Figure 1

Circular maps that compare the genomes of nine L. monocytogenes LIII strains with that of a LII reference strain EGD-e ( A ) and a LI reference strain F2365 ( B ). The inner most circle is the reference genome. Core genes in the reference genome are shown blue and accessory genes are shown in yellow. From inside out, the second to the tenth circles represent the nine LIII genomes, including J2-071 (LIIIA), F2-501 (LIIIA), F2-504 (LIIIA), J1-208 (LIIIB), M1-002 (LIIIB), W1-111 (LIIIB), F2-208 (LIIIC), F2-569 (LIIIC), and W1-110 (LIIIC), respectively. Genes in LIII genomes are color-coded based on the PF values (see the reference bar). Green indicates a gene is absent (PF = 0) in a LIII genome; red indicates a gene is conserved (PF = 1) in a LIII genome at the corresponding location in the reference genome. The eleventh circle gives color-coded gene annotations in the reference genome based Clusters of Orthologous Groups of proteins (see the color codes at the bottom). The outer most circle provides relative genomic coordinates. Eight DDG clusters at similar genomic locations in EGD-e and F2365 are marked with letters A through H. Specifically: A, lmo0037-0041 (or lmof2365_0045-0050); B, lmo0357-0360 (or lmof2365_0377-0381); C, lmo0631-0633 (or lmof2365_0660-0662); D, lmo1030-1036 (or lmof2365_1051-1057); E, lmo2133-2138; F, lmo2732-2736 (or lmof2365_2719-2723); G, lmo2771-2773 (or lmof2365_2761-2763); and H, lmo2846-2851 (or lmof2365_2836-2841), respectively. The LII-specific comK prophage integration region was marked in the EGD-e genome (I). The figure was created using GenomeViz.