The nutritional alarmone (p)ppGpp also appears to play an important role in orchestrating an appropriate response to multiple environmental and physiologic inputs that S. mutans encounters in the oral cavity (Fig. 3). When limited for essential amino acids, bacteria accumulate (p)ppGpp by enzymatic phosphorylation of GDP and GTP, resulting in down-regulation of genes for macromolecular biosynthesis and up-regulation of genes for amino acid biosynthesis and stress tolerance. In Gram-positive bacteria (GPB), RelA is a bi-functional enzyme with potent (p)ppGpp-synthetic and -degradative activities. In S. mutans, RelA was shown to play major roles in the regulation of phenotypic traits that are required for establishment, persistence and survival (Lemos et al., 2004; Nascimento et al., 2008), further supporting an overlap between circuits that govern nutrient starvation, general stress tolerance and biofilm fomation. Until recently, RelA was considered the sole enzyme responsible for synthesis and degradation of (p)ppGpp in Gram-positive bacteria. However, our group recently identified two novel enzymes, designated RelP and RelQ, with (p)ppGpp-synthase activities in S. mutans that could be found in a number of related GPB (Lemos et al., 2007a). A relAPQ triple mutant was auxotrophic for the branched-chain amino acids (BCAA) leucine and valine, but not isoleucine, a phenotype that was directly related to CodY-dependent repression of genes involved in the synthesis of BCAA (Lemos et al., 2008). As mentioned above, RelP is co-transcribed with, and apparently regulated by, the RelRS TCS (Lemos et al., 2007a) suggesting that S. mutans may use environmental signals to optimize cell growth and survival in a manner that allows the organism to balance growth during dietary intake by the host with the capacity to rapidly mount an adaptive response during fasting periods. Consistent with the role of (p)ppGpp in bacteria, homologues of RelRS in S. pyogenes, designated SptRS, were shown to be critical for this bacterium to survive in saliva (Shelburne et al., 2005).