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. 2020 Dec 11;12(1):1851999. doi: 10.1080/19490976.2020.1851999

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© 2020 The Author(s). Published with license by Taylor & Francis Group, LLC.

This is an Open Access article distributed under the terms of the Creative Commons Attribution-NonCommercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

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Figure 2. — Whole genome sequencing identifies endogenous C. difficile as a novel, non-toxigenic clade 1 member

(a) Circos plots of CD196 and NTCD-035 chromosome contigs. From outside to inside, circles represent shared genes between isolates, unique genes to each isolate, GC skew, and GC content. Color of genes represents annotated gene COG function by Prokka. Grey region 10x zoomed in portion highlighting the region of pathogenicity locus and binary toxin genes. Genomes were rotated with respect to the origin of replication. (b) Phylogenetic analysis of core genes (c) and hierarchical clustering of the presence or absence of accessory genes of C. difficile isolates. (d) Hamming distance of the core genomes between selected C. difficile isolates. (e) Annotated segment of pathogenicity locus comparing distances between cdu1 and cdd2 genes in CD196, NTCD-035, and a similar phylogenetic isolate, CD105KSE2.