title: Epidemic population structure of extraintestinal pathogenic Escherichia coli determined by single nucleotide polymorphism pyrosequencing.
abstract: We have developed an MLST-based scheme for typing Escherichia coli isolates using pyrosequencing of single nucleotide polymorphic positions (SNP). The SNP sequences are converted into allelic patterns and analyzed using the same approach used for MLST analyses. We have tested the method in two unselected collections of clinical isolates of E. coli obtained from blood and urine cultures. The two collections had a similar structure, 25% of the profiles (representing 68% of the isolates) were common to both, and 62% of the profiles (nearly 20% of the isolates) were unique. The four major profiles accounted for 44% of the isolates, and among these the most frequent one was related to the pandemic ST131 clone. The method is easy to implement and might be useful for typing large microbial collections.
authors: Servicio de Microbiología, Hospital Universitario La Paz, IdiPAZ, Paseo de La Castellana, Madrid, Spain.
authors: Natalia
authors: N
authors: Fernández-Romero
authors: María Pilar
authors: MP
authors: Romero-Gómez
authors: María Rosa
authors: MR
authors: Gómez-Gil
authors: Jesús
authors: J
authors: Mingorance
mesh_terms: D015373:Bacterial Typing Techniques; D001483:Base Sequence; D017931:DNA Primers / Q000235:genetics; D004269:DNA, Bacterial / Q000235:genetics; D004926:Escherichia coli / Q000145:classification* / Q000235:genetics* / Q000302:isolation & purification / Q000472:pathogenicity; D004927:Escherichia coli Infections / Q000453:epidemiology / Q000382:microbiology; D006801:Humans; D017720:Molecular Epidemiology; D058885:Multilocus Sequence Typing; D020641:Polymorphism, Single Nucleotide; D014774:Virulence / Q000235:genetics
chemical_list: D017931:DNA Primers; D004269:DNA, Bacterial