Miriam R Fernandes1, Fábio P Sellera2, Quézia Moura3, Tiago A Souza4, Nilton Lincopan5. 1. Department of Clinical Analysis, Faculty of Pharmaceutical Sciences, University of São Paulo, São Paulo, Brazil. Electronic address: miriamrfernandes@usp.br. 2. Department of Internal Medicine, School of Veterinary Medicine and Animal Science, University of São Paulo, São Paulo, Brazil. 3. Department of Microbiology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, Brazil. 4. Genome Investigation and Analysis Laboratory (GENIAL), Institute of Biomedical Sciences, University of São Paulo, São Paulo, Brazil. 5. Department of Internal Medicine, School of Veterinary Medicine and Animal Science, University of São Paulo, São Paulo, Brazil; Department of Microbiology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, Brazil. Electronic address: lincopan@usp.br.
Abstract
OBJECTIVES: Asymptomatic carriers can act as reservoirs of multidrug-resistant (MDR) bacteria. The aim of this study was to describe the draft genome sequence of a MDR Escherichia coli lineage recovered from a faecal sample of a healthy carrier. METHODS: Genomic DNA was sequenced on an Illumina NextSeq platform. Sequence reads were de novo assembled using CLC Genomics Workbench and the whole genome sequence was evaluated through bioinformatics tools available from the Center of Genomic Epidemiology as well as additional in silico analysis. RESULTS: The genome size was calculated as 5178340 bp, with 5442 protein-coding sequences and 5492 total genes. Presence of the blaCTX-M-8, blaCTX-M-55 and fosA3 genes was detected in addition to other antimicrobial resistance genes. Interestingly, the strain was assigned to serotype O8:H4-fimH97 and was classified within the highly virulent phylogroup B2. CONCLUSION: This draft genome can provide helpful information to elucidate genetic features that contribute to colonisation and adaptation of MDR and virulent pathogens in asymptomatic carriers.
OBJECTIVES: Asymptomatic carriers can act as reservoirs of multidrug-resistant (MDR) bacteria. The aim of this study was to describe the draft genome sequence of a MDR Escherichia coli lineage recovered from a faecal sample of a healthy carrier. METHODS: Genomic DNA was sequenced on an Illumina NextSeq platform. Sequence reads were de novo assembled using CLC Genomics Workbench and the whole genome sequence was evaluated through bioinformatics tools available from the Center of Genomic Epidemiology as well as additional in silico analysis. RESULTS: The genome size was calculated as 5178340 bp, with 5442 protein-coding sequences and 5492 total genes. Presence of the blaCTX-M-8, blaCTX-M-55 and fosA3 genes was detected in addition to other antimicrobial resistance genes. Interestingly, the strain was assigned to serotype O8:H4-fimH97 and was classified within the highly virulent phylogroup B2. CONCLUSION: This draft genome can provide helpful information to elucidate genetic features that contribute to colonisation and adaptation of MDR and virulent pathogens in asymptomatic carriers.
Authors: Max L Cummins; Cameron J Reid; Piklu Roy Chowdhury; Rhys N Bushell; Nicolas Esbert; Kelly A Tivendale; Amir H Noormohammadi; Shaiful Islam; Marc S Marenda; Glenn F Browning; Philip F Markham; Steven P Djordjevic Journal: Microb Genom Date: 2019-01-23
Authors: Nadia Coppola; Bibiana Freire; Ana Umpiérrez; Nicolás F Cordeiro; Pablo Ávila; Gustavo Trenchi; Gustavo Castro; María Laura Casaux; Martín Fraga; Pablo Zunino; Inés Bado; Rafael Vignoli Journal: Front Vet Sci Date: 2020-11-19