Fig. 8: Assessment of allele-based clustering at all possible threshold levels for C. jejuni and comparison with traditional MLST. | Nature Communications

Fig. 8: Assessment of allele-based clustering at all possible threshold levels for C. jejuni and comparison with traditional MLST.

From: Multi-country and intersectoral assessment of cluster congruence between pipelines for genomics surveillance of foodborne pathogens

Fig. 8

a Composition of the C. jejuni dataset used in this study in terms of CC and in comparison with the composition of the INNUENDO22 dataset and the PubMLST database, as of November 202123. A GrapeTree59 visualization of the MST obtained with the INNUENDO-like-PubMLST pipeline is shown. Nodes (i.e., samples) are collapsed at the threshold with highest congruence with CC (839 ADs for this pipeline) and colored according to the ST classification. b Number of partitions obtained by each pipeline at each possible distance threshold. c Clustering stability regions determined for each pipeline. To better distinguish each region (represented by separated rectangle blocks), different blocks are vertically phased, starting in a different line. Distance thresholds (x axis) are presented in log2 scale. d Barplot (top) with the number of samples of the top represented CCs (≥50 samples) in C. jejuni dataset, with a swarmplot (bottom) indicating the AD threshold at which each pipeline clusters together all samples of each CC. Source data are provided as a Source Data file.

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