Comparative genomics of pathogenic Escherichia coli - Escherichia coli: Pathotypes and Principles of Pathogenesis - page 27

FIGURE 2.1 A phylogenetic tree inferred from 2.5 Mb of genomic sequence conserved in all
isolates. The alignment was parsed from a Mugsy ( Angiuoli and Salzberg, 2011 ) whole genome
alignment of all genomes. A phylogeny was inferred on this concatenated alignment with FastTree2.
Boxes to the right of each genome indicate the corresponding pathotype.
Outbreaks of O157:H7 infection, such as the spinach-associated outbreak in
2006 have occurred in developed countries, including the United States ( Parker
et al., 2012 ). An analysis of 25 O157:H7 genomes associated with three food-
borne outbreak events identified 1225 single nucleotide polymorphisms (SNPs)
in this clonal expansion ( Eppinger et al., 2011 ). In fact, within the O157:H7