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Unveiling the multilocus sequence typing (MLST) schemes and core genome phylogenies for genotyping chlamydia trachomatis

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dc.creatorPatiño, Luz H.
dc.creatorCamargo, Milena
dc.creatorMuñoz, Marina
dc.creatorRíos-Chaparro, Dora I.
dc.creatorPatarroyo, Manuel A.
dc.creatorRamírez, Juan David
dc.creator.googlePatiño, Luz H.spa
dc.creator.googleCamargo, Milenaspa
dc.creator.googleMuñoz, Marinaspa
dc.creator.googleRíos-Chaparro, Dora I.spa
dc.creator.googlePatarroyo, Manuel A.spa
dc.creator.googleRamírez, Juan D.spa
dc.date.accessioned2019-03-06T14:51:02Z
dc.date.available2019-03-06T14:51:02Z
dc.date.created2018
dc.date.issued2018
dc.description.abstractMultilocus sequence typing (MLST) has become a useful tool for studying the genetic diversity of important public health pathogens, such as Chlamydia trachomatis (Ct). Four MLST schemes have been proposed for Ct (data available from Chlamydiales MLST databases). However, the lack of a sole standardized scheme represents the greatest limitation regarding typing this species. This study was thus aimed at evaluating the usefulness of the four MLST schemes available for Ct, describing each molecular marker's pattern and its contribution toward a description of intra-specific genetic diversity and population structure. The markers for each scheme, showed a variable power of dicrimination, exhibiting in some cases over estimation in the determination of Sequence Types (STs). However, individual analysis of each locus's typing efficiency and discrimination power led to identifying 8 markers as having a suitable pattern for intra-specific typing. analyzing the 8 candidate markers gave a combination of 3 of these loci as an optimal scheme for identifying a large amount of STs, maximizing discrimination power whilst maintaining suitable typing efficiency. One scheme was compared against core genome phylogenies, finding a higher typing resolution through the last approach. These results confirm once again that although complete genome data, in particular from core genome MLST (cgMLST) allow a high resolution clustering for Ct isolates. There are combinations of molecular markers that could generate equivalent results, with the advantage of representing an easy implementation strategy and lower costs leading to contribute to the monitoring and molecular epidemiology of Ct. © 2018 Patiño, Camargo, Muñoz, Ríos-Chaparro, Patarroyo and Ramírez.eng
dc.format.mimetypeapplication/pdf
dc.identifier.doi10.3389/fmicb.2018.01854
dc.identifier.issn1664-302X
dc.identifier.urihttp://repository.urosario.edu.co/handle/10336/19198
dc.language.isoengspa
dc.relation.citationTitleFrontiers in Microbiology
dc.relation.citationVolumeVol. 9
dc.relation.ispartofFrontiers in Microbiology, ISSN:1664-302X, Vol. 9 (2018)spa
dc.relation.urihttps://www.frontiersin.org/articles/10.3389/fmicb.2018.01854/fullspa
dc.rights.accesRightsinfo:eu-repo/semantics/openAccess
dc.rights.accesoAbierto (Texto Completo)spa
dc.source.bibliographicCitationAlfaro, M.E., Huelsenbeck, J.P., Comparative performance of Bayesian and AIC-based measures of phylogenetic model uncertainty (2006) Syst. Biol, 55, pp. 89-96spa
dc.source.instnameinstname:Universidad del Rosario
dc.source.reponamereponame:Repositorio Institucional EdocUR
dc.subjectBiological Markerspa
dc.subjectRna 16Sspa
dc.subjectAllelespa
dc.subjectChlamydia Trachomatisspa
dc.subjectClonal Speciesspa
dc.subjectDna Dna Hybridizationspa
dc.subjectDna Microarrayspa
dc.subjectGene Mutationspa
dc.subjectGenetic Variabilityspa
dc.subjectGenomespa
dc.subjectGenome Analysisspa
dc.subjectGenotyping Techniquespa
dc.subjectHaplotypespa
dc.subjectInformation Retrievalspa
dc.subjectMolecular Typingspa
dc.subjectMultilocus Sequence Typingspa
dc.subjectParsimony Analysisspa
dc.subjectPhylogenyspa
dc.subjectPolymerase Chain Reactionspa
dc.subjectRestriction Fragment Length Polymorphismspa
dc.subjectSerotypingspa
dc.subjectSingle Nucleotide Polymorphismspa
dc.subjectUrinary Tract Infectionspa
dc.subjectWhole Genome Sequencingspa
dc.subjectMarcador biológicospa
dc.subject16S ARNspa
dc.subjectAlelospa
dc.subject.ddcEnfermedadesspa
dc.subject.keywordArticlespa
dc.subject.lembInfecciones por chlamydiaspa
dc.subject.lembGenomasspa
dc.titleUnveiling the multilocus sequence typing (MLST) schemes and core genome phylogenies for genotyping chlamydia trachomatisspa
dc.typearticleeng
dc.type.hasVersioninfo:eu-repo/semantics/publishedVersion
dc.type.spaArtículospa
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