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Publication Details
AFRICAN RESEARCH NEXUS
SHINING A SPOTLIGHT ON AFRICAN RESEARCH
SNP typing reveals similarity in Mycobacterium tuberculosis genetic diversity between Portugal and Northeast Brazil
Infection, Genetics and Evolution, Volume 18, Year 2013
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Description
Human 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. © 2013 Elsevier B.V.
Authors & Co-Authors
Lopes, Joao Sollari
Portugal, Oeiras
Instituto Gulbenkian de Ciência
Marques, Maria Isabel Martins
Portugal, Oeiras
Instituto Gulbenkian de Ciência
Nebenzahl-Guimarães, Hanna
Portugal, Oeiras
Instituto Gulbenkian de Ciência
Costa, João Pedro
Portugal, Oeiras
Instituto Gulbenkian de Ciência
Miranda, Anabela
Portugal, Porto
National Health Institute Doutor Ricardo Jorge Porto
Duarte, R. A.B.
Portugal, Vila Nova de Gaia
Centro Hospitalar de Vila Nova de Gaia
Portugal, Porto
Universidade do Porto
Alves, Adriana
Portugal, Porto
National Health Institute Doutor Ricardo Jorge Porto
MacEdo, Rita
Unknown Affiliation
Barbosa, Theolis
Brazil, Rio de Janeiro
Fundacao Oswaldo Cruz
Oliveira, Martha Maria
Brazil, Rio de Janeiro
Universidade Federal do Rio de Janeiro
Pereira, Susan Martins M.
Brazil, Salvador
Universidade Federal da Bahia
Barreto, Mauricio L.
Brazil, Salvador
Universidade Federal da Bahia
Gomes, M. Gabriela M.
Portugal, Oeiras
Instituto Gulbenkian de Ciência
Penha-Gonçalves, Carlos
Portugal, Oeiras
Instituto Gulbenkian de Ciência
Statistics
Citations: 17
Authors: 14
Affiliations: 7
Identifiers
Doi:
10.1016/j.meegid.2013.04.028
ISSN:
15677257
Research Areas
Genetics And Genomics
Study Design
Cross Sectional Study