Fig 3. Dynamics of gene expression during infection.

Heatmap representation of gene expression (log₂(FPKMs)) for A) genes involved in antibiotic resistance over the time course of infection. This includes drug resistance enzymes, β-Lactamase encoding genes and drug efflux pump encoding genes. Genes are clustered according to the annotation class shown on the left. B) gene expression (log₂(FPKMs)) pattern for genes putatively associated with virulence in K. pneumoniae. Genes are clustered according the annotation class shown on the left. For panel B of the heat map, a list of gene names in the order in which they appear is provided in S1 Table.