Skip to main content
. 2007 Apr 13;3(4):e53. doi: 10.1371/journal.pgen.0030053

Figure 2. Detailed View of a GC-Rich Island.

Figure 2

The chromosomal segment extends between positions 1.97 and 2.07 Mb on the H. arsenicoxydans chromosome. Frames display (from top to bottom): (1) %GC along this island; (2) annotated CDSs on the direct (D) and reverse (R) strand: arsIII gene cluster (six genes in red arrows), part of the clc element of plasmid (or phage) origin, initially described in Pseudomonas sp. strain B13 [22] (64 genes in light blue arrows), and phage-related function (DNA repair, integrase) associated with metabolic capabilities, such as formaldelyde oxidation (17 genes in light green arrows), small genes are represented by a line; (3) synteny maps, calculated on a set of selected genomes (RALME, Ralstonia metallidurans CH34; BURXE, Burkholderia xenovorans LB400; AZOSE, Azoarcus sp. EbN1; PSEF5, Pseudomonas fluorescens Pf-5; and XANAC, Xanthomonas campestris 85–10). A line contains the similarity results between H. arsenicoxydans and one given genome. A rectangle represents a putative ortholog between one CDS of the compared genome and the CDS of the H. arsenicoxydans genome opposite. When, for several CDSs colocalized on the H. arsenicoxydans genome, several colocalized orthologs have been identified in the compared genome, the rectangles will be of the same color. Otherwise, the rectangle is white. A group of rectangles of the same color therefore indicates the existence of a synteny between H. arsenicoxydans and the compared genome, using a gap parameters of five genes maximum [63]. Details on correspondences between genes in the synteny (Table S2) show that the light blue section of this island in H. arsenicoxydans is also found at the same chromosomal location in the compared genomes.