Multiomics Assessment of Gene Expression in a Clinical Strain of CTX-M-15-Producing ST131 Escherichia coli

Frontiers in Microbiology

João P. Gomes¹  Vítor Borges¹  José E. Pereira²  Concha Gil³  Júlio D. Nunes-Miranda⁵  Patrícia Poeta⁶  Hugo M. Santos⁶  Gilberto Igrejas⁶  Luís Vieira⁷  Catarina Silva⁷  Luís Pinto⁸  Carmen Torres⁹ 

[1] Bioinformatics Unit, Department of Infectious Diseases, National Institute of Health, Lisbon, Portugal;CECAV, Centro de Ciência Animal e Veterinária, Universidade de Trás-os-Montes e Alto Douro, Vila Real, Portugal;Departamento de Microbiologia II, Facultad de Farmacia, Universidad Complutense de Madrid, Madrid, Spain;Department of Genetics and Biotechnology, School of Life and Environment Sciences, University of Trás-os-Montes and Alto Douro, Vila Real, Portugal;Functional Genomics and Proteomics Unit, School of Life and Environment Sciences, University of Trás-os-Montes and Alto Douro, Vila Real, Portugal;LAQV-REQUIMTE, Faculty of Science and Technology, Nova University of Lisbon, Lisbon, Portugal;Technology and Innovation Unit, Department of Human Genetics, National Institute of Health, Lisbon, Portugal;Veterinary Science Department, University of Trás-os-Montes and Alto Douro, Vila Real, Portugal;Área de Bioquímica y Biología Molecular, Universidad de La Rioja, Logroño, Spain;

关键词: bacteria;    antimicrobial resistance;    public health;    genomics;    transcriptomics;    proteomics;   

DOI  :  10.3389/fmicb.2019.00831

来源: DOAJ

【 摘 要 】

Extended-spectrum beta-lactamase (ESBL)-producing Escherichia coli strain C999 was isolated of a Spanish patient with urinary tract infection. Previous genotyping indicated that this strain presented a multidrug-resistance phenotype and carried beta-lactamase genes encoding CTX-M-15, TEM-1, and OXA-1 enzymes. The whole-cell proteome, and the membrane, cytoplasmic, periplasmic and extracellular sub-proteomes of C999 were obtained in this work by two-dimensional gel electrophoresis (2DE) followed by fingerprint sequencing through matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF/MS). A total of 602 proteins were identified in the different cell fractions, several of which are related to stress response systems, cellular responses, and antibiotic and drug responses, consistent with the multidrug-resistance phenotype. In parallel, whole genome sequencing (WGS) and RNA sequencing (RNA-Seq) was done to identify and quantify the genes present and expressing. The in silico prediction following WGS confirmed our strain as being serotype O25:H4 and sequence type ST131. The presence of proteins related to antibiotic resistance and virulence in an O25:H4-ST131 E. coli clone are serious indicators of the continued threat of antibiotic resistance spread amongst healthcare institutions. On a positive note, a multiomics approach can facilitate surveillance and more detailed characterization of virulent bacterial clones from hospital environments.

【 授权许可】

Unknown