Repository logo
 
Publication

SNP typing reveals similarity in Mycobacterium tuberculosis genetic diversity between Portugal and Northeast Brazil

2013-05-03Journal article Open access
Simple item page
dc.contributor.authorMarques, Isabel
dc.contributor.authorSoares, Patricia
dc.contributor.authorNebenzahl-Guimaraes, Hanna
dc.contributor.authorCosta, Joao
dc.contributor.authorMiranda, Anabela
dc.contributor.authorDuarte, Raquel
dc.contributor.authorAlves, Adriana
dc.contributor.authorMacedo, Rita
dc.contributor.authorDuarte, Tonya A.
dc.contributor.authorBarbosa, Theolis
dc.contributor.authorOliveira, Martha
dc.contributor.authorNery, Joilda S.
dc.contributor.authorBoechat, Neio
dc.contributor.authorPereira, Susan M.
dc.contributor.authorBarreto, Mauricio L.
dc.contributor.authorPereira-Leal, Jose
dc.contributor.authorGomes, Maria Gabriela Miranda
dc.contributor.authorPenha-Goncalves, Carlos
dc.date.accessioned2016-05-04T12:11:09Z
dc.date.available2017-05-03T00:30:09Z
dc.date.issued2013-05-03
dc.descriptionThis deposit is composed by the main article plus the supplementary materials of the publication.
dc.description.abstractHuman tuberculosis is an infectious disease caused by bacteria from the Mycobacterium tuberculosis complex (MTBC). Although spoligotyping and MIRU-VNTR are standard methodologies in MTBC genetic epidemiology, recent studies suggest that Single Nucleotide Polymorphisms (SNP) are advantageous in phylogenetics and strain group/lineages identification. In this work we use a set of 79 SNPs to characterize 1987 MTBC isolates from Portugal and 141 from Northeast Brazil. All Brazilian samples were further characterized using spolygotyping. Phylogenetic analysis against a reference set revealed that about 95% of the isolates in both populations are singly attributed to bacterial lineage 4. Within this lineage, the most frequent strain groups in both Portugal and Brazil are LAM, followed by Haarlem and X. Contrary to these groups, strain group T showed a very different prevalence between Portugal (10%) and Brazil (1.5%). Spoligotype identification shows about 10% of mis-matches compared to the use of SNPs and a little more than 1% of strains unidentifiability. The mis-matches are observed in the most represented groups of our sample set (i.e., LAM and Haarlem) in almost the same proportion. Besides being more accurate in identifying strain groups/lineages, SNP-typing can also provide phylogenetic relationships between strain groups/lineages and, thus, indicate cases showing phylogenetic incongruence. Overall, the use of SNP-typing revealed striking similarities between MTBC populations from Portugal and Brazil.pt_PT
dc.description.sponsorshipFCT; National Counsel of Technological and Scientific Development (CNPQ) project number: (410498/2006-8); Coordination of Improvement of Higher Education Personnel (CAPES) project number: (23038.005107/2011-83).pt_PT
dc.identifier.citationLopes, J. S., Marques, I., Soares, P., Nebenzahl-Guimaraes, H., Costa, J., Miranda, A., Duarte, R., Alves, A., Macedo, R., Duarte, T. A., Barbosa, T., Oliveira, M., Nery, J. S., Boechat, N., Pereira, S. M., Barreto, M. L., Pereira-Leal, J., Gomes, M. G. M., Penha-Goncalves, C. (2013). SNP typing reveals similarity in Mycobacterium tuberculosis genetic diversity between Portugal and Northeast Brazil. Infect. Genet. Evol., 18, 238–246.pt_PT
dc.identifier.doi10.1016/j.meegid.2013.04.028pt_PT
dc.identifier.urihttp://hdl.handle.net/10400.7/593
dc.language.isoengpt_PT
dc.peerreviewedyespt_PT
dc.publisherElsivier Science BVpt_PT
dc.relationDeveloping the Framework for an Epidemic Forecast Infrastructure
dc.relation.publisherversionhttp://www.sciencedirect.com/science/article/pii/S1567134813001779?np=ypt_PT
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/pt_PT
dc.subjectMycobacterium tuberculois complexpt_PT
dc.subjectPortugalpt_PT
dc.subjectBrazilpt_PT
dc.subjectSNP typingpt_PT
dc.subjectSpoligotypingpt_PT
dc.subjectPhylogenypt_PT
dc.titleSNP typing reveals similarity in Mycobacterium tuberculosis genetic diversity between Portugal and Northeast Brazilpt_PT
dc.typejournal article
dspace.entity.typePublication
oaire.awardTitleDeveloping the Framework for an Epidemic Forecast Infrastructure
oaire.awardURIinfo:eu-repo/grantAgreement/EC/FP7/231807/EU
oaire.citation.endPage246pt_PT
oaire.citation.startPage238pt_PT
oaire.citation.titleInfection, Genetics and Evolutionpt_PT
oaire.citation.volume18pt_PT
oaire.fundingStreamFP7
project.funder.identifierhttp://doi.org/10.13039/501100008530
project.funder.nameEuropean Commission
rcaap.rightsopenAccesspt_PT
rcaap.typearticlept_PT
relation.isProjectOfPublication120acf43-5f6e-4b79-a889-031b54eba6a7
relation.isProjectOfPublication.latestForDiscovery120acf43-5f6e-4b79-a889-031b54eba6a7

Files

Original bundle
Now showing 1 - 2 of 2
Thumbnail Image
Name:
Lopes_Infect.Genet.Evol._2013_post-print.pdf
Size:
1.33 MB
Format:
Adobe Portable Document Format
Description:
main article
Download
Thumbnail Image
Name:
Lopes_Infect.Genet.Evol._2013_SM._post-print.pdf
Size:
594.38 KB
Format:
Adobe Portable Document Format
Description:
supplementary materials
Download
License bundle
Now showing 1 - 1 of 1
No Thumbnail Available
Name:
license.txt
Size:
1.71 KB
Format:
Item-specific license agreed upon to submission
Description:
Download

Collections

DG - Artigos em revistas científicas