Expression of urease is essential for gastric colonization by Helicobacter pylori. The increased level of urease in gastric acidity is due, in part, to acid activation of the two-component system (TCS) consisting of the membrane sensor HP0165 and its response regulator, HP0166, which regulates transcription of the seven genes of the urease gene cluster. We now find that there are two major ureAB transcripts: a 2.7-kb full-length ureAB transcript and a 1.4-kb truncated transcript lacking 3 ureB. Acidic pH (pH 4.5) results in a significant increase in transcription of ureAB, while neutral pH (pH 7.4) increases the truncated 1.4-kb transcript. Northern blot analysis with sense RNA and strand-specific oligonucleotide probes followed by 5 rapid amplification of cDNA ends detects an antisense small RNA (sRNA) encoded by the 5 ureB noncoding strand consisting of ϳ290 nucleotides (5ureB-sRNA). Deletion of HP0165 elevates the level of the truncated 1.4-kb transcript along with that of the 5ureB-sRNA at both pH 7.4 and pH 4.5. Overexpression of 5ureB-sRNA increases the 1.4-kb transcript, decreases the 2.7-kb transcript, and decreases urease activity. Electrophoretic mobility shift assay shows that unphosphorylated HP0166 binds specifically to the 5ureB-sRNA promoter. The ability of the HP0165-HP0166 TCS to both increase and decrease ureB expression at low and high pHs, respectively, facilitates gastric habitation and colonization over the wide range of intragastric pHs experienced by the organism.Colonization of healthy human and animal stomachs is a property of gastric Helicobacter species, including the human pathogen, Helicobacter pylori. H. pylori maintains a relatively neutral periplasmic pH in the face of a highly intragastric acidic environment, preserving cytoplasmic pH homeostasis and its proton motive force. This acid acclimation is distinct from the acid tolerance/resistance of other neutralophiles that transit but do not colonize the stomach (22,47,48). The most important component of acid acclimation is the nickel metaloenzyme urease, which generates the buffers NH 3 and HCO 3 Ϫ from the metabolism of ambient urea, maintaining both cytoplasmic and periplasmic pHs to enable the organism to survive and grow in the stomach. The organism expresses very high levels of the urease A and B subunits, more than any other known ureolytic microbe, accounting for as much as 8% of the total bacterial protein (34). The expression of active urease requires six of the seven genes of the urease gene cluster, ureA and ureB for the catalytic subunits and ureE, ureF, ureG, and ureH, necessary for nickel insertion into the apourease, UreA/ UreB. The third gene of the urease cluster, ureI, encodes a pH-gated urea channel that increases urea access to intrabacterial urease in acid (51, 71).