doi-asserted-by":"crossref","first-page":"23","DOI":"10.1017\/S0016672300014634","article-title":"The hitch-hiking effect of a favourable gene","volume":"23","author":"JM Smith","year":"1974","journal-title":"Genet Res"},{"key":"ref42","doi-asserted-by":"crossref","first-page":"245","DOI":"10.1046\/j.1365-2958.2003.03678.x","article-title":"Experimentally revised repertoire of putative contingency loci in <italic>Neisseria meningitidis<\/italic> strain MC58: evidence for a novel mechanism of phase variation","volume":"50","author":"P Martin","year":"2003","journal-title":"Mol Microbiol"},{"key":"ref43","doi-asserted-by":"crossref","first-page":"4131","DOI":"10.1073\/pnas.93.9.4131","article-title":"Group B streptococci escape host immunity by deletion of tandem repeat elements of the alpha C protein","volume":"93","author":"LC Madoff","year":"1996","journal-title":"Proc Natl Acad Sci USA"},{"key":"ref44","doi-asserted-by":"crossref","first-page":"1010","DOI":"10.1016\/j.meegid.2009.05.014","article-title":"Phylogenetic understanding of clonal populations in an era of whole genome sequencing","volume":"9","author":"T Pearson","year":"2009","journal-title":"Infect Genet Evol"}],"container-title":["PLOS ONE"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/dx.plos.org\/10.1371\/journal.pone.0126433","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2022,5,8]],"date-time":"2022-05-08T23:38:31Z","timestamp":1652053111000},"score":1,"resource":{"primary":{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pone.0126433"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2015,5,22]]},"references-count":44,"journal-issue":{"issue":"5","published-online":{"date-parts":[[2015,5,22]]}},"URL":"https:\/\/doi.org\/10.1371\/journal.pone.0126433","relation":{},"ISSN":["1932-6203"],"issn-type":[{"type":"electronic","value":"1932-6203"}],"subject":[],"published":{"date-parts":[[2015,5,22]]}}}