Fig. 1: Phylogenomic analysis of the GEMS non-DEC fecal isolates. | Nature Communications

Fig. 1: Phylogenomic analysis of the GEMS non-DEC fecal isolates.

From: Genomic diversity of non-diarrheagenic fecal Escherichia coli from children in sub-Saharan Africa and south Asia and their relatedness to diarrheagenic E. coli

Fig. 1

a Phylogenomic analysis of the 294 GEMS non-DEC genomes and 154 previously characterized reference genomes representing the different E. coli pathotypes, Shigella species, and cryptic Escherichia lineage I (Supplementary Data Set 1). The E. coli phylogroups (A, B1, B2, C, D, E, F, and G) and Escherichia cryptic clade I are indicated by clade colors (see inset legend). Squares and circles next to each isolate label indicate the disease association (case vs. control) and geographic ___location (countries). Triangles indicate the E. coli pathotype or Shigella species of each reference genome while white (“None”) indicates ‘commensals’ or other isolates that were not identified to one of the E. coli pathotypes. See inset figure legend for the specific color associations. b Percentage of GEMS non-DEC fecal isolates identified in each of the E. coli phylogroups, represented overall and by continent. c Percentage of GEMS non-DEC fecal isolates from different GEMS sites identified in each of the E. coli phylogroups. The inset legend indicates the color of each E. coli phylogroup, as well as cryptic lineage I (gray), and genomes that were outside of the designated phylogroups (white). The counts and percentages of GEMS non-DEC fecal isolates in each phylogroup are provided in Supplementary Data Set 2.

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