Suppression of a cold-sensitive mutant initiation factor 1 by alterations in the 23S rRNA maturation region

FEBS Journal

Volumn 278, Issue 10, 2011, Pages 1745-1756

  Belotserkovsky, Jaroslav M ^a   Isak, Georgina I ^a   Isaksson, Leif A ^a  

^a STOCKHOLM UNIVERSITY   (Sweden)

Author keywords

Escherichia coli; RNase III; rRNA mutation; rRNA processing; translation

Indexed keywords

INITIATION FACTOR 1; PRECURSOR RNA 23S; RIBONUCLEASE III; RNA 23S; RNA PRECURSOR; UNCLASSIFIED DRUG;

ARTICLE; BACTERIAL STRAIN; BACTERIUM MUTANT; COLD SENSITIVITY; CONTROLLED STUDY; ESCHERICHIA COLI; GENE MUTATION; MUTATIONAL ANALYSIS; NONHUMAN; OPEN READING FRAME; PHENOTYPE; PRIORITY JOURNAL; RIBOSOME; RNA PROCESSING; TRANSLATION INITIATION;

BASE SEQUENCE; COLD TEMPERATURE; ESCHERICHIA COLI; MOLECULAR SEQUENCE DATA; MUTATION; PROKARYOTIC INITIATION FACTOR-1; RIBONUCLEASE III; RNA, RIBOSOMAL, 23S; SUPPRESSION, GENETIC;

ESCHERICHIA COLI;

EID: 79955621500     PISSN: 1742464X     EISSN: 17424658     Source Type: Journal    
DOI: 10.1111/j.1742-4658.2011.08099.x     Document Type: Article

References (40)

1. Laursen BS, Sorensen HP, Mortensen KK, &, Sperling-Petersen HU, (2005) Initiation of protein synthesis in bacteria. Microbiol Mol Biol Rev 69, 101-123. (Pubitemid 40358069)
2. Pon CL, Wittmann-Liebold B, &, Gualerzi C, (1979) Structure-function relationships in Escherichia coli initiation factors. II. Elucidation of the primary structure of initiation factor IF-1. FEBS Lett 101, 157-160.
3. Sette M, van Tilborg P, Spurio R, Kaptein R, Paci M, Gualerzi CO, &, Boelens R, (1997) The structure of the translational initiation factor IF1 from E. coli contains an oligomer-binding motif. EMBO J 16, 1436-1443. (Pubitemid 27136108)
4. Weber MH, Beckering CL, &, Marahiel MA, (2001) Complementation of cold shock proteins by translation initiation factor IF1 in vivo. J Bacteriol 183, 7381-7386. (Pubitemid 33121872)
5. Moazed D, Samaha RR, Gualerzi C, &, Noller HF, (1995) Specific protection of 16S rRNA by translational initiation factors. J Mol Biol 248, 207-210.
6. Dahlquist KD, &, Puglisi JD, (2000) Interaction of translation initiation factor IF1 with the E. coli ribosomal A site. J Mol Biol 299, 1-15.
7. Carter AP, Clemons WM Jr, Brodersen DE, Morgan-Warren RJ, Hartsch T, Wimberly BT, &, Ramakrishnan V, (2001) Crystal structure of an initiation factor bound to the 30S ribosomal subunit. Science 291, 498-501. (Pubitemid 32097077)
8. Hatzopoulos GN, &, Mueller-Dieckmann J, (2010) Structure of translation initiation factor 1 from Mycobacterium tuberculosis and inferred binding to the 30S ribosomal subunit. FEBS Lett 584, 1011-1015.
9. Croitoru V, Semrad K, Prenninger S, Rajkowitsch L, Vejen M, Laursen BS, Sperling-Petersen HU, &, Isaksson LA, (2006) RNA chaperone activity of translation initiation factor IF1. Biochimie 88, 1875-1882. (Pubitemid 44881188)
10. Phadtare S, Kazakov T, Bubunenko M, Court DL, Pestova T, &, Severinov K, (2007) Transcription antitermination by translation initiation factor IF1. J Bacteriol 189, 4087-4093. (Pubitemid 46847356)
11. Surkov S, Nilsson H, Rasmussen LC, Sperling-Petersen HU, &, Isaksson LA, (2010) Translation initiation region dependency of translation initiation in Escherichia coli by IF1 and kasugamycin. FEBS J 277, 2428-2439.
12. Milon P, Konevega AL, Gualerzi CO, &, Rodnina MV, (2008) Kinetic checkpoint at a late step in translation initiation. Mol Cell 30, 712-720. (Pubitemid 351815123)
13. Kaczanowska M, &, Ryden-Aulin M, (2007) Ribosome biogenesis and the translation process in Escherichia coli. Microbiol Mol Biol Rev 71, 477-494. (Pubitemid 47429282)
14. Young RA, &, Steitz JA, (1978) Complementary sequences 1700 nucleotides apart form a ribonuclease III cleavage site in Escherichia coli ribosomal precursor RNA. Proc Natl Acad Sci USA 75, 3593-3597. (Pubitemid 8399892)
15. Bram RJ, Young RA, &, Steitz JA, (1980) The ribonuclease III site flanking 23S sequences in the 30S ribosomal precursor RNA of E. coli. Cell 19, 393-401. (Pubitemid 10152886)
16. King TC, Sirdeshmukh R, &, Schlessinger D, (1984) RNase III cleavage is obligate for maturation but not for function of Escherichia coli pre-23S rRNA. Proc Natl Acad Sci USA 81, 185-188. (Pubitemid 14180852)
17. Croitoru V, Bucheli-Witschel M, Hagg P, Abdulkarim F, &, Isaksson LA, (2004) Generation and characterization of functional mutants in the translation initiation factor IF1 of Escherichia coli. Eur J Biochem 271, 534-544. (Pubitemid 38183627)
18. Allas U, Liiv A, &, Remme J, (2003) Functional interaction between RNase III and the Escherichia coli ribosome. BMC Mol Biol 4, 8.
19. Matsunaga J, Dyer M, Simons EL, &, Simons RW, (1996) Expression and regulation of the rnc and pdxJ operons of Escherichia coli. Mol Microbiol 22, 977-989. (Pubitemid 26411341)
20. Kitagawa M, Ara T, Arifuzzaman M, Ioka-Nakamichi T, Inamoto E, Toyonaga H, &, Mori H, (2005) Complete set of ORF clones of Escherichia coli ASKA library (a complete set of E. coli K-12 ORF archive): unique resources for biological research. DNA Res 12, 291-299.
21. Charollais J, Dreyfus M, &, Iost I, (2004) CsdA, a cold-shock RNA helicase from Escherichia coli, is involved in the biogenesis of 50S ribosomal subunit. Nucleic Acids Res 32, 2751-2759. (Pubitemid 38885946)
22. Sharpe Elles LM, Sykes MT, Williamson JR, &, Uhlenbeck OC, (2009) A dominant negative mutant of the E. coli RNA helicase DbpA blocks assembly of the 50S ribosomal subunit. Nucleic Acids Res 37, 6503-6514.
23. Charollais J, Pflieger D, Vinh J, Dreyfus M, &, Iost I, (2003) The DEAD-box RNA helicase SrmB is involved in the assembly of 50S ribosomal subunits in Escherichia coli. Mol Microbiol 48, 1253-1265. (Pubitemid 36718220)
24. Baba T, Ara T, Hasegawa M, Takai Y, Okumura Y, Baba M, Datsenko KA, Tomita M, Wanner BL, &, Mori H, (2006) Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection. Mol Syst Biol 2, 2006 0008.
25. Qin D, &, Fredrick K, (2009) Control of translation initiation involves a factor-induced rearrangement of helix 44 of 16S ribosomal RNA. Mol Microbiol 71, 1239-1249.
26. Simonetti A, Marzi S, Myasnikov AG, Fabbretti A, Yusupov M, Gualerzi CO, &, Klaholz BP, (2008) Structure of the 30S translation initiation complex. Nature 455, 416-420.
27. Croitoru VV, Bucheli-Witschel M, &, Isaksson LA, (2005) In vivo involvement of mutated initiation factor IF1 in gene expression control at the translational level. FEBS Lett 579, 995-1000. (Pubitemid 40248659)
28. Grunberg-Manago M, Dessen P, Pantaloni D, Godefroy-Colburn T, Wolfe AD, &, Dondon J, (1975) Light-scattering studies showing the effect of initiation factors on the reversible dissociation of Escherichia coli ribosomes. J Mol Biol 94, 461-478.
29. Giangrossi M, Brandi A, Giuliodori AM, Gualerzi CO, &, Pon CL, (2007) Cold-shock-induced de novo transcription and translation of infA and role of IF1 during cold adaptation. Mol Microbiol 64, 807-821. (Pubitemid 46653219)
30. Giuliodori AM, Brandi A, Gualerzi CO, &, Pon CL, (2004) Preferential translation of cold-shock mRNAs during cold adaptation. RNA 10, 265-276. (Pubitemid 38129831)
31. Gualerzi CO, Giuliodori AM, &, Pon CL, (2003) Transcriptional and post-transcriptional control of cold-shock genes. J Mol Biol 331, 527-539. (Pubitemid 36937143)
32. Ko JH, Lee SJ, Cho B, &, Lee Y, (2006) Differential promoter usage of infA in response to cold shock in Escherichia coli. FEBS Lett 580, 539-544. (Pubitemid 43089683)
33. Jones PG, &, Inouye M, (1996) RbfA, a 30S ribosomal binding factor, is a cold-shock protein whose absence triggers the cold-shock response. Mol Microbiol 21, 1207-1218. (Pubitemid 26313247)
34. Asai T, Condon C, Voulgaris J, Zaporojets D, Shen B, Al-Omar M, Squires C, &, Squires CL, (1999) Construction and initial characterization of Escherichia coli strains with few or no intact chromosomal rRNA operons. J Bacteriol 181, 3803-3809. (Pubitemid 29283809)
35. Brosius J, Ullrich A, Raker MA, Gray A, Dull TJ, Gutell RR, &, Noller HF, (1981) Construction and fine mapping of recombinant plasmids containing the rrnB ribosomal RNA operon of E. coli. Plasmid 6, 112-118. (Pubitemid 11001952)
36. Link AJ, Phillips D, &, Church GM, (1997) Methods for generating precise deletions and insertions in the genome of wild-type Escherichia coli: application to open reading frame characterization. J Bacteriol 179, 6228-6237. (Pubitemid 27443901)
37. Xiao YH, Yin MH, Hou L, Luo M, &, Pei Y, (2007) Asymmetric overlap extension PCR method bypassing intermediate purification and the amplification of wild-type template in site-directed mutagenesis. Biotechnol Lett 29, 925-930. (Pubitemid 46643635)
38. Bachmann BJ, (1987) Derivations and genotypes of some mutant derivatives of Escherichia coli K-12. In Escherichia coli and Salmonella typhimurium: Cellular and Molecular Biology (, Neidhardt FC, ed), pp. 1190-1219. ASM Press, Washington, DC.
39. Singer M, Baker TA, Schnitzler G, Deischel SM, Goel M, Dove W, Jaacks KJ, Grossman AD, Erickson JW, &, Gross CA, (1989) A collection of strains containing genetically linked alternating antibiotic resistance elements for genetic mapping of Escherichia coli. Microbiol Rev 53, 1-24. (Pubitemid 19080946)
40. Woodcock DM, Crowther PJ, Doherty J, Jefferson S, DeCruz E, Noyer-Weidner M, Smith SS, Michael MZ, &, Graham MW, (1989) Quantitative evaluation of Escherichia coli host strains for tolerance to cytosine methylation in plasmid and phage recombinants. Nucleic Acids Res 17, 3469-3478. (Pubitemid 19120446)