Article Figures & Data
Figures
- FIG 1
Genomic analysis of mcr-1-carrying E. coli isolates in a single hospital system in Zhejiang Province, China. A maximum-likelihood phylogenetic tree was constructed using the core genome SNPs and midpoint rooted. Sources of the isolates are indicated by different colors for strain identification (ID) plus MLST (red, infectious sample of inpatient; green, feces of inpatient; black, feces of healthy volunteer). E. coli phylogroups are denoted by colored strips, and the branches of the tree are colored in correspondence to the coloring of the strips. The location of mcr-1 on a plasmid or chromosome (dark red) and the presence or absence of virulence genes (green) and antibiotic resistance genes (orange) are denoted by filled and empty squares, respectively. Only categories of the virulence genes and 9 clinically important antibiotic resistance genes are shown. Details of the genes in each category are given in Table S4 and S5.
- FIG 2
Schematic depiction of the prevalence of mcr-1 in various types of plasmids or on the chromosomes. The types of plasmids potentially carrying the mcr-1 gene were derived from the mcr-1-carrying contigs of each isolate. A colored circle represents a reference mcr-1-carrying plasmid of each type or the complete plasmid determined by SMRT sequencing in this study, and the size of the circle is proportional to that of the reference plasmid. Ten mcr-1-carrying plasmids whose replicons were not in the same contigs as mcr-1 are grouped in one box (Inc). mcr-1 is chromosome-borne in 7 isolates and plasmid-borne in 73 isolates (central pie chart). IncI2 and IncX4 are the major types of mcr-1-carrying plasmids. Isolates ZJ859 and ZJ1432 contained two mcr-1-carrying plasmids each. Thus, the total number of mcr-1-carrying plasmids is 75 in this study.
- FIG 3
The diverse genetic environments of mcr-1 in 80 E. coli isolates. In panels A to G, red fonts indicate isolates from inpatients with infections; green fonts denote isolates from feces of inpatients; and black fonts depict isolates from feces of healthy volunteers. APEC, avian pathogenic E. coli; ORF, open reading frame.
Supplemental Material
TABLE S1
The E. coli isolates in this study and their information from sequencing analysis. Download TABLE S1, XLSX file, 0.04 MB.
Copyright © 2018 Shen et al.
This content is distributed under the terms of the Creative Commons Attribution 4.0 International license.
TABLE S2
Clinical information on 80 E. coli isolates with the mcr-1 gene and the MICs of multiple antimicrobial agents. Download TABLE S2, XLSX file, 0.05 MB.
Copyright © 2018 Shen et al.
This content is distributed under the terms of the Creative Commons Attribution 4.0 International license.
TABLE S3
The assembly stats for the PacBio genomes. Download TABLE S3, XLSX file, 0.03 MB.
Copyright © 2018 Shen et al.
This content is distributed under the terms of the Creative Commons Attribution 4.0 International license.
TABLE S4
Characterization of virulence genes in 80 mcr-1-carrying E. coli isolates. Download TABLE S4, XLSX file, 0.1 MB.
Copyright © 2018 Shen et al.
This content is distributed under the terms of the Creative Commons Attribution 4.0 International license.
TABLE S5
Characterization of resistance genes in 80 mcr-1-carrying E. coli isolates. Download TABLE S5, XLSX file, 0.1 MB.
Copyright © 2018 Shen et al.
This content is distributed under the terms of the Creative Commons Attribution 4.0 International license.
TABLE S6
Allelic variations of seven mcr-1-carrying isolates. Download TABLE S6, XLSX file, 0.03 MB.
Copyright © 2018 Shen et al.
This content is distributed under the terms of the Creative Commons Attribution 4.0 International license.
