Dissecting the Heterogeneous Population Genetic Structure of Candida albicans: Limitations and constraints of the multilocus sequence typing scheme

Candida albicans is a fungal opportunistic pathogen of significant public health importance mainly due to the recent emergence of strains with increased aggressiveness and antifungal resistance. Here, we aimed to describe the epidemiological profiles and approximate the population structure of C. al...

Full description

Autores:
Tipo de recurso:
Fecha de publicación:
2019
Institución:
Universidad del Rosario
Repositorio:
Repositorio EdocUR - U. Rosario
Idioma:
eng
OAI Identifier:
oai:repository.urosario.edu.co:10336/24093
Acceso en línea:
https://doi.org/10.3389/fmicb.2019.01052
https://repository.urosario.edu.co/handle/10336/24093
Palabra clave:
Adult
Article
Bootstrapping
Candida albicans
Chromosome
Controlled study
Diploidy
Epidemiological monitoring
Female
Genetic variability
Housekeeping gene
Human
Human experiment
Major clinical study
Molecular epidemiology
Multilocus sequence typing
Nonhuman
Population genetic structure
Vagina
Validation process
Candida albicans
Molecular epidemiology
Multilocus sequence typing
Population genetic structure
Recombination
Rights
License
Abierto (Texto Completo)
id EDOCUR2_cfff991958e6d06ac4b423ec6ffb4fea
oai_identifier_str oai:repository.urosario.edu.co:10336/24093
network_acronym_str EDOCUR2
network_name_str Repositorio EdocUR - U. Rosario
repository_id_str
dc.title.spa.fl_str_mv Dissecting the Heterogeneous Population Genetic Structure of Candida albicans: Limitations and constraints of the multilocus sequence typing scheme
title Dissecting the Heterogeneous Population Genetic Structure of Candida albicans: Limitations and constraints of the multilocus sequence typing scheme
spellingShingle Dissecting the Heterogeneous Population Genetic Structure of Candida albicans: Limitations and constraints of the multilocus sequence typing scheme
Adult
Article
Bootstrapping
Candida albicans
Chromosome
Controlled study
Diploidy
Epidemiological monitoring
Female
Genetic variability
Housekeeping gene
Human
Human experiment
Major clinical study
Molecular epidemiology
Multilocus sequence typing
Nonhuman
Population genetic structure
Vagina
Validation process
Candida albicans
Molecular epidemiology
Multilocus sequence typing
Population genetic structure
Recombination
title_short Dissecting the Heterogeneous Population Genetic Structure of Candida albicans: Limitations and constraints of the multilocus sequence typing scheme
title_full Dissecting the Heterogeneous Population Genetic Structure of Candida albicans: Limitations and constraints of the multilocus sequence typing scheme
title_fullStr Dissecting the Heterogeneous Population Genetic Structure of Candida albicans: Limitations and constraints of the multilocus sequence typing scheme
title_full_unstemmed Dissecting the Heterogeneous Population Genetic Structure of Candida albicans: Limitations and constraints of the multilocus sequence typing scheme
title_sort Dissecting the Heterogeneous Population Genetic Structure of Candida albicans: Limitations and constraints of the multilocus sequence typing scheme
dc.subject.keyword.spa.fl_str_mv Adult
Article
Bootstrapping
Candida albicans
Chromosome
Controlled study
Diploidy
Epidemiological monitoring
Female
Genetic variability
Housekeeping gene
Human
Human experiment
Major clinical study
Molecular epidemiology
Multilocus sequence typing
Nonhuman
Population genetic structure
Vagina
Validation process
Candida albicans
Molecular epidemiology
Multilocus sequence typing
Population genetic structure
Recombination
topic Adult
Article
Bootstrapping
Candida albicans
Chromosome
Controlled study
Diploidy
Epidemiological monitoring
Female
Genetic variability
Housekeeping gene
Human
Human experiment
Major clinical study
Molecular epidemiology
Multilocus sequence typing
Nonhuman
Population genetic structure
Vagina
Validation process
Candida albicans
Molecular epidemiology
Multilocus sequence typing
Population genetic structure
Recombination
description Candida albicans is a fungal opportunistic pathogen of significant public health importance mainly due to the recent emergence of strains with increased aggressiveness and antifungal resistance. Here, we aimed to describe the epidemiological profiles and approximate the population structure of C. albicans by analyzing the C. albicans multilocus sequence typing (MLST) database (Calb-MLST-DB), which contains the largest publically available dataset for this species. Based on 4,318 database isolates, we confirmed the ubiquitous nature of C. albicans including a group of diploid sequence types (DSTs) obtained from Healthy individuals exclusively (taken as an indicator of lack of association with illnesses in its host), until isolates established from Non-Healthy individuals (potentially associated with pathogenic processes) and other DSTs reported in both types (Healthy and Non-Healthy). The highest number of reported DSTs was related to blood, oral and vaginal swabs (32.4, 20.5, and 13.8%, respectively). High genetic diversity was observed in the seven housekeeping genes included in the MLST scheme, with a diverse population structure (154 clonal complexes, CCs; and a high number of singletons, n = 1,074). Phylogenetic reconstruction on the concatenated alignment of these housekeeping genes for all the reported DSTs (n = 3,483) was partially concordant with the CC assignment, however, an absence of bootstrap threshold supported nodes or p-distance, and the lack of association with the other epidemiological variables, evidenced the limitations of the MLST scheme. Marked genetic admixture signals were identified by STRUCTURE, with the majority being attributable to recombination events according to the RDP program results, although another type of exchange event cannot be ruled out. Our results reaffirm the genetic diversity inherent in the genes used for the MLST scheme, which are associated with the chromosomal remodeling already proposed for C. albicans. This was also corroborated with an internal validation at a micro geographical scale. Despite these results are biased due to the unavailability of considering the broad global spectrum of C. albicans isolates around the world. This suggests that the strategy used to population type this pathogen should be reevaluated to improve epidemiological monitoring of its health impact. Copyright © 2019 Muñoz, Wintaco, Muñoz and Ramírez. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
publishDate 2019
dc.date.created.spa.fl_str_mv 2019
dc.date.accessioned.none.fl_str_mv 2020-05-26T00:08:33Z
dc.date.available.none.fl_str_mv 2020-05-26T00:08:33Z
dc.type.eng.fl_str_mv article
dc.type.coarversion.fl_str_mv http://purl.org/coar/version/c_970fb48d4fbd8a85
dc.type.coar.fl_str_mv http://purl.org/coar/resource_type/c_6501
dc.type.spa.spa.fl_str_mv Artículo
dc.identifier.doi.none.fl_str_mv https://doi.org/10.3389/fmicb.2019.01052
dc.identifier.issn.none.fl_str_mv 1664302X
dc.identifier.uri.none.fl_str_mv https://repository.urosario.edu.co/handle/10336/24093
url https://doi.org/10.3389/fmicb.2019.01052
https://repository.urosario.edu.co/handle/10336/24093
identifier_str_mv 1664302X
dc.language.iso.spa.fl_str_mv eng
language eng
dc.relation.citationIssue.none.fl_str_mv No. MAY
dc.relation.citationTitle.none.fl_str_mv Frontiers in Microbiology
dc.relation.citationVolume.none.fl_str_mv Vol. 10
dc.relation.ispartof.spa.fl_str_mv Frontiers in Microbiology, ISSN:1664302X, Vol.10, No.MAY (2019)
dc.relation.uri.spa.fl_str_mv https://www.scopus.com/inward/record.uri?eid=2-s2.0-85068621121&doi=10.3389%2ffmicb.2019.01052&partnerID=40&md5=ffc8f01414dec8836e01ebca2bc5a19b
dc.rights.coar.fl_str_mv http://purl.org/coar/access_right/c_abf2
dc.rights.acceso.spa.fl_str_mv Abierto (Texto Completo)
rights_invalid_str_mv Abierto (Texto Completo)
http://purl.org/coar/access_right/c_abf2
dc.format.mimetype.none.fl_str_mv application/pdf
dc.publisher.spa.fl_str_mv Frontiers Media S.A.
institution Universidad del Rosario
dc.source.instname.spa.fl_str_mv instname:Universidad del Rosario
dc.source.reponame.spa.fl_str_mv reponame:Repositorio Institucional EdocUR
bitstream.url.fl_str_mv https://repository.urosario.edu.co/bitstreams/26259894-9c50-4e96-b6e3-dbb06cbee611/download
https://repository.urosario.edu.co/bitstreams/67a6593d-e64f-4d76-9ce9-995b6ea521a7/download
https://repository.urosario.edu.co/bitstreams/b3c6b389-6a46-4e03-a770-1a63f3180681/download
bitstream.checksum.fl_str_mv 012ec9ebf695595c992d1993522f4f88
890b0c5896e2ca476974c914cd386239
8798a48abde9899dd121837f338daf18
bitstream.checksumAlgorithm.fl_str_mv MD5
MD5
MD5
repository.name.fl_str_mv Repositorio institucional EdocUR
repository.mail.fl_str_mv edocur@urosario.edu.co
_version_ 1814167582247223296
spelling 453006a5-2ec3-4faf-8e32-a9d7075d519d-1677b1acf-2e98-4b26-8633-3cbb71ad1e16-17cb03a25-9bd0-42b0-a596-4f422c2cfa37-110117161186002020-05-26T00:08:33Z2020-05-26T00:08:33Z2019Candida albicans is a fungal opportunistic pathogen of significant public health importance mainly due to the recent emergence of strains with increased aggressiveness and antifungal resistance. Here, we aimed to describe the epidemiological profiles and approximate the population structure of C. albicans by analyzing the C. albicans multilocus sequence typing (MLST) database (Calb-MLST-DB), which contains the largest publically available dataset for this species. Based on 4,318 database isolates, we confirmed the ubiquitous nature of C. albicans including a group of diploid sequence types (DSTs) obtained from Healthy individuals exclusively (taken as an indicator of lack of association with illnesses in its host), until isolates established from Non-Healthy individuals (potentially associated with pathogenic processes) and other DSTs reported in both types (Healthy and Non-Healthy). The highest number of reported DSTs was related to blood, oral and vaginal swabs (32.4, 20.5, and 13.8%, respectively). High genetic diversity was observed in the seven housekeeping genes included in the MLST scheme, with a diverse population structure (154 clonal complexes, CCs; and a high number of singletons, n = 1,074). Phylogenetic reconstruction on the concatenated alignment of these housekeeping genes for all the reported DSTs (n = 3,483) was partially concordant with the CC assignment, however, an absence of bootstrap threshold supported nodes or p-distance, and the lack of association with the other epidemiological variables, evidenced the limitations of the MLST scheme. Marked genetic admixture signals were identified by STRUCTURE, with the majority being attributable to recombination events according to the RDP program results, although another type of exchange event cannot be ruled out. Our results reaffirm the genetic diversity inherent in the genes used for the MLST scheme, which are associated with the chromosomal remodeling already proposed for C. albicans. This was also corroborated with an internal validation at a micro geographical scale. Despite these results are biased due to the unavailability of considering the broad global spectrum of C. albicans isolates around the world. This suggests that the strategy used to population type this pathogen should be reevaluated to improve epidemiological monitoring of its health impact. Copyright © 2019 Muñoz, Wintaco, Muñoz and Ramírez. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.application/pdfhttps://doi.org/10.3389/fmicb.2019.010521664302Xhttps://repository.urosario.edu.co/handle/10336/24093engFrontiers Media S.A.No. MAYFrontiers in MicrobiologyVol. 10Frontiers in Microbiology, ISSN:1664302X, Vol.10, No.MAY (2019)https://www.scopus.com/inward/record.uri?eid=2-s2.0-85068621121&doi=10.3389%2ffmicb.2019.01052&partnerID=40&md5=ffc8f01414dec8836e01ebca2bc5a19bAbierto (Texto Completo)http://purl.org/coar/access_right/c_abf2instname:Universidad del Rosarioreponame:Repositorio Institucional EdocURAdultArticleBootstrappingCandida albicansChromosomeControlled studyDiploidyEpidemiological monitoringFemaleGenetic variabilityHousekeeping geneHumanHuman experimentMajor clinical studyMolecular epidemiologyMultilocus sequence typingNonhumanPopulation genetic structureVaginaValidation processCandida albicansMolecular epidemiologyMultilocus sequence typingPopulation genetic structureRecombinationDissecting the Heterogeneous Population Genetic Structure of Candida albicans: Limitations and constraints of the multilocus sequence typing schemearticleArtículohttp://purl.org/coar/version/c_970fb48d4fbd8a85http://purl.org/coar/resource_type/c_6501Muñoz, MarinaWintaco, Luz MairaMuñoz, Shirly AlexandraRamírez, Juan DavidORIGINALfmicb-10-01052.pdfapplication/pdf4054326https://repository.urosario.edu.co/bitstreams/26259894-9c50-4e96-b6e3-dbb06cbee611/download012ec9ebf695595c992d1993522f4f88MD51TEXTfmicb-10-01052.pdf.txtfmicb-10-01052.pdf.txtExtracted texttext/plain76622https://repository.urosario.edu.co/bitstreams/67a6593d-e64f-4d76-9ce9-995b6ea521a7/download890b0c5896e2ca476974c914cd386239MD52THUMBNAILfmicb-10-01052.pdf.jpgfmicb-10-01052.pdf.jpgGenerated Thumbnailimage/jpeg4321https://repository.urosario.edu.co/bitstreams/b3c6b389-6a46-4e03-a770-1a63f3180681/download8798a48abde9899dd121837f338daf18MD5310336/24093oai:repository.urosario.edu.co:10336/240932022-05-02 07:37:21.397308https://repository.urosario.edu.coRepositorio institucional EdocURedocur@urosario.edu.co