FIG. 3.

Schematic representation of the genomic organization of the target genes whose promoter region is bound by HP166. (A) The genome of H. pylori 26695 contains two operons comprising the paralogous ORFs HP1408 to HP1412 and HP427 to HP423. The H. pylori J99 operon JHP1300 to JHP1307 encodes orthologs of HP1408 to HP1412; however, the J99 orthologs of HP1409, HP1411, and HP1412 are split into two separate ORFs (JHP1301 and JHP1302, JHP1304 and JHP1305, and JHP1306 and JHP1307, respectively). The ORFs adjacent to the operons HP1408 to HP1412 and JHP1300 to JHP1307 (i.e., HP1413 and JHP1308) are orthologs. ORF JHP925 is an ortholog of HP1408 and HP427 and is preceded by a promoter region identical to the promoter region that precedes JHP1300. Paralogous and orthologous ORFs in the operons are indicated by dotted lines. (B) Members of the HP119 gene family (HP118, HP119, HP120, HP1187, and HP1188) are clustered at two loci in the genome of H. pylori 26695. The J99 orthologs (JHP113 and JHP110) are located at the corresponding loci in the J99 genome; i.e., HP1189 and JHP1114, HP1186 and JHP1112, HP121 and JHP111, and HP117 and JHP109 are orthologous genes. Promoters regulated by HP166 are indicated by arrows. Orthologous ORFs flanking the HP166 target operons and genes are indicated by identical shading. The organization of operons encoding ORFs orthologous to HP1408 to HP1412 in H. pylori G27 and P76 is similar to the organization in strain 26695. The precise numbers of copies and organization of orthologs of HP119 in H. pylori G27 and P76 are not known.