Whole genome sequencing and bioinformatics analysis of Salmonella enteritidis strains isolated in the pre and post-pandemic period in Brazil

• Grant number: 16/05817-3
• Support Opportunities: Scholarships abroad - Research Internship - Post-doctor
• Start date: November 01, 2016
• End date: October 31, 2017
• Field of knowledge: Biological Sciences - Microbiology - Biology and Physiology of Microorganisms
• Principal Investigator: Juliana Pfrimer Falcão
• Grantee: Fábio Campioni
• Supervisor: Marc William Allard
• Host Institution: Faculdade de Ciências Farmacêuticas de Ribeirão Preto (FCFRP). Universidade de São Paulo (USP). Ribeirão Preto , SP, Brazil
• Institution abroad: U.S. Food and Drug Administration (FDA), United States
• Associated to the scholarship: 13/25191-3 - Phenotypical analysis and transcriptome and genome sequencing in Salmonella Enteritidis strains isolated in the pre and post-pandemic period in Brazil, BP.PD

Abstract

The disease caused Salmonella is one of the major health problems worldwide in terms of morbidity and mortality. Among Salmonella enterica serovars, the Enteritidis (S. Enteritidis) comprises strains that have the ability to colonize the reproductive tract of chickens and to contaminate egg compounds, which enabled S. Enteritidis to become the most common Salmonella serovar causing human diseases. Despite uncertain, it is believed that an epidemic and more virulent clone had been inserted in Brazil by the commercial trade of chickens with other countries. This project aims to analyze comparatively by whole genome sequencing, the genomes of Salmonella Enteritidis strains isolated over 45 years in Brazil, including strains isolated in the pre and post-pandemic period in Brazil. For this, it will be studied 208 S. Enteritidis strains, being 24 isolated in the pre-pandemic period (1968-1992) and 184 strains isolated in the post-pandemic period (1993-2013) in several places of Brazil. All the 208 S. Enteritidis strains will have their whole genome sequenced using the Nextseq - Illumina equipment during the training in Food and Drugs Administration (FDA) under supervision of Dr. Marc Allard and, bioinformatic data analysis will be performed under the supervision of Dr. Daniel Janies from the University of North Caroline. Together, the results will contribute for a better characterization of S. Enteritidis, as well as will provide information about possible genomic differences between strains isolated in the pre and post-pandemic period in Brazil. Moreover, the results will possibly collaborate with the elucidation of the reasons of the beginning of the pandemic in Brazil, as well as, may provide evidences that will help to explain the emergency of this serovar as the most isolated one worldwide. (AU)

Scientific publications

(8)

(References retrieved automatically from Web of Science and SciELO through information on FAPESP grants and their corresponding numbers as mentioned in the publications by the authors)

CAMPIONI, FABIO; VILELA, FELIPE PINHEIRO; CAO, GUOJIE; KASTANIS, GEORGE; MILLER, DANIELA; LEON, MARIA SANCHEZ; TIBA-CASAS, MONIQUE RIBEIRO; FERNANDES, SUELI APARECIDA; RODRIGUES, DANA DOS PRAZERES; COSTA, RENATA GARCIA; et al. Draft Genome Sequences of 112 Salmonella enterica Serovar Dublin Strains Isolated from Humans and Animals in Brazil. MICROBIOLOGY RESOURCE ANNOUNCEMENTS, v. 6, n. 24, JUN 2018. (17/05756-7, 16/05817-3, 15/10818-6, 16/24716-3, 13/25191-3)

CAMPIONI, FABIO; CAO, GUOJIE; KASTANIS, GEORGE; LEON, MARIA SANCHEZ; MORATO BERGAMINI, ALZIRA MARIA; RODRIGUES, DALIA DOS PRAZERES; ALLARD, MARC WILLIAM; FALCAO, JULIANA PFRIMER. Draft Genome Sequences of 256 Salmonella enterica subsp. enterica Serovar Enteritidis Strains Isolated from Humans, Food, Chickens, and Farm Environments in Brazil. MICROBIOLOGY RESOURCE ANNOUNCEMENTS, v. 5, n. 28, JUL 2017. (16/05817-3, 12/19132-1, 13/25191-3)

MARTINS IMORI, PRISCILLA FERNANDA; CAMPIONI, FABIO; CAO, GUOJIE; KASTANIS, GEORGE; LEON, MARIA SANCHEZ; ALLARD, MARC WILLIAM; FALCAO, JULIANA PFRIMER. Draft Genome Sequences of Yersinia frederiksenii, Yersinia intermedia, and Yersinia kristensenii Strains from Brazil. GENOME ANNOUNCEMENTS, v. 5, n. 32, p. 2-pg., 2017-08-01. (13/25191-3, 16/24716-3, 16/05817-3)

CAMPIONI, FABIO; VILELA, FELIPE PINHEIRO; CAO, GUOJIE; KASTANIS, GEORGE; MILLER, DANIELA; LEON, MARIA SANCHEZ; TIBA-CASAS, MONIQUE RIBEIRO; FERNANDES, SUELI APARECIDA; RODRIGUES, DANA DOS PRAZERES; COSTA, RENATA GARCIA; et al. Draft Genome Sequences of 112 Salmonella enterica Serovar Dublin Strains Isolated from Humans and Animals in Brazil. GENOME ANNOUNCEMENTS, v. 6, n. 24, p. 4-pg., 2018-06-01. (17/05756-7, 15/10818-6, 16/24716-3, 16/05817-3, 13/25191-3)

MARTINS IMORI, PRISCILLA FERNANDA; CAMPIONI, FABIO; CAO, GUOJIE; KASTANIS, GEORGE; LEON, MARIA SANCHEZ; ALLARD, MARC WILLIAM; FALCAO, JULIANA PFRIMER. Draft Genome Sequences of Yersinia frederiksenii, Yersinia intermedia, and Yersinia kristensenii Strains from Brazil. MICROBIOLOGY RESOURCE ANNOUNCEMENTS, v. 5, n. 32, AUG 2017. (16/05817-3, 16/24716-3, 13/25191-3)

CAMPIONI, FABIO; VILELA, FELIPE PINHEIRO; CAO, GUOJIE; KASTANIS, GEORGE; RODRIGUES, DALIA DOS PRAZERES; COSTA, RENATA GARCIA; TIBA-CASAS, MONIQUE RIBEIRO; YIN, LANLAN; ALLARD, MARC; FALCAO, JULIANA PFRIMER. Whole genome sequencing analyses revealed that Salmonella enterica serovar Dublin strains from Brazil belonged to two predominant clades. SCIENTIFIC REPORTS, v. 12, n. 1, p. 6-pg., 2022-06-22. (16/05817-3, 16/24716-3, 13/25191-3, 19/19338-8)

CAMPIONI, FABIO; CAO, GUOJIE; KASTANIS, GEORGE; JANIES, DANIEL A.; MORATO BERGAMINI, ALZIRA MARIA; RODRIGUES, DALIA DOS PRAZERES; STONES, ROBERT; BROWN, ERIC; ALLARD, MARC W.; FALCAO, JULIANA PFRIMER. Changing of the Genomic Pattern of Salmonella Enteritidis Strains Isolated in Brazil Over a 48 year-period revealed by Whole Genome SNP Analyses. SCIENTIFIC REPORTS, v. 8, JUL 11 2018. (14/13029-0, 16/05817-3, 13/25191-3)

CAMPIONI, FABIO; CAO, GUOJIE; KASTANIS, GEORGE; LEON, MARIA SANCHEZ; MORATO BERGAMINI, ALZIRA MARIA; RODRIGUES, DALIA DOS PRAZERES; ALLARD, MARC WILLIAM; FALCAO, JULIANA PFRIMER. Draft Genome Sequences of 256 Salmonella enterica subsp. enterica Serovar Enteritidis Strains Isolated from Humans, Food, Chickens, and Farm Environments in Brazil. GENOME ANNOUNCEMENTS, v. 5, n. 28, p. 6-pg., 2017-07-01. (12/19132-1, 13/25191-3, 16/05817-3)