Fig. 2: Core genome phylogenetic trees and admission timelines reveal relatedness across isolates. | Communications Biology

Fig. 2: Core genome phylogenetic trees and admission timelines reveal relatedness across isolates.

From: Comparative genomics of blood and faecal E. coli and K. pneumoniae isolates from neonates with bloodstream infections in Tanzania

Fig. 2

A Core genome phylogenetic tree of K. pneumoniae and E. coli isolates. The phylogenetic trees are based on SNPs derived from the core genome alignment of K. pneumoniae and E. coli isolates. The Klebsiella pneumoniae subsp. pneumoniae HS11286 genome (GCF_000240185.1) was used as a reference for Klebsiella pneumoniae isolates and the Escherichia coli str. K-12 substr. The MG1655 genome (GCF_000005845.2) was used as a reference for E. coli isolates. Branch lengths are representative of the number of SNPs between isolates. For the E. coli tree, FS2071 was removed to clearly visualise the relationship between the other paired isolates (shown in a black box). The coloured shapes indicate metadata such as species (green), sample type (brown/red) and hospital of origin (blue). MNH Muhimbili National Hospital. B Timelines from admission to discharge of neonatal patients in Temeke and Amana hospitals are represented by the start and end of the green lines in the timeline. MNH was excluded as only one patient was from this study site. The colours represent species consistent with the panel above.

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