Fig. 2: The distribution of invasive S. Typhimurium clade ST313-L2 in Africa. | Nature Communications

Fig. 2: The distribution of invasive S. Typhimurium clade ST313-L2 in Africa.

From: A genomic appraisal of invasive Salmonella Typhimurium and associated antibiotic resistance in sub-Saharan Africa

Fig. 2

a Maximum likelihood phylogenetic tree of ST313-L2 isolates, based on mapping to reference strain D23580 (highlighted in blue in the phylogeny). The tree is based on 5380 chromosomal SNPs. The tree is rooted with S. Typhimurium strain DT2B, a European ST313 strain. Branches are coloured by the country of isolation. ST313-L2 subclades as identified in this study are coloured in the outher circle. Subclade 3 confers with the previously called ST313 sublineage II.1, and reference isolate 10433_3 is highlighted in blue10. Metadata are visualised on the concentric rings in compliance to the legend, from the inside to outside; (1) Country of origin, (2–4) antimicrobial resistance markers associated with XDR and PDR outbreaks (ESBL, azithromycin resistance and the GyrA S83Y mutation associated with decreased susceptibility to ciprofloxacin). (5) ST313-L2 subclades. Branch lengths represent the number of SNPs as indicated in the scale bar. b Distribution ST313-L2 subclades per country. Bar charts show the number of isolates per subclade coloured by the country of isolation.

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