Distribution of motifs in different species. Searches for the indicated motifs were performed in five oomycetes (P. infestans, P. sojae, H. arabidopsidis, Py. ultimum, S. parasitica) and the diatom T. pseudonana, which is a more distant member of the Stramenopile kingdom. Bar graphs show the percent of promoters within each species that contain the motifs within 200 nt upstream of the start codon, corrected for false discovery rates. Values for INR+FPR, INR alone, and FPR alone are corrected to exclude overlap. The figure on the left is a neighbor-joining tree based on ribosomal RNA and internal transcribed spacer (ITS) sequences, which was developed from alignments using the implementation of MUSCLE within the SEAVIEW package . GenBank accession numbers for the sequences are (top to bottom) JF834688.1, HQ643349.1, JF975614.1, JQ898478.1, JX045933.1, and EF208790.1.
Roy et al. BMC Genomics 2013 14:106 doi:10.1186/1471-2164-14-106