Phylogenetic analysis revealed that Salmonella Typhimurium ST313 isolated from humans and food in Brazil presented a high genomic similarity

Author(s)

Ap Seribelli, Amanda ^[1] ; Gonzales, Julia C. ^[1] ; de Almeida, Fernanda ^[1] ; Benevides, Leandro ^[2] ; Cazentini Medeiros, I, Marta ; Rodrigues, Dalia dos Prazeres ^[3] ; Soares, Siomar de C. ^[4] ; Allard, Marc W. ^[5] ; Falcao, Juliana P. ^[1]

Affiliation

^[1] Univ Sao Paulo, Fac Ciencias Farmaceut Ribeirao Preto, Dept Anal Clin Toxicol & Bromatol, Av Cafe, S-N Campus Univ USP, BR-14040903 Ribeirao Preto, SP - Brazil

^[2] Natl Lab Sci Computat LNCC, Petropolis, RJ - Brazil

^[3] Fundacao Inst Oswaldo Cruz FIOCRUZ, Rio De Janeiro - Brazil

^[4] Univ Fed Triangulo Mineiro, Uberaba, MG - Brazil

^[5] US FDA, College Pk, MA - USA

• Document type: Journal article
• Source: Brazilian Journal of Microbiology; v. 51, n. 1, p. 53-64, MAR 2020.
• Web of Science Citations: 1

Abstract

Salmonella Typhimurium sequence type 313 (S. Typhimurium ST313) has caused invasive disease mainly in sub-Saharan Africa. In Brazil, ST313 strains have been recently described, and there is a lack of studies that assessed by whole genome sequencing (WGS)-the relationship of these strains. The aims of this work were to study the phylogenetic relationship of 70 S. Typhimurium genomes comparing strains of ST313 (n = 9) isolated from humans and food in Brazil among themselves, with other STs isolated in this country (n = 31) and in other parts of the globe (n = 30) by 16S rRNA sequences, the Gegenees software, whole genome multilocus sequence typing (wgMLST), and average nucleotide identity (ANI) for the genomes of ST313. Additionally, pangenome analysis was performed to verify the heterogeneity of these genomes. The phylogenetic analyses showed that the ST313 genomes were very similar among themselves. However, the ST313 genomes were usually clustered more distantly to other STs of strains isolated in Brazil and in other parts of the world. By pangenome calculation, the core genome was 2,880 CDSs and 4,171 CDSs singletons for all the 70 S. Typhimurium genomes studied. Considering the 10 ST313 genomes analyzed the core genome was 4,112 CDSs and 76 CDSs singletons. In conclusion, the ST313 genomes from Brazil showed a high similarity among them which information might eventually help in the development of vaccines and antibiotics. The pangenome analysis showed that the S. Typhimurium genomes studied presented an open pangenome, but specifically tending to become close for the ST313 strains. (AU)

• FAPESP's process: 16/24716-3 - Sequencing of the Genome, transcriptoma and phenotypic analysis of Campylobacter coli strains isolated from different sources in Brazil
• Grantee: Juliana Pfrimer Falcão
• Support Opportunities: Regular Research Grants
• FAPESP's process: 17/06633-6 - Comparative analysis of the genome, transcriptome and phenotypic characterization of Salmonella typhimurium strains isolated from humans and food in Brazil
• Grantee: Amanda Aparecida Seribelli
• Support Opportunities: Scholarships in Brazil - Doctorate