{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,12]],"date-time":"2026-10-12T20:49:56Z","timestamp":1791838196922,"version":"4.3.4"},"reference-count":72,"publisher":"Frontiers Media SA","license":[{"start":{"date-parts":[[2019,7,31]],"date-time":"2019-07-31T00:00:00Z","timestamp":1564531200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100001824","name":"Grantov\u00e1 Agentura Cesk\u00e9 Republiky","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100001824","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100003243","name":"Ministerstvo Zdravotnictv\u00ed Cesk\u00e9 Republiky","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100003243","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100011659","name":"L\u00e9ka\u0158sk\u00e1 fakulta, Masarykova univerzita","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100011659","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["frontiersin.org"],"crossmark-restriction":true},"short-container-title":["Front. Microbiol."],"DOI":"10.3389\/fmicb.2019.01691","type":"journal-article","created":{"date-parts":[[2019,7,31]],"date-time":"2019-07-31T12:02:51Z","timestamp":1564574571000},"update-policy":"https:\/\/doi.org\/10.3389\/crossmark-policy","source":"Crossref","is-referenced-by-count":59,"title":["Directly Sequenced Genomes of Contemporary Strains of Syphilis Reveal Recombination-Driven Diversity in Genes Encoding Predicted Surface-Exposed Antigens"],"prefix":"10.3389","volume":"10","author":[{"given":"Linda","family":"Grillov\u00e1","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jan","family":"Oppelt","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lenka","family":"Mikalov\u00e1","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mark\u00e9ta","family":"Nov\u00e1kov\u00e1","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Lorenzo","family":"Giacani","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ane\u017eka","family":"Niesnerov\u00e1","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Angel A.","family":"Noda","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ariel E.","family":"Mechaly","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Petra","family":"Posp\u00ed\u0161ilov\u00e1","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Darina","family":"\u010cejkov\u00e1","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Philippe A.","family":"Grange","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Nicolas","family":"Dupin","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Radim","family":"Strnadel","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Marcus","family":"Chen","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Ian","family":"Denham","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Natasha","family":"Arora","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Mathieu","family":"Picardeau","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Christopher","family":"Weston","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"R. Allyn","family":"Forsyth","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"David","family":"\u0160majs","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"1965","published-online":{"date-parts":[[2019,7,31]]},"reference":[{"key":"B1","author":"Andrews","year":"2010","journal-title":"FastQC A Quality Control tool for High Throughput Sequence Data."},{"key":"B2","doi-asserted-by":"publisher","DOI":"10.1038\/nmicrobiol.2016.245","article-title":"Origin of modern syphilis and emergence of a pandemic Treponema pallidum cluster.","volume":"2","author":"Arora","year":"2016","journal-title":"Nat. Microbiol."},{"key":"B3","doi-asserted-by":"publisher","first-page":"37","DOI":"10.1093\/oxfordjournals.molbev.a026036","article-title":"Median-joining networks for inferring intraspecific phylogenies.","volume":"16","author":"Bandelt","year":"1999","journal-title":"Mol. Biol. Evol."},{"key":"B4","doi-asserted-by":"publisher","first-page":"455","DOI":"10.1089\/cmb.2012.0021","article-title":"SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing.","volume":"19","author":"Bankevich","year":"2012","journal-title":"J. Comput. Biol."},{"key":"B5","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0109061","article-title":"Selective microbial genomic DNA isolation using restriction endonucleases.","volume":"9","author":"Barnes","year":"2014","journal-title":"PLoS One"},{"key":"B6","doi-asserted-by":"publisher","first-page":"2114","DOI":"10.1093\/bioinformatics\/btu170","article-title":"Trimmomatic: a flexible trimmer for Illumina sequence data.","volume":"30","author":"Bolger","year":"2014","journal-title":"Bioinformatics"},{"key":"B7","doi-asserted-by":"publisher","first-page":"494","DOI":"10.1093\/bioinformatics\/bts731","article-title":"NGSUtils: a software suite for analyzing and manipulating next-generation sequencing datasets.","volume":"29","author":"Breese","year":"2013","journal-title":"Bioinformatics"},{"key":"B8","doi-asserted-by":"publisher","first-page":"1848","DOI":"10.1128\/IAI.01424-07","article-title":"A novel Treponema pallidum antigen, TP0136, is an outer membrane protein that binds human fibronectin.","volume":"76","author":"Brinkman","year":"2008","journal-title":"Infect. Immun."},{"key":"B9","year":"2015","journal-title":"Picard Toolkit."},{"key":"B10","author":"Bushnell","year":"2017","journal-title":"BBMap."},{"key":"B11","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-10-421","article-title":"BLAST+: architecture and applications.","volume":"10","author":"Camacho","year":"2009","journal-title":"BMC Bioinformatics"},{"key":"B12","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pntd.0001471","article-title":"Whole genome sequences of three Treponema pallidum ssp. Pertenue strains: yaws and syphilis treponemes differ in less than 0.2% of the genome sequence.","volume":"6","author":"\u010cejkov\u00e1","year":"2012","journal-title":"PLoS Negl. Trop. Dis."},{"key":"B13","doi-asserted-by":"publisher","first-page":"196","DOI":"10.1099\/jmm.0.050658-0","article-title":"Structure of rrn operons in pathogenic non-cultivable treponemes: sequence but not genomic position of intergenic spacers correlates with classification of Treponema pallidum and Treponema paraluiscuniculi strains.","author":"\u010cejkov\u00e1","year":"2013","journal-title":"J. Med. Microbiol."},{"key":"B14","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pntd.0002222","article-title":"Fine analysis of genetic diversity of the tpr gene family among treponemal species, subspecies and strains.","volume":"7","author":"Centurion-Lara","year":"2013","journal-title":"PLoS Negl. Trop. Dis."},{"key":"B15","doi-asserted-by":"publisher","first-page":"2332","DOI":"10.1128\/jb.182.8.2332-2335.2000","article-title":"Multiple alleles of Treponema pallidum repeat gene D in Treponema pallidum isolates.","volume":"182","author":"Centurion-Lara","year":"2000","journal-title":"J. Bacteriol."},{"key":"B16","doi-asserted-by":"publisher","first-page":"134","DOI":"10.4269\/ajtmh.14-0459","article-title":"Molecular differentiation of Treponema pallidum subspecies in skin ulceration clinically suspected as yaws in Vanuatu using real-time multiplex PCR and serological methods.","volume":"92","author":"Chi","year":"2015","journal-title":"Am. J. Trop. Med. Hyg."},{"key":"B17","doi-asserted-by":"publisher","first-page":"80","DOI":"10.4161\/fly.19695","article-title":"A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3.","volume":"6","author":"Cingolani","year":"2012","journal-title":"Fly"},{"key":"B18","doi-asserted-by":"publisher","first-page":"3707","DOI":"10.1128\/jcm.01026-15","article-title":"Incidental syphilis diagnosed by real-time PCR screening of urine samples.","volume":"53","author":"Dubourg","year":"2015","journal-title":"J. Clin. Microbiol."},{"key":"B19","doi-asserted-by":"publisher","DOI":"10.1128\/mBio.01153-18","article-title":"Long-Term In Vitro culture of the syphilis spirochete Treponema pallidum subsp. pallidum.","volume":"9","author":"Edmondson","year":"2018","journal-title":"mBio"},{"key":"B20","doi-asserted-by":"publisher","first-page":"669","DOI":"10.2340\/00015555-1335","article-title":"Sequencing-based molecular typing of treponema pallidum strains in the Czech Republic: all identified genotypes are related to the sequence of the SS14 strain.","volume":"92","author":"Flasarov\u00e1","year":"2012","journal-title":"Acta. Derm. Venereol."},{"key":"B21","doi-asserted-by":"publisher","first-page":"375","DOI":"10.1126\/science.281.5375.375","article-title":"Complete genome sequence of Treponema pallidum, the syphilis spirochete.","volume":"281","author":"Fraser","year":"1998","journal-title":"Science"},{"key":"B22","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0172905","article-title":"Molecular typing of Treponema pallidum isolates from Buenos Aires, Argentina: frequent nichols-like isolates and low levels of macrolide resistance.","volume":"12","author":"Gallo Vaulet","year":"2017","journal-title":"PLoS One"},{"key":"B23","author":"Garrison","year":"2016","journal-title":"Vcflib, A Simple C++ Library for Parsing and Manipulating VCF files."},{"key":"B24","author":"Garrison","year":"2012","journal-title":"Haplotype-Based Variant Detection from Short-Read Sequencing."},{"key":"B25","doi-asserted-by":"publisher","DOI":"10.1128\/genomeA.00333-14","article-title":"Complete genome sequence of the Treponema pallidum subsp. pallidum Sea81-4 Strain.","volume":"2","author":"Giacani","year":"2014","journal-title":"Genome Announc."},{"key":"B26","doi-asserted-by":"publisher","first-page":"2645","DOI":"10.1128\/JB.00159-10","article-title":"Complete genome sequence and annotation of the Treponema pallidum subsp. pallidum Chicago strain.","volume":"192","author":"Giacani","year":"2010","journal-title":"J. Bacteriol."},{"key":"B27","author":"Gordon","year":"2014","journal-title":"FASTX-Toolkit: FASTQ\/A Short-Reads Pre-Processing Tools."},{"key":"B28","doi-asserted-by":"publisher","first-page":"2220","DOI":"10.1093\/molbev\/msl092","article-title":"Molecular evolution of the tprC, D, I, K, G, and J genes in the pathogenic genus Treponema.","volume":"23","author":"Gray","year":"2006","journal-title":"Mol. Biol. Evol."},{"key":"B29","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0200773","article-title":"Molecular characterization of Treponema pallidum subsp. pallidum in Switzerland and France with a new multilocus sequence typing scheme.","volume":"13","author":"Grillov\u00e1","year":"","journal-title":"PLoS One"},{"key":"B30","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0202619","article-title":"Sequencing of Treponema pallidum subsp. pallidum from isolate UZ1974 using anti-treponemal antibodies enrichment: first complete whole genome sequence obtained directly from human clinical material.","volume":"13","author":"Grillov\u00e1","year":"","journal-title":"PLoS One"},{"key":"B31","doi-asserted-by":"publisher","first-page":"1138","DOI":"10.1093\/infdis\/jiy604","article-title":"Multilocus sequence typing of Treponema pallidum subsp. pallidum in Cuba from 2012 to 2017.","volume":"219","author":"Grillov\u00e1","year":"","journal-title":"J. Infect. Dis."},{"key":"B32","doi-asserted-by":"publisher","DOI":"10.7717\/peerj.6182","article-title":"A public database for the new MLST scheme for Treponema pallidum subsp. Pallidum: surveillance and epidemiology of the causative agent of syphilis.","volume":"6","author":"Grillov\u00e1","year":"2019","journal-title":"PeerJ"},{"key":"B33","doi-asserted-by":"publisher","first-page":"3693","DOI":"10.1128\/JCM.01292-14","article-title":"Molecular typing of Treponema pallidum in the Czech Republic during 2011 to 2013: increased prevalence of identified genotypes and of isolates with macrolide resistance.","volume":"52","author":"Grillov\u00e1","year":"2014","journal-title":"J. Clin. Microbiol."},{"key":"B34","doi-asserted-by":"publisher","first-page":"1072","DOI":"10.1093\/bioinformatics\/btt086","article-title":"QUAST: quality assessment tool for genome assemblies.","volume":"29","author":"Gurevich","year":"2013","journal-title":"Bioinformatics"},{"key":"B35","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pntd.0000148","article-title":"On the origin of the treponematoses: a phylogenetic approach.","volume":"2","author":"Harper","year":"2008","journal-title":"PLoS Negl. Trop. Dis."},{"key":"B36","doi-asserted-by":"crossref","DOI":"10.1038\/s41426-018-0156-4","article-title":"Nonhuman primates across sub-Saharan Africa are infected with the yaws bacterium Treponema pallidum subsp. pertenue.","volume":"7","author":"Knauf","year":"2018","journal-title":"Emerg. Microbes Infect."},{"key":"B37","doi-asserted-by":"publisher","DOI":"10.1128\/mBio.01006-18","article-title":"Sequence variation of rare outer membrane protein \u03b2-barrel domains in clinical strains provides insights into the evolution of Treponema pallidum subsp. pallidum, the Syphilis Spirochete.","volume":"9","author":"Kumar","year":"2018","journal-title":"mBio"},{"key":"B38","doi-asserted-by":"publisher","first-page":"127","DOI":"10.1093\/bioinformatics\/btl529","article-title":"Interactive tree of life (iTOL): an online tool for phylogenetic tree display and annotation.","volume":"23","author":"Letunic","year":"2007","journal-title":"Bioinformatics"},{"key":"B39","doi-asserted-by":"publisher","first-page":"2843","DOI":"10.1093\/bioinformatics\/btu356","article-title":"Toward better understanding of artifacts in variant calling from high-coverage samples.","volume":"30","author":"Li","year":"2014","journal-title":"Bioinformatics"},{"key":"B40","doi-asserted-by":"publisher","first-page":"2078","DOI":"10.1093\/bioinformatics\/btp352","article-title":"The sequence alignment\/map format and SAMtools.","volume":"25","author":"Li","year":"2009","journal-title":"Bioinformatics"},{"key":"B41","doi-asserted-by":"publisher","first-page":"D370","DOI":"10.1093\/nar\/gkr703","article-title":"OPM database and PPM web server: resources for positioning of proteins in membranes.","volume":"40","author":"Lomize","year":"2012","journal-title":"Nucleic Acids Res."},{"key":"B42","doi-asserted-by":"publisher","first-page":"818","DOI":"10.1093\/cid\/cix892","article-title":"Diagnostics for yaws eradication: insights from direct next-generation sequencing of cutaneous strains of Treponema pallidum.","volume":"66","author":"Marks","year":"2018","journal-title":"Clin. Infect. Dis."},{"key":"B43","doi-asserted-by":"publisher","DOI":"10.14806\/ej.17.1.200","article-title":"Cutadapt removes adapter sequences from high-throughput sequencing reads.","volume":"17","author":"Martin","year":"2011","journal-title":"EMBnet.J."},{"key":"B44","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2180-8-76","article-title":"Complete genome sequence of Treponema pallidum ssp. pallidum strain SS14 determined with oligonucleotide arrays.","volume":"8","author":"Mat\u0115jkov\u00e1","year":"2008","journal-title":"BMC Microbiol."},{"key":"B45","doi-asserted-by":"publisher","first-page":"1297","DOI":"10.1101\/gr.107524.110","article-title":"The genome analysis toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data.","volume":"20","author":"McKenna","year":"2010","journal-title":"Genome Res."},{"key":"B46","doi-asserted-by":"publisher","first-page":"376","DOI":"10.1097\/OLQ.0000000000000600","article-title":"Molecular typing of syphilis-causing strains among human immunodeficiency virus-positive patients in antwerp, Belgium.","volume":"44","author":"Mikalov\u00e1","year":"","journal-title":"Sex Transm. Dis."},{"key":"B47","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pntd.0005434","article-title":"Human Treponema pallidum 11q\/j isolate belongs to subsp. Endemicum but contains two loci with a sequence in TP0548 and TP0488 similar to subsp. pertenue and subsp. pallidum, respectively.","volume":"11","author":"Mikalov\u00e1","year":"","journal-title":"PLoS Negl. Trop. Dis."},{"key":"B48","doi-asserted-by":"publisher","first-page":"645","DOI":"10.1016\/j.ijmm.2014.04.007","article-title":"Syphilis-causing strains belong to separate SS14-like or Nichols-like groups as defined by multilocus analysis of 19 Treponema pallidum strains.","volume":"304","author":"Nechv\u00e1tal","year":"2014","journal-title":"Int. J. Med. Microbiol."},{"key":"B49","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0143304","article-title":"Global estimates of the prevalence and incidence of four curable sexually transmitted infections in based on systematic review and global reporting.","volume":"10","author":"Newman","year":"2012","journal-title":"PLoS One"},{"key":"B50","doi-asserted-by":"publisher","DOI":"10.1038\/nrdp.2017.73","article-title":"Syphilis.","volume":"3","author":"Peeling","year":"2017","journal-title":"Nat. Rev. Dis. Primers."},{"key":"B51","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0074319","article-title":"Resequencing of Treponema pallidum ssp. pallidum strains Nichols and SS14: correction of sequencing errors resulted in increased separation of syphilis treponeme subclusters.","volume":"8","author":"P\u011btro\u0161ov\u00e1","year":"2013","journal-title":"PLoS One"},{"key":"B52","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pntd.0001832","article-title":"Whole genome sequence of Treponema pallidum ssp. pallidum, strain Mexico A, suggests recombination between yaws and syphilis strains.","volume":"6","author":"P\u011btro\u0161ov\u00e1","year":"2012","journal-title":"PLoS Negl. Trop. Dis."},{"key":"B53","doi-asserted-by":"publisher","DOI":"10.1038\/nmicrobiol.2016.190","article-title":"Genome-scale analysis of the non-cultivable Treponema pallidum reveals extensive within-patient genetic variation.","volume":"2","author":"Pinto","year":"2016","journal-title":"Nat. Microbiol."},{"key":"B54","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0201068","article-title":"Multi-locus sequence typing of Treponema pallidum subsp. Pallidum present in clinical samples from France: infecting treponemes are genetically diverse and belong to 18 allelic profiles.","volume":"13","author":"Posp\u00ed\u0161ilov\u00e1","year":"2018","journal-title":"PLoS One"},{"key":"B55","doi-asserted-by":"publisher","first-page":"841","DOI":"10.1093\/bioinformatics\/btq033","article-title":"BEDTools: a flexible suite of utilities for comparing genomic features.","volume":"26","author":"Quinlan","year":"2010","journal-title":"Bioinformatics"},{"key":"B56","doi-asserted-by":"publisher","first-page":"744","DOI":"10.1038\/nrmicro.2016.141","article-title":"Treponema pallidum, the syphilis spirochete: making a living as a stealth pathogen.","volume":"14","author":"Radolf","year":"2016","journal-title":"Nat. Rev. Microbiol."},{"key":"B57","doi-asserted-by":"publisher","first-page":"513","DOI":"10.1093\/bioinformatics\/btm548","article-title":"TMBpro: secondary structure, beta-contact and tertiary structure prediction of transmembrane beta-barrel proteins.","volume":"24","author":"Randall","year":"2008","journal-title":"Bioinformatics"},{"key":"B58","doi-asserted-by":"publisher","first-page":"173","DOI":"10.1038\/nmeth.1818","article-title":"HHblits: lightning-fast iterative protein sequence searching by HMM-HMM alignment.","volume":"9","author":"Remmert","year":"2011","journal-title":"Nat. Methods"},{"key":"B59","doi-asserted-by":"publisher","first-page":"181","DOI":"10.1615\/forumimmundisther.2017020184","article-title":"Why are there two genetically distinct syphilis-causing strains?","volume":"7","author":"\u0160majs","year":"2016","journal-title":"Forum Immunopathol. Dis. Ther."},{"key":"B60","doi-asserted-by":"publisher","first-page":"92","DOI":"10.1016\/j.meegid.2018.03.015","article-title":"Genetics of human and animal uncultivable treponemal pathogens.","volume":"61","author":"\u0160majs","year":"2018","journal-title":"Infect. Genet. Evol."},{"key":"B61","doi-asserted-by":"publisher","first-page":"115","DOI":"10.1016\/s0378-1097(97)00375-3","article-title":"Identification and characterization of a Treponema pallidum subsp. Pallidum gene encoding a DNA adenine methyltransferase.","volume":"155","author":"Stamm","year":"1997","journal-title":"FEMS Microbiol. Lett."},{"key":"B62","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pntd.0003261","article-title":"Whole genome sequence of the Treponema pallidum subsp. Endemicum strain BosniaA: the genome is related to yaws treponemes but contains few loci similar to syphilis treponemes.","volume":"8","author":"\u0160taudov\u00e1","year":"2014","journal-title":"PLoS Negl. Trop. Dis."},{"key":"B63","doi-asserted-by":"publisher","first-page":"184","DOI":"10.1136\/sti.77.3.184","article-title":"Increase in sexually transmitted infections among homosexual men in Amsterdam in relation to HAART.","volume":"77","author":"Stolte","year":"2001","journal-title":"Sex Transm. Infect."},{"key":"B64","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pntd.0006867","article-title":"Complete genome sequences of two strains of Treponema pallidum subsp. Pertenue from Indonesia: modular structure of several treponemal genes.","volume":"12","author":"Strouhal","year":"2018","journal-title":"PLoS Negl. Trop. Dis."},{"key":"B65","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pntd.0005894","article-title":"Complete genome sequences of two strains of Treponema pallidum subsp. Pertenue from Ghana, Africa: identical genome sequences in samples isolated more than 7 years apart.","volume":"11","author":"Strouhal","year":"2017","journal-title":"PLoS Negl. Trop. Dis."},{"key":"B66","doi-asserted-by":"publisher","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":"Tamura","year":"2011","journal-title":"Mol. Biol. Evol."},{"key":"B67","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0182768","article-title":"Whole genome sequence of the Treponema pallidum subsp. Pallidum strain amoy: an asian isolate highly similar to SS14.","volume":"12","author":"Tong","year":"2017","journal-title":"PLoS One"},{"key":"B68","first-page":"3","article-title":"Biology of the treponematoses based on studies carried out at the international treponematosis Laboratory Center of the Johns Hopkins University under the auspices of the World Health Organization.","volume":"35","author":"Turner","year":"1957","journal-title":"Monogr. Ser. World Health Organ."},{"key":"B69","doi-asserted-by":"publisher","first-page":"W296","DOI":"10.1093\/nar\/gky427","article-title":"SWISS-MODEL: homology modelling of protein structures and complexes.","volume":"46","author":"Waterhouse","year":"2018","journal-title":"Nucleic Acids Res."},{"key":"B70","doi-asserted-by":"publisher","first-page":"151","DOI":"10.1016\/s0923-2508(00)00115-7","article-title":"From microbial genome sequence to applications.","volume":"151","author":"Weinstock","year":"2000","journal-title":"Res. Microbiol."},{"key":"B71","doi-asserted-by":"publisher","first-page":"659","DOI":"10.1128\/jcm.02209-06","article-title":"Detection of Treponema pallidum subsp. pallidum from skin lesions, serum, and cerebrospinal fluid in an infant with congenital syphilis after clindamycin treatment of the mother during pregnancy.","volume":"45","author":"Woznicov\u00e1","year":"2007","journal-title":"J. Clin. Microbiol."},{"key":"B72","doi-asserted-by":"publisher","first-page":"12","DOI":"10.4056\/sigs.2615838","article-title":"Complete genome sequence of Treponema pallidum strain DAL-1.","volume":"7","author":"Zoban\u00edkov\u00e1","year":"2012","journal-title":"Stand. Genomic Sci."}],"container-title":["Frontiers in Microbiology"],"original-title":[],"link":[{"URL":"https:\/\/www.frontiersin.org\/article\/10.3389\/fmicb.2019.01691\/full","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2019,9,22]],"date-time":"2019-09-22T23:46:49Z","timestamp":1569196009000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.frontiersin.org\/article\/10.3389\/fmicb.2019.01691\/full"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2019,7,31]]},"references-count":72,"alternative-id":["10.3389\/fmicb.2019.01691"],"URL":"https:\/\/doi.org\/10.3389\/fmicb.2019.01691","relation":{},"ISSN":["1664-302X"],"issn-type":[{"value":"1664-302X","type":"electronic"}],"subject":[],"published":{"date-parts":[[2019,7,31]]},"article-number":"1691"}}