The primary transcriptome of intra-macrophage <i>Salmonella</i>.

<p>(A) Classification of 3583 <i>Salmonella</i> TSS during intra-macrophage proliferation (Dataset 3 in <a href="http://www.plospathogens.org/article/info:doi/10.1371/journal.ppat.1005262#ppat.1005262.s003" target="_blank">S1 Table</a>). The TSS were categorized based on their relative-PUV, macrophage versus ESP (Materials and Methods). The red and blue circles represent the TSS that are up/down-regulated in the <i>∆ssrA</i> versus InSPI2 experiment, respectively (B) The STM0854 TSS (indicated by the dotted vertical line) is a representative of a TSS highly up-regulated in macrophages. Each horizontal arrow represents the gene in scale with the whole island. Each coloured track above the island represents RNA-seq/dRNA-seq reads mapped against the genome in the corresponding conditions, visualized in the IGB browser. Each curved arrow indicates the location of a TSS; the width and height of each curved arrow is proportional to the TSS expression, based on relative PUV, macrophage versus ESP (Dataset 3 in <a href="http://www.plospathogens.org/article/info:doi/10.1371/journal.ppat.1005262#ppat.1005262.s003" target="_blank">S1 Table</a>) (Materials and Methods).