Genomic diversity of prevalent Staphylococcus epidermidis multidrug-resistant strains isolated from a Children’s Hospital in México City in an eight-years survey

PeerJ

article

Roberto Cabrera-Contreras¹  Rosa I. Santamaría²  Patricia Bustos²  Irma Martínez-Flores²  Enrique Meléndez-Herrada¹  Rubén Morelos-Ramírez¹  Martín Barbosa-Amezcua³  Vanessa González-Covarrubias³  Eugenia Silva-Herzog³  Xavier Soberón³  Víctor González² 

[1] Laboratorio de Patogenicidad Bacteriana, Departamento de Salud Pública, Facultad de Medicina, Universidad Nacional Autónoma de México;Centro de Ciencias Genómicas, Universidad Nacional Autónoma de México;Instituto Nacional de Medicina Genómica

关键词: Genomes;    Pangenome;    Prophages;    CRISPR;    Recombination;    Antibiotic resistance;    Insertion sequences;    Clonal structure;    Staphylococcus epidermidis;    prevalence;   

DOI  :  10.7717/peerj.8068

学科分类：社会科学、人文和艺术（综合）

来源: Inra

【 摘 要 】

Staphylococcus epidermidis is a human commensal and pathogen worldwide distributed. In this work, we surveyed for multi-resistant S. epidermidis strains in eight years at a children’s health-care unit in México City. Multidrug-resistant S. epidermidis were present in all years of the study, including resistance to methicillin, beta-lactams, fluoroquinolones, and macrolides. To understand the genetic basis of antibiotic resistance and its association with virulence and gene exchange, we sequenced the genomes of 17 S. epidermidis isolates. Whole-genome nucleotide identities between all the pairs of S. epidermidis strains were about 97% to 99%. We inferred a clonal structure and eight Multilocus Sequence Types (MLSTs) in the S. epidermidis sequenced collection. The profile of virulence includes genes involved in biofilm formation and phenol-soluble modulins (PSMs). Half of the S. epidermidis analyzed lacked the ica operon for biofilm formation. Likely, they are commensal S. epidermidis strains but multi-antibiotic resistant. Uneven distribution of insertion sequences, phages, and CRISPR-Cas immunity phage systems suggest frequent horizontal gene transfer. Rates of recombination between S. epidermidis strains were more prevalent than the mutation rate and affected the whole genome. Therefore, the multidrug resistance, independently of the pathogenic traits, might explain the persistence of specific highly adapted S. epidermidis clonal lineages in nosocomial settings.

【 授权许可】

CC BY