1b, upper panel). Densitometry analysis of the levels of PCR products shows that wag31Mtb was expressed at PF-562271 a level 11-fold higher in H37Rv cells containing relMtb. As a control to ensure that equivalent amounts of cellular mRNA were subjected to reverse transcription, expression of a Rel-independent gene was examined. rRNA levels were not compared because rRNA is downregulated in the presence of Rel (Cashel et al., 1996). Instead, dnaJ-specific mRNA levels were compared between M. tuberculosis strains with and without relMtb (Fig. 1b, lower panel). dnaJ encodes for a chaperone-like protein (Yamada-Noda

et al., 2007). Our previous microarray studies showed that dnaJ is not differentially regulated by RelMtb in M. tuberculosis (Dahl et al., 2003), making the gene an appropriate control to ensure that equivalent levels of mRNA were harvested from H37Rv and H37RvΔrel cells. Collectively, these Western blot and RT-PCR analyses confirm that wag31Mtb is positively regulated by the stringent response in M. tuberculosis. The wag31Mtb gene

was further examined to see whether it was differentially regulated by 3-deazaneplanocin A research buy the stringent response in the surrogate mycobacterial host M. smegmatis. We previously inactivated the stringent response in M. smegmatis mc2155 to facilitate the study of M. tuberculosis genes suspected of being either positively or negatively regulated by Rel (Dahl et al., 2003, 2005). To determine whether the wag31Mtb gene was similarly regulated by the stringent response in M. smegmatis, the relative levels of Wag31Mtb

protein and wag31Mtb mRNA were examined in M. smegmatis ID-8 strains expressing the gene. Mycobacterium smegmatis strains containing either the vector pOLYG or pwag31Mtb were grown in Middlebrook 7H9 medium+hygromycin (50 μg mL−1) with shaking for 4 days with culture densities measured using a spectrophotometer. No differences were observed in the growth rates regardless of the strain or the presence of pwag31Mtb (data not shown). To examine gene expression, the levels of wag31Mtb protein and mRNA products were determined (Fig. 2). Densitometry readings of the Wag31Mtb-specific bands reveal a 1.4-fold increased level of this protein in M. smegmatis mc2155 cells compared with the isogenic ΔrelMsm strain. The anti-H37Rv polyclonal antibodies raised against M. tuberculosis cell lysates do not appear to recognize the Wag31 homolog in M. smegmatis, as evident by the absence of a corresponding 45 kDa band in cells containing the cloning vector pOLYG (Fig. 2a, lanes 1 and 2). The Wag31 proteins of M. tuberculosis and M. smegmatis share 79% identity and 87% similarity, and the essential wag31Msm gene can be successfully replaced by wag31Mtb (Mukherjee et al., 2009).