Deciphering the interplay between two independent functions of the small RNA regulator SgrS in Salmonella

Journal of Bacteriology

Volumn 195, Issue 20, 2013, Pages 4620-4630

  Balasubramanian, Divya ^a   Vanderpool, Carin K ^a  

^a UNIVERSITY OF ILLINOIS AT URBANA CHAMPAIGN   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL RNA; MESSENGER RNA; PROTEIN SGRS; UNCLASSIFIED DRUG;

ALLELE; ARTICLE; BACTERIAL GROWTH; BASE PAIRING; GENE MUTATION; GENE OVEREXPRESSION; GENE REPRESSION; NONHUMAN; OPEN READING FRAME; PRIORITY JOURNAL; RNA TRANSLATION; SALMONELLA TYPHIMURIUM; START CODON; SUGAR TRANSPORT; TRANSLATION INITIATION;

AMINO ACID SEQUENCE; BACTERIAL PROTEINS; BASE SEQUENCE; GENE EXPRESSION REGULATION, BACTERIAL; MOLECULAR SEQUENCE DATA; MUTATION; RNA, BACTERIAL; SALMONELLA TYPHIMURIUM;

EID: 84885442739     PISSN: 00219193     EISSN: 10985530     Source Type: Journal    
DOI: 10.1128/JB.00586-13     Document Type: Article

References (37)

1. Vanderpool C, Balasubramanian D, Lloyd C. 2011. Dual-function RNA regulators in bacteria. Biochimie 93:1943-1949.
2. Storz G, Vogel J, Wassarman KM. 2011. Regulation by small RNAs in bacteria: expanding frontiers. Mol. Cell 43:880-891.
3. Repoila F, Darfeuille F. 2009. Small regulatory non-coding RNAs in bacteria: physiology and mechanistic aspects. Biol. Cell 101:117-131.
4. Vanderpool CK, Gottesman S. 2004. Involvement of a novel transcriptional activator and small RNA in post-transcriptional regulation of the glucose phosphoenolpyruvate phosphotransferase system. Mol. Microbiol. 54:1076-1089.
5. Vanderpool CK. 2007. Physiological consequences of small RNAmediated regulation of glucose-phosphate stress. Curr. Opin. Microbiol. 10:146-151.
6. Richards GR, Vanderpool CK. 2012. Induction of the Pho regulon suppresses the growth defect of an Escherichia coli sgrS mutant, connecting phosphate metabolism to the glucose-phosphate stress response. J. Bacteriol. 194:2520-2530.
7. Wadler CS, Vanderpool CK. 2007. A dual function for a bacterial small RNA: SgrS. Proc. Natl. Acad. Sci. U. S. A. 104:20454-20459.
8. Morita T, Maki K, Yagi M, Aiba H. 2008. Analyses of mRNA destabilization and translational inhibition mediated by Hfq-binding small RNAs. Methods Enzymol. 447:359-378.
9. Rice JB, Vanderpool CK. 2011. The small RNA SgrS controls sugarphosphate accumulation by regulating multiple PTS genes. Nucleic Acids Res. 39:3806-3819.
10. Papenfort K, Sun Y, Miyakoshi M, Vanderpool CK, Vogel J. 2013. Small RNA-mediated activation of sugar phosphatase mRNA regulates glucose homeostasis. Cell 153:426-437.
11. Morita T, Aiba H. 2011. RNase E action at a distance: degradation of target mRNAs mediated by an Hfq-binding small RNA in bacteria. Genes Dev. 25:294-298.
12. Kawamoto H, Koide Y, Morita T, Aiba H. 2006. Base-pairing requirement for RNA silencing by a bacterial small RNA and acceleration of duplex formation by Hfq. Mol. Microbiol. 61:1013-1022.
13. Vogel J, Luisi BF. 2011. Hfq and its constellation of RNA. Nat. Rev. Microbiol. 9:578-589.
14. Wadler CS, Vanderpool CK. 2009. Characterization of homologs of the small RNA SgrS reveals diversity in function. Nucleic Acids Res. 37:5477-5485.
15. Papenfort K, Podkaminski D, Hinton JC, Vogel J. 2012. The ancestral SgrS RNA discriminates horizontally acquired Salmonella mRNAs through a single G-U wobble pair. Proc. Natl. Acad. Sci. U. S. A. 109:E757-E764.
16. Morita T, Maki K, Aiba H. 2005. RNase E-based ribonucleoprotein complexes: mechanical basis of mRNA destabilization mediated by bacterial noncoding RNAs. Genes Dev. 19:2176-2186.
17. Lutz R, Bujard H. 1997. Independent and tight regulation of transcriptional units in Escherichia coli via the LacR/O, the TetR/O and AraC/I1-I2 regulatory elements. Nucleic Acids Res. 25:1203-1210.
18. Levine E, Zhang Z, Kuhlman T, Hwa T. 2007. Quantitative characteristics of gene regulation by small RNA. PLoS Biol. 5:e229.
19. Urban JH, Vogel J. 2007. Translational control and target recognition by Escherichia coli small RNAs in vivo. Nucleic Acids Res. 35:1018-1037.
20. Massé E, Escorcia FE, Gottesman S. 2003. Coupled degradation of a small regulatory RNA and its mRNA targets in Escherichia coli. Genes Dev. 17:2374-2383.
21. Ellermeier CD, Janakiraman A, Slauch JM. 2002. Construction of targeted single copy lac fusions using lambda Red and FLP-mediated sitespecific recombination in bacteria. Gene 290:153-161.
22. Miller JH. 1972. Experiments in molecular genetics. Cold Spring Harbor Laboratory, Cold Spring Harbor, NY.
23. Aiba H, Adhya S, de Crombrugghe B. 1981. Evidence for two functional gal promoters in intact Escherichia coli cells. J. Biol. Chem. 256:11905-11910.
24. Majdalani N, Chen S, Murrow J, St John K, Gottesman S. 2001. Regulation of RpoS by a novel small RNA: the characterization of RprA. Mol. Microbiol. 39:1382-1394.
25. Alexeeva EV, Shpanchenko OV, Dontsova OA, Bogdanov AA, Nierhaus KH. 1996. Interaction of mRNA with the Escherichia coli ribosome: accessibility of phosphorothioate-containing mRNA bound to ribosomes for iodine cleavage. Nucleic Acids Res. 24:2228-2235.
26. Beyer D, Skripkin E, Wadzack J, Nierhaus KH. 1994. How the ribosome moves along the mRNA during protein synthesis. J. Biol. Chem. 269: 30713-30717.
27. Lopez PJ, Marchand I, Joyce SA, Dreyfus M. 1999. The C-terminal half of RNase E, which organizes the Escherichia coli degradosome, participates in mRNA degradation but not rRNA processing in vivo. Mol. Microbiol. 33:188-199.
28. Rice JB, Balasubramanian D, Vanderpool CK. 2012. Small RNA binding-site multiplicity involved in translational regulation of a polycistronic mRNA. Proc. Natl. Acad. Sci. U. S. A. 109:E2691-E2698.
29. Maki K, Uno K, Morita T, Aiba H. 2008. RNA, but not protein partners, is directly responsible for translational silencing by a bacterial Hfqbinding small RNA. Proc. Natl. Acad. Sci. U. S. A. 105:10332-10337.
30. Thiele I, Fleming RM, Bordbar A, Schellenberger J, Palsson BO. 2010. Functional characterization of alternate optimal solutions of Escherichia coli's transcriptional and translational machinery. Biophys. J. 98:2072-2081.
31. Tsai YC, Du D, Dominguez-Malfavon L, Dimastrogiovanni D, Cross J, Callaghan AJ, Garcia-Mena J, Luisi BF. 2012. Recognition of the 70S ribosome and polysome by the RNA degradosome in Escherichia coli. Nucleic Acids Res. 40:10417-10431.
32. De Lay N, Schu DJ, Gottesman S. 2013. Bacterial small RNA-based negative regulation: Hfq and its accomplices. J. Biol. Chem. 288:7996-8003.
33. Andrade JM, Pobre V, Matos AM, Arraiano CM. 2012. The crucial role of PNPase in the degradation of small RNAs that are not associated with Hfq. RNA 18:844-855.
34. Otaka H, Ishikawa H, Morita T, Aiba H. 2011. PolyU tail of rhoindependent terminator of bacterial small RNAs is essential for Hfq action. Proc. Natl. Acad. Sci. U. S. A. 108:13059-13064.
35. Kimata K, Inada T, Tagami H, Aiba H. 1998. A global repressor (Mlc) is involved in glucose induction of the ptsG gene encoding major glucose transporter in Escherichia coli. Mol. Microbiol. 29:1509-1519.
36. Plumbridge J. 1998. Expression of ptsG, the gene for the major glucose PTS transporter in Escherichia coli, is repressed by Mlc and induced by growth on glucose. Mol. Microbiol. 29:1053-1063.
37. Sun Y, Vanderpool CK. Physiological consequences of multiple-target regulation by the small RNA SgrS in Escherichia coli. J. Bacteriol., in press.