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. 2020 Nov 18;9(1):10.1128/ecosalplus.ESP-0026-2019. doi: 10.1128/ecosalplus.esp-0026-2019

Figure 4.

Figure 4

Replicon representation in ExPEC whole genomic shotgun sequences reported by the University of Washington (105). Only 233 of the reported sequences were included in this analysis because of strict quality control standards. (A) Pie chart representation of the replicons identified. The replicons are ordered clockwise from most to least abundant: IncF (n = 180), IncI complex (n = 44), ColE (n = 14), IncY (n = 13), IncN (n = 8), IncP (n = 8), IncAC (n = 2), IncR (n = 2), and incL/M (n = 1). IncF denotes the presence of at least one of the following replicons: IncFIA, IncFIB, IncFII, or IncFrepB. The Inc-I complex includes IncI1 (n = 17), IncK (n = 17), and IncBO (n = 10). Note that the number of replicons (n = 272) is greater than the number of samples included (n = 233) because, often, multiple replicons can be found in the same sample. (B) Representation of IncF replicons, which are largely mosaic combinations of IncFIA, IncFIB, IncFII, or IncFrepB. Again, these replicons are ordered clockwise from most to least abundant: IB II repB (49.4%), IA IB II repB (22.8%), IA II repB (8.3%), II repB (6.7%), IA IB (5.6%), IA IB repB (2.2%), IA (1.7%), IB repB (1.1%), repB (1.1%), IA repB (0.6%), and IB (0.6%). Note that these combinations may be found in different plasmids; we are only showing combinations present in the same cell. Note also that we are observing a rapid sequence divergence for IncFII replicons (not shown). Therefore, frequently, IncFII may not have been an exact match for our diagnostic sequence, producing false negatives.