Multilocus Sequence Typing (MLST) for Lineage Assignment and High Resolution Diversity Studies in Trypanosoma cruzi

Autores
Yeo, Matthew; Mauricio, Isabel L.; Messenger, Loisa A.; Lewis, Michael D.; Llewellyn, Martin S.; Acosta, Nidia; Bhattacharyya, Tapan; Diosque, Patricio; Carrasco, Hernán J.; Miles, Michael A.
Año de publicación
2011
Idioma
inglés
Tipo de recurso
artículo
Estado
versión publicada
Descripción
PLoS Negl Trop Dis. 2011 Jun;5(6):e1049. Epub 2011 Jun 21. Multilocus sequence typing (MLST) for lineage assignment and high resolution diversity studies in Trypanosoma cruzi. Yeo M, Mauricio IL, Messenger LA, Lewis MD, Llewellyn MS, Acosta N, Bhattacharyya T, Diosque P, Carrasco HJ, Miles MA. Source London School of Hygiene and Tropical Medicine, London, United Kingdom. Matthew.yeo@lshtm.ac.uk Abstract BACKGROUND: Multilocus sequence typing (MLST) is a powerful and highly discriminatory method for analysing pathogen population structure and epidemiology. Trypanosoma cruzi, the protozoan agent of American trypanosomiasis (Chagas disease), has remarkable genetic and ecological diversity. A standardised MLST protocol that is suitable for assignment of T. cruzi isolates to genetic lineage and for higher resolution diversity studies has not been developed. METHODOLOGY/PRINCIPAL FINDINGS: We have sequenced and diplotyped nine single copy housekeeping genes and assessed their value as part of a systematic MLST scheme for T. cruzi. A minimum panel of four MLST targets (Met-III, RB19, TcGPXII, and DHFR-TS) was shown to provide unambiguous assignment of isolates to the six known T. cruzi lineages (Discrete Typing Units, DTUs TcI-TcVI). In addition, we recommend six MLST targets (Met-II, Met-III, RB19, TcMPX, DHFR-TS, and TR) for more in depth diversity studies on the basis that diploid sequence typing (DST) with this expanded panel distinguished 38 out of 39 reference isolates. Phylogenetic analysis implies a subdivision between North and South American TcIV isolates. Single Nucleotide Polymorphism (SNP) data revealed high levels of heterozygosity among DTUs TcI, TcIII, TcIV and, for three targets, putative corresponding homozygous and heterozygous loci within DTUs TcI and TcIII. Furthermore, individual gene trees gave incongruent topologies at inter- and intra-DTU levels, inconsistent with a model of strict clonality. CONCLUSIONS/SIGNIFICANCE: We demonstrate the value of systematic MLST diplotyping for describing inter-DTU relationships and for higher resolution diversity studies of T. cruzi, including presence of recombination events. The high levels of heterozygosity will facilitate future population genetics analysis based on MLST haplotypes.
Fil: Yeo, Matthew. London School of Hygiene and Tropical Medicine; Reino Unido
Fil: Mauricio, Isabel L.. Instituto de Higiene e Medicina Tropical; Portugal
Fil: Messenger, Loisa A.. London School of Hygiene and Tropical Medicine; Reino Unido
Fil: Lewis, Michael D.. London School of Hygiene and Tropical Medicine; Reino Unido
Fil: Llewellyn, Martin S.. London School of Hygiene and Tropical Medicine; Reino Unido
Fil: Acosta, Nidia. London School of Hygiene and Tropical Medicine; Reino Unido. Universidad Nacional de Asuncion; Paraguay
Fil: Bhattacharyya, Tapan. London School of Hygiene and Tropical Medicine; Reino Unido
Fil: Diosque, Patricio. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Salta. Instituto de Patología Experimental. Universidad Nacional de Salta. Facultad de Cs.de la Salud. Instituto de Patología Experimental; Argentina
Fil: Carrasco, Hernán J.. Universidad Central de Venezuela; Venezuela
Fil: Miles, Michael A.. London School of Hygiene and Tropical Medicine; Reino Unido
Materia
MLST
TYPING
TRYPANOSOMA CRUZI
Nivel de accesibilidad
acceso abierto
Condiciones de uso
https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
Repositorio
CONICET Digital (CONICET)
Institución
Consejo Nacional de Investigaciones Científicas y Técnicas
OAI Identificador
oai:ri.conicet.gov.ar:11336/16813
Acceder
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oai_identifier_str oai:ri.conicet.gov.ar:11336/16813
network_acronym_str CONICETDig
repository_id_str 3498
network_name_str CONICET Digital (CONICET)
spelling Multilocus Sequence Typing (MLST) for Lineage Assignment and High Resolution Diversity Studies in Trypanosoma cruziYeo, MatthewMauricio, Isabel L.Messenger, Loisa A.Lewis, Michael D.Llewellyn, Martin S.Acosta, NidiaBhattacharyya, TapanDiosque, PatricioCarrasco, Hernán J.Miles, Michael A.MLSTTYPINGTRYPANOSOMA CRUZIhttps://purl.org/becyt/ford/3.3https://purl.org/becyt/ford/3PLoS Negl Trop Dis. 2011 Jun;5(6):e1049. Epub 2011 Jun 21. Multilocus sequence typing (MLST) for lineage assignment and high resolution diversity studies in Trypanosoma cruzi. Yeo M, Mauricio IL, Messenger LA, Lewis MD, Llewellyn MS, Acosta N, Bhattacharyya T, Diosque P, Carrasco HJ, Miles MA. Source London School of Hygiene and Tropical Medicine, London, United Kingdom. Matthew.yeo@lshtm.ac.uk Abstract BACKGROUND: Multilocus sequence typing (MLST) is a powerful and highly discriminatory method for analysing pathogen population structure and epidemiology. Trypanosoma cruzi, the protozoan agent of American trypanosomiasis (Chagas disease), has remarkable genetic and ecological diversity. A standardised MLST protocol that is suitable for assignment of T. cruzi isolates to genetic lineage and for higher resolution diversity studies has not been developed. METHODOLOGY/PRINCIPAL FINDINGS: We have sequenced and diplotyped nine single copy housekeeping genes and assessed their value as part of a systematic MLST scheme for T. cruzi. A minimum panel of four MLST targets (Met-III, RB19, TcGPXII, and DHFR-TS) was shown to provide unambiguous assignment of isolates to the six known T. cruzi lineages (Discrete Typing Units, DTUs TcI-TcVI). In addition, we recommend six MLST targets (Met-II, Met-III, RB19, TcMPX, DHFR-TS, and TR) for more in depth diversity studies on the basis that diploid sequence typing (DST) with this expanded panel distinguished 38 out of 39 reference isolates. Phylogenetic analysis implies a subdivision between North and South American TcIV isolates. Single Nucleotide Polymorphism (SNP) data revealed high levels of heterozygosity among DTUs TcI, TcIII, TcIV and, for three targets, putative corresponding homozygous and heterozygous loci within DTUs TcI and TcIII. Furthermore, individual gene trees gave incongruent topologies at inter- and intra-DTU levels, inconsistent with a model of strict clonality. CONCLUSIONS/SIGNIFICANCE: We demonstrate the value of systematic MLST diplotyping for describing inter-DTU relationships and for higher resolution diversity studies of T. cruzi, including presence of recombination events. The high levels of heterozygosity will facilitate future population genetics analysis based on MLST haplotypes.Fil: Yeo, Matthew. London School of Hygiene and Tropical Medicine; Reino UnidoFil: Mauricio, Isabel L.. Instituto de Higiene e Medicina Tropical; PortugalFil: Messenger, Loisa A.. London School of Hygiene and Tropical Medicine; Reino UnidoFil: Lewis, Michael D.. London School of Hygiene and Tropical Medicine; Reino UnidoFil: Llewellyn, Martin S.. London School of Hygiene and Tropical Medicine; Reino UnidoFil: Acosta, Nidia. London School of Hygiene and Tropical Medicine; Reino Unido. Universidad Nacional de Asuncion; ParaguayFil: Bhattacharyya, Tapan. London School of Hygiene and Tropical Medicine; Reino UnidoFil: Diosque, Patricio. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Salta. Instituto de Patología Experimental. Universidad Nacional de Salta. Facultad de Cs.de la Salud. Instituto de Patología Experimental; ArgentinaFil: Carrasco, Hernán J.. Universidad Central de Venezuela; VenezuelaFil: Miles, Michael A.. London School of Hygiene and Tropical Medicine; Reino UnidoPublic Library Of Science2011-06-21info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersionhttp://purl.org/coar/resource_type/c_6501info:ar-repo/semantics/articuloapplication/pdfapplication/pdfhttp://hdl.handle.net/11336/16813Yeo, Matthew; Mauricio, Isabel L.; Messenger, Loisa A.; Lewis, Michael D.; Llewellyn, Martin S.; et al.; Multilocus Sequence Typing (MLST) for Lineage Assignment and High Resolution Diversity Studies in Trypanosoma cruzi; Public Library Of Science; Neglected Tropical Diseases; 5; 6; 21-6-2011; 1049-10491935-2735enginfo:eu-repo/semantics/altIdentifier/url/http://journals.plos.org/plosntds/article?id=10.1371/journal.pntd.0001049info:eu-repo/semantics/altIdentifier/doi/10.1371/journal.pntd.0001049info:eu-repo/semantics/openAccesshttps://creativecommons.org/licenses/by-nc-sa/2.5/ar/reponame:CONICET Digital (CONICET)instname:Consejo Nacional de Investigaciones Científicas y Técnicas2025-10-22T12:00:14Zoai:ri.conicet.gov.ar:11336/16813instacron:CONICETInstitucionalhttp://ri.conicet.gov.ar/Organismo científico-tecnológicoNo correspondehttp://ri.conicet.gov.ar/oai/requestdasensio@conicet.gov.ar; lcarlino@conicet.gov.arArgentinaNo correspondeNo correspondeNo correspondeopendoar:34982025-10-22 12:00:14.874CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicasfalse
dc.title.none.fl_str_mv Multilocus Sequence Typing (MLST) for Lineage Assignment and High Resolution Diversity Studies in Trypanosoma cruzi
title Multilocus Sequence Typing (MLST) for Lineage Assignment and High Resolution Diversity Studies in Trypanosoma cruzi
spellingShingle Multilocus Sequence Typing (MLST) for Lineage Assignment and High Resolution Diversity Studies in Trypanosoma cruzi
Yeo, Matthew
MLST
TYPING
TRYPANOSOMA CRUZI
title_short Multilocus Sequence Typing (MLST) for Lineage Assignment and High Resolution Diversity Studies in Trypanosoma cruzi
title_full Multilocus Sequence Typing (MLST) for Lineage Assignment and High Resolution Diversity Studies in Trypanosoma cruzi
title_fullStr Multilocus Sequence Typing (MLST) for Lineage Assignment and High Resolution Diversity Studies in Trypanosoma cruzi
title_full_unstemmed Multilocus Sequence Typing (MLST) for Lineage Assignment and High Resolution Diversity Studies in Trypanosoma cruzi
title_sort Multilocus Sequence Typing (MLST) for Lineage Assignment and High Resolution Diversity Studies in Trypanosoma cruzi
dc.creator.none.fl_str_mv Yeo, Matthew
Mauricio, Isabel L.
Messenger, Loisa A.
Lewis, Michael D.
Llewellyn, Martin S.
Acosta, Nidia
Bhattacharyya, Tapan
Diosque, Patricio
Carrasco, Hernán J.
Miles, Michael A.
author Yeo, Matthew
author_facet Yeo, Matthew
Mauricio, Isabel L.
Messenger, Loisa A.
Lewis, Michael D.
Llewellyn, Martin S.
Acosta, Nidia
Bhattacharyya, Tapan
Diosque, Patricio
Carrasco, Hernán J.
Miles, Michael A.
author_role author
author2 Mauricio, Isabel L.
Messenger, Loisa A.
Lewis, Michael D.
Llewellyn, Martin S.
Acosta, Nidia
Bhattacharyya, Tapan
Diosque, Patricio
Carrasco, Hernán J.
Miles, Michael A.
author2_role author
author
author
author
author
author
author
author
author
dc.subject.none.fl_str_mv MLST
TYPING
TRYPANOSOMA CRUZI
topic MLST
TYPING
TRYPANOSOMA CRUZI
purl_subject.fl_str_mv https://purl.org/becyt/ford/3.3
https://purl.org/becyt/ford/3
dc.description.none.fl_txt_mv PLoS Negl Trop Dis. 2011 Jun;5(6):e1049. Epub 2011 Jun 21. Multilocus sequence typing (MLST) for lineage assignment and high resolution diversity studies in Trypanosoma cruzi. Yeo M, Mauricio IL, Messenger LA, Lewis MD, Llewellyn MS, Acosta N, Bhattacharyya T, Diosque P, Carrasco HJ, Miles MA. Source London School of Hygiene and Tropical Medicine, London, United Kingdom. Matthew.yeo@lshtm.ac.uk Abstract BACKGROUND: Multilocus sequence typing (MLST) is a powerful and highly discriminatory method for analysing pathogen population structure and epidemiology. Trypanosoma cruzi, the protozoan agent of American trypanosomiasis (Chagas disease), has remarkable genetic and ecological diversity. A standardised MLST protocol that is suitable for assignment of T. cruzi isolates to genetic lineage and for higher resolution diversity studies has not been developed. METHODOLOGY/PRINCIPAL FINDINGS: We have sequenced and diplotyped nine single copy housekeeping genes and assessed their value as part of a systematic MLST scheme for T. cruzi. A minimum panel of four MLST targets (Met-III, RB19, TcGPXII, and DHFR-TS) was shown to provide unambiguous assignment of isolates to the six known T. cruzi lineages (Discrete Typing Units, DTUs TcI-TcVI). In addition, we recommend six MLST targets (Met-II, Met-III, RB19, TcMPX, DHFR-TS, and TR) for more in depth diversity studies on the basis that diploid sequence typing (DST) with this expanded panel distinguished 38 out of 39 reference isolates. Phylogenetic analysis implies a subdivision between North and South American TcIV isolates. Single Nucleotide Polymorphism (SNP) data revealed high levels of heterozygosity among DTUs TcI, TcIII, TcIV and, for three targets, putative corresponding homozygous and heterozygous loci within DTUs TcI and TcIII. Furthermore, individual gene trees gave incongruent topologies at inter- and intra-DTU levels, inconsistent with a model of strict clonality. CONCLUSIONS/SIGNIFICANCE: We demonstrate the value of systematic MLST diplotyping for describing inter-DTU relationships and for higher resolution diversity studies of T. cruzi, including presence of recombination events. The high levels of heterozygosity will facilitate future population genetics analysis based on MLST haplotypes.
Fil: Yeo, Matthew. London School of Hygiene and Tropical Medicine; Reino Unido
Fil: Mauricio, Isabel L.. Instituto de Higiene e Medicina Tropical; Portugal
Fil: Messenger, Loisa A.. London School of Hygiene and Tropical Medicine; Reino Unido
Fil: Lewis, Michael D.. London School of Hygiene and Tropical Medicine; Reino Unido
Fil: Llewellyn, Martin S.. London School of Hygiene and Tropical Medicine; Reino Unido
Fil: Acosta, Nidia. London School of Hygiene and Tropical Medicine; Reino Unido. Universidad Nacional de Asuncion; Paraguay
Fil: Bhattacharyya, Tapan. London School of Hygiene and Tropical Medicine; Reino Unido
Fil: Diosque, Patricio. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Conicet - Salta. Instituto de Patología Experimental. Universidad Nacional de Salta. Facultad de Cs.de la Salud. Instituto de Patología Experimental; Argentina
Fil: Carrasco, Hernán J.. Universidad Central de Venezuela; Venezuela
Fil: Miles, Michael A.. London School of Hygiene and Tropical Medicine; Reino Unido
description PLoS Negl Trop Dis. 2011 Jun;5(6):e1049. Epub 2011 Jun 21. Multilocus sequence typing (MLST) for lineage assignment and high resolution diversity studies in Trypanosoma cruzi. Yeo M, Mauricio IL, Messenger LA, Lewis MD, Llewellyn MS, Acosta N, Bhattacharyya T, Diosque P, Carrasco HJ, Miles MA. Source London School of Hygiene and Tropical Medicine, London, United Kingdom. Matthew.yeo@lshtm.ac.uk Abstract BACKGROUND: Multilocus sequence typing (MLST) is a powerful and highly discriminatory method for analysing pathogen population structure and epidemiology. Trypanosoma cruzi, the protozoan agent of American trypanosomiasis (Chagas disease), has remarkable genetic and ecological diversity. A standardised MLST protocol that is suitable for assignment of T. cruzi isolates to genetic lineage and for higher resolution diversity studies has not been developed. METHODOLOGY/PRINCIPAL FINDINGS: We have sequenced and diplotyped nine single copy housekeeping genes and assessed their value as part of a systematic MLST scheme for T. cruzi. A minimum panel of four MLST targets (Met-III, RB19, TcGPXII, and DHFR-TS) was shown to provide unambiguous assignment of isolates to the six known T. cruzi lineages (Discrete Typing Units, DTUs TcI-TcVI). In addition, we recommend six MLST targets (Met-II, Met-III, RB19, TcMPX, DHFR-TS, and TR) for more in depth diversity studies on the basis that diploid sequence typing (DST) with this expanded panel distinguished 38 out of 39 reference isolates. Phylogenetic analysis implies a subdivision between North and South American TcIV isolates. Single Nucleotide Polymorphism (SNP) data revealed high levels of heterozygosity among DTUs TcI, TcIII, TcIV and, for three targets, putative corresponding homozygous and heterozygous loci within DTUs TcI and TcIII. Furthermore, individual gene trees gave incongruent topologies at inter- and intra-DTU levels, inconsistent with a model of strict clonality. CONCLUSIONS/SIGNIFICANCE: We demonstrate the value of systematic MLST diplotyping for describing inter-DTU relationships and for higher resolution diversity studies of T. cruzi, including presence of recombination events. The high levels of heterozygosity will facilitate future population genetics analysis based on MLST haplotypes.
publishDate 2011
dc.date.none.fl_str_mv 2011-06-21
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
http://purl.org/coar/resource_type/c_6501
info:ar-repo/semantics/articulo
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv http://hdl.handle.net/11336/16813
Yeo, Matthew; Mauricio, Isabel L.; Messenger, Loisa A.; Lewis, Michael D.; Llewellyn, Martin S.; et al.; Multilocus Sequence Typing (MLST) for Lineage Assignment and High Resolution Diversity Studies in Trypanosoma cruzi; Public Library Of Science; Neglected Tropical Diseases; 5; 6; 21-6-2011; 1049-1049
1935-2735
url http://hdl.handle.net/11336/16813
identifier_str_mv Yeo, Matthew; Mauricio, Isabel L.; Messenger, Loisa A.; Lewis, Michael D.; Llewellyn, Martin S.; et al.; Multilocus Sequence Typing (MLST) for Lineage Assignment and High Resolution Diversity Studies in Trypanosoma cruzi; Public Library Of Science; Neglected Tropical Diseases; 5; 6; 21-6-2011; 1049-1049
1935-2735
dc.language.none.fl_str_mv eng
language eng
dc.relation.none.fl_str_mv info:eu-repo/semantics/altIdentifier/url/http://journals.plos.org/plosntds/article?id=10.1371/journal.pntd.0001049
info:eu-repo/semantics/altIdentifier/doi/10.1371/journal.pntd.0001049
dc.rights.none.fl_str_mv info:eu-repo/semantics/openAccess
https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
eu_rights_str_mv openAccess
rights_invalid_str_mv https://creativecommons.org/licenses/by-nc-sa/2.5/ar/
dc.format.none.fl_str_mv application/pdf
application/pdf
dc.publisher.none.fl_str_mv Public Library Of Science
publisher.none.fl_str_mv Public Library Of Science
dc.source.none.fl_str_mv reponame:CONICET Digital (CONICET)
instname:Consejo Nacional de Investigaciones Científicas y Técnicas
reponame_str CONICET Digital (CONICET)
collection CONICET Digital (CONICET)
instname_str Consejo Nacional de Investigaciones Científicas y Técnicas
repository.name.fl_str_mv CONICET Digital (CONICET) - Consejo Nacional de Investigaciones Científicas y Técnicas
repository.mail.fl_str_mv dasensio@conicet.gov.ar; lcarlino@conicet.gov.ar
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score 12.982451

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