rne

Summary

Gene Symbol: rne
Description: endoribonuclease; RNA-binding protein;RNA degradosome binding protein
Alias: ECK1069, JW1071, ams, hmp1, smbB
Species: Escherichia coli str. K-12 substr. MG1655

Top Publications

  1. pmc Coincident Hfq binding and RNase E cleavage sites on mRNA and small regulatory RNAs
    Isabella Moll
    Department of Microbiology and Genetics, University Departments at the Vienna Biocenter, Dr Bohrgasse 9, 1030 Vienna, Austria
    RNA 9:1308-14. 2003
  2. ncbi The RNA degradosome of Escherichia coli: an mRNA-degrading machine assembled on RNase E
    Agamemnon J Carpousis
    Laboratoire de Microbiologie et Genetique Moleculaires, Unité Mixte de Recherche 5100, Centre National de la Recherche Scientifique et Université Paul Sabatier, 31062 Toulouse, France
    Annu Rev Microbiol 61:71-87. 2007
  3. ncbi Polynucleotide phosphorylase, RNase II and RNase E play different roles in the in vivo modulation of polyadenylation in Escherichia coli
    B K Mohanty
    Department of Genetics, University of Georgia, Athens, GA 30605, USA
    Mol Microbiol 36:982-94. 2000
  4. ncbi Enhanced cleavage of RNA mediated by an interaction between substrates and the arginine-rich domain of E. coli ribonuclease E
    V R Kaberdin
    Institute of Microbiology and Genetics, Vienna Biocenter, University of Vienna, Dr Bohr Gasse 9, Vienna, A 1030, Austria
    J Mol Biol 301:257-64. 2000
  5. doi The RNase E of Escherichia coli is a membrane-binding protein
    Vanessa Khemici
    Laboratoire de Microbiologie et Genetique Moleculaire, UMR 5100, Centre National de la Recherche Scientifique, Universite Paul Sabatier, 31062 Toulouse, France
    Mol Microbiol 70:799-813. 2008
  6. pmc Polyadenylylation destabilizes the rpsO mRNA of Escherichia coli
    E Hajnsdorf
    Institut de Biologie Physico Chimique, Paris, France
    Proc Natl Acad Sci U S A 92:3973-7. 1995
  7. pmc Reconstitution of a minimal RNA degradosome demonstrates functional coordination between a 3' exonuclease and a DEAD-box RNA helicase
    G A Coburn
    Department of Biochemistry and Molecular Biology, University of British Columbia, Vancouver, British Columbia V6T 1Z3 Canada
    Genes Dev 13:2594-603. 1999
  8. pmc Rho-independent transcription terminators inhibit RNase P processing of the secG leuU and metT tRNA polycistronic transcripts in Escherichia coli
    Bijoy K Mohanty
    Department of Genetics, University of Georgia, Athens, GA 30602, USA
    Nucleic Acids Res 36:364-75. 2008
  9. pmc Regions of RNase E important for 5'-end-dependent RNA cleavage and autoregulated synthesis
    X Jiang
    Skirball Institute of Biomolecular Medicine and Department of Microbiology, New York University School of Medicine, New York, New York 10016, USA
    J Bacteriol 182:2468-75. 2000
  10. ncbi Processing enzyme ribonuclease E specifically cleaves RNA I. An inhibitor of primer formation in plasmid DNA synthesis
    T Tomcsanyi
    J Mol Biol 185:713-20. 1985

Scientific Experts

  • A J Carpousis
  • Hiroji Aiba
  • Vladimir R Kaberdin
  • Carin K Vanderpool
  • Aziz Taghbalout
  • S N Cohen
  • G A Mackie
  • Zhongwei Li
  • S Sozhamannan
  • Sidney R Kushner
  • David Kennell
  • Xue Feng Pan
  • Fatima Cairrao
  • Ben F Luisi
  • Anastasia J Callaghan
  • Vanessa Khemici
  • Teppei Morita
  • Joel G Belasco
  • Kwang sun Kim
  • Kangseok Lee
  • Kenneth J McDowall
  • Younghoon Lee
  • Vidya Chandran
  • Ayako Takada
  • Leonora Poljak
  • Bijoy K Mohanty
  • E Hajnsdorf
  • Jae hyeong Ko
  • Maria C Ow
  • Marc Dreyfus
  • Ji Hyun Yeom
  • Alexis A Diwa
  • S Lin-Chao
  • P Regnier
  • Maria Jose Marcaida
  • Nathalie F Vanzo
  • Taras Afonyushkin
  • Carol V Robinson
  • Martyn F Symmons
  • Leopold L Ilag
  • Isabella Moll
  • Anne Leroy
  • Yulia Redko
  • Xunqing Jiang
  • Chaitanya Jain
  • Yanan Feng
  • Li Zhou
  • Stephen M Garrey
  • B K Mohanty
  • Dharam Singh
  • Alyssa Schuck
  • Meire Aguena
  • Eunkyoung Shin
  • Colin J Coros
  • Jonathan A R Worrall
  • Kook Han
  • Louise Kime
  • Meng Zhao
  • George Georgiou
  • Helena Celesnik
  • G A Coburn
  • Johannes H Urban
  • Christopher J Moore
  • Sandra C Viegas
  • Jörg Vogel
  • F Braun
  • Kazuo Nagai
  • Karoline J Briegel
  • Soyeong Sim
  • Junjun Gao
  • Bongrae Cho
  • Jonathan M Caruthers
  • Masaaki Wachi
  • G G Liou
  • A Diwa
  • Cecilia M Arraiano
  • Fredrik Söderbom
  • Atilio Deana
  • Mario Schubert
  • Udo Blasi
  • J Gunter Grossmann
  • B Py
  • H Huang
  • Philippe Regnier
  • Eric Massé
  • Marc Folichon
  • Paulo E Marujo
  • Yuichi Otsuka
  • Kristian E Baker
  • M Dreyfus

Detail Information

Publications141 found, 100 shown here

  1. pmc Coincident Hfq binding and RNase E cleavage sites on mRNA and small regulatory RNAs
    Isabella Moll
    Department of Microbiology and Genetics, University Departments at the Vienna Biocenter, Dr Bohrgasse 9, 1030 Vienna, Austria
    RNA 9:1308-14. 2003
    ..It is commonly believed that the RNA chaperone Hfq facilitates or promotes the interaction between sRNAs and their mRNA targets. This study reveals another role for Hfq, that is, protection of sRNAs from endonucleolytic attack...
  2. ncbi The RNA degradosome of Escherichia coli: an mRNA-degrading machine assembled on RNase E
    Agamemnon J Carpousis
    Laboratoire de Microbiologie et Genetique Moleculaires, Unité Mixte de Recherche 5100, Centre National de la Recherche Scientifique et Université Paul Sabatier, 31062 Toulouse, France
    Annu Rev Microbiol 61:71-87. 2007
    ....
  3. ncbi Polynucleotide phosphorylase, RNase II and RNase E play different roles in the in vivo modulation of polyadenylation in Escherichia coli
    B K Mohanty
    Department of Genetics, University of Georgia, Athens, GA 30605, USA
    Mol Microbiol 36:982-94. 2000
    ..Conversely, toxicity is significantly reduced in the presence of excess RNase II. Overproduction of RNase E leads to increased polyadenylation and no reduction in toxicity...
  4. ncbi Enhanced cleavage of RNA mediated by an interaction between substrates and the arginine-rich domain of E. coli ribonuclease E
    V R Kaberdin
    Institute of Microbiology and Genetics, Vienna Biocenter, University of Vienna, Dr Bohr Gasse 9, Vienna, A 1030, Austria
    J Mol Biol 301:257-64. 2000
    ....
  5. doi The RNase E of Escherichia coli is a membrane-binding protein
    Vanessa Khemici
    Laboratoire de Microbiologie et Genetique Moleculaire, UMR 5100, Centre National de la Recherche Scientifique, Universite Paul Sabatier, 31062 Toulouse, France
    Mol Microbiol 70:799-813. 2008
    ..This is the first report demonstrating that RNase E is a membrane-binding protein and that its localization to the inner cytoplasmic membrane is important for normal cell growth...
  6. pmc Polyadenylylation destabilizes the rpsO mRNA of Escherichia coli
    E Hajnsdorf
    Institut de Biologie Physico Chimique, Paris, France
    Proc Natl Acad Sci U S A 92:3973-7. 1995
    ..In contrast polyadenylylation does not significantly modify the stability of rpsO mRNA undergoing RNase E-mediated degradation...
  7. pmc Reconstitution of a minimal RNA degradosome demonstrates functional coordination between a 3' exonuclease and a DEAD-box RNA helicase
    G A Coburn
    Department of Biochemistry and Molecular Biology, University of British Columbia, Vancouver, British Columbia V6T 1Z3 Canada
    Genes Dev 13:2594-603. 1999
    ..The Rne protein serves as an essential scaffold in the reconstitution process; however, RNase E activity is not required...
  8. pmc Rho-independent transcription terminators inhibit RNase P processing of the secG leuU and metT tRNA polycistronic transcripts in Escherichia coli
    Bijoy K Mohanty
    Department of Genetics, University of Georgia, Athens, GA 30602, USA
    Nucleic Acids Res 36:364-75. 2008
    ..Our data also demonstrate that the Rne-1 protein retains significant activity on tRNA substrates at the non-permissive temperature...
  9. pmc Regions of RNase E important for 5'-end-dependent RNA cleavage and autoregulated synthesis
    X Jiang
    Skirball Institute of Biomolecular Medicine and Department of Microbiology, New York University School of Medicine, New York, New York 10016, USA
    J Bacteriol 182:2468-75. 2000
    ..coli cell growth or in regulating RNase E production, even when overproduced sixfold relative to wild-type RNase E levels...
  10. ncbi Processing enzyme ribonuclease E specifically cleaves RNA I. An inhibitor of primer formation in plasmid DNA synthesis
    T Tomcsanyi
    J Mol Biol 185:713-20. 1985
    ..Therefore, we suggest that at least part of the interaction between RNAase E and its substrate is controlled by these nine nucleotides...
  11. ncbi The C-terminal half of RNase E, which organizes the Escherichia coli degradosome, participates in mRNA degradation but not rRNA processing in vivo
    P J Lopez
    Laboratoire de Genetique Moleculaire, CNRS UMR 8541, Ecole Normale Superieure, 46 rue d Ulm, 75230 Paris, France
    Mol Microbiol 33:188-99. 1999
    ..with other degradosome proteins; however, PNPase is not essential, as RNase E remains fully active towards mRNAs in rne+pnp mutants...
  12. ncbi Quaternary structure and catalytic activity of the Escherichia coli ribonuclease E amino-terminal catalytic domain
    Anastasia J Callaghan
    Department of Biochemistry, University of Cambridge, 80 Tennis Court Road, Cambridge CB2 1GA, UK
    Biochemistry 42:13848-55. 2003
    ..These observations have implications for the structure and function of the RNase E/RNase G ribonuclease family and for the assembly of the E. coli RNA degradosome, in which RNase E is the central component...
  13. ncbi The RNA degradosome: life in the fast lane of adaptive molecular evolution
    Maria Jose Marcaida
    Department of Biochemistry, University of Cambridge, 80 Tennis Court Road, Cambridge CB2 1GA, UK
    Trends Biochem Sci 31:359-65. 2006
    ....
  14. ncbi Cloning and analysis of the entire Escherichia coli ams gene. ams is identical to hmp1 and encodes a 114 kDa protein that migrates as a 180 kDa protein
    S Casaregola
    Institut de Genetique et Microbiologie, CRNS URA 1354 Université Paris XI, Orsay, France
    J Mol Biol 228:30-40. 1992
    We have used an antibody to a previously identified 180 kDa (Hmp1) protein in Escherichia coli to clone the corresponding gene, which encodes a polypeptide of 114 kDa that has a mobility equivalent to 180 kDa in SDS/PAGE...
  15. ncbi Decay of mRNA encoding ribosomal protein S15 of Escherichia coli is initiated by an RNase E-dependent endonucleolytic cleavage that removes the 3' stabilizing stem and loop structure
    P Regnier
    Institut de Biologie Physico Chimique, Paris, France
    J Mol Biol 217:283-92. 1991
    ..The other two cleavages are dependent on the wild-type allele of the rne gene, which encodes the endonucleolytic enzyme RNase E...
  16. ncbi Location of the RNA-processing enzymes RNase III, RNase E and RNase P in the Escherichia coli cell
    A Miczak
    Department of Molecular Microbiology, Washington University School of Medicine, St Louis, Missouri 63110
    Mol Microbiol 5:1801-10. 1991
    ..The implications of these findings for the cellular organization of the RNA-processing enzymes in the cell are discussed...
  17. pmc Polyadenylylation helps regulate mRNA decay in Escherichia coli
    E B O'Hara
    Department of Genetics, University of Georgia, Athens 30602 7223
    Proc Natl Acad Sci U S A 92:1807-11. 1995
    ..The half-lives of individual mRNAs were increased in both a delta pcnB single mutant and a delta pcnB pnp-7 rnb-500 rne-1 multiple mutant...
  18. ncbi Functional relationship between Escherichia coli RNase E and the CafA protein
    M Wachi
    Department of Bioengineering, Tokyo Institute of Technology, Midori ku, Yokohama, Japan
    Mol Gen Genet 253:515-9. 1997
    ..Introduction of a cafA::cat mutation enhanced the temperature sensitivity of the ams1 mutant. These results suggest that there is a functional homology between these two proteins...
  19. ncbi Regulation of plasmid R1 replication: PcnB and RNase E expedite the decay of the antisense RNA, CopA
    F Söderbom
    Department of Microbiology, Biomedical Center, Uppsala University, Sweden
    Mol Microbiol 26:493-504. 1997
    ..We also find that, as predicted, under conditions in which CopA synthesis is unaffected, pcnB mutation reduces RepA translation and increases CopA stability to the same extent...
  20. pmc RNase G (CafA protein) and RNase E are both required for the 5' maturation of 16S ribosomal RNA
    Z Li
    Department of Biochemistry and Molecular Biology, University of Miami School of Medicine, Miami, FL 33101, USA
    EMBO J 18:2878-85. 1999
    ..These data indicate that both RNase E and CafA protein are required for a two step, sequential maturation of the 5' end of 16S rRNA, and that CafA protein is a new ribonuclease. We propose that it be renamed RNase G...
  21. pmc RNase E is required for the maturation of ssrA RNA and normal ssrA RNA peptide-tagging activity
    S Lin-Chao
    Institute of Molecular Biology, Academia Sinica, Taipei 115, Taiwan
    Proc Natl Acad Sci U S A 96:12406-11. 1999
    ..coli, also has the previously unsuspected ability to affect protein degradation through its role in maturation of the 3' end of ssrA RNA...
  22. pmc Hfq (HF1) stimulates ompA mRNA decay by interfering with ribosome binding
    O Vytvytska
    Institute of Microbiology and Genetics, Vienna Biocenter, 1030 Vienna, Austria
    Genes Dev 14:1109-18. 2000
    ..The data are discussed in terms of a model wherein Hfq regulates the stability of ompA mRNA by competing with 30S ribosomes for binding to the ompA 5'-UTR...
  23. pmc Initiation of tRNA maturation by RNase E is essential for cell viability in E. coli
    Maria C Ow
    Department of Genetics, University of Georgia, Athens, GA 30602, USA
    Genes Dev 16:1102-15. 2002
    ..By using several new rne alleles, we have confirmed these observations and have also ruled out that M1 processing by RNase E is required for ..
  24. pmc mRNA decay in Escherichia coli comes of age
    Sidney R Kushner
    Department of Genetics, University of Georgia, Athens, GA 30602, USA
    J Bacteriol 184:4658-65; discussion 4657. 2002
  25. ncbi Inactivation of the decay pathway initiated at an internal site by RNase E promotes poly(A)-dependent degradation of the rpsO mRNA in Escherichia coli
    Paulo E Marujo
    UPR9073 du CNRS, Institut de Biologie Physico Chimique, Paris, France
    Mol Microbiol 50:1283-94. 2003
    ..We also discuss the role of poly(A)-dependent decay in mRNA metabolism...
  26. pmc The poly(A) binding protein Hfq protects RNA from RNase E and exoribonucleolytic degradation
    Marc Folichon
    UPR CNRS no 9073, conventionnée avec l Université Paris 7 Denis Diderot, Institut de Biologie Physico Chimique, 75005 Paris, France
    Nucleic Acids Res 31:7302-10. 2003
    ..In addition, RNase E processing, which occurred close to the U-rich sequence, is impaired by the presence of Hfq. These data suggest that Hfq modulates the sensitivity of RNA to ribonucleases in the cell...
  27. ncbi Studies of the RNA degradosome-organizing domain of the Escherichia coli ribonuclease RNase E
    Anastasia J Callaghan
    Department of Biochemistry, University of Cambridge, 80 Tennis Court Road, Cambridge CB2 1GA, UK
    J Mol Biol 340:965-79. 2004
    ..The carboxy-terminal domain of RNase E may thus act as a flexible tether of the degradosome components. The implications of these and other observations for the organization of the RNA degradosome are discussed...
  28. ncbi "Zn-link": a metal-sharing interface that organizes the quaternary structure and catalytic site of the endoribonuclease, RNase E
    Anastasia J Callaghan
    Department of Biochemistry, University of Cambridge, Cambridge CB2 1GA, United Kingdom
    Biochemistry 44:4667-75. 2005
    ..One or both interfaces organize the active site, which is distinct from the primary site of RNA binding...
  29. pmc Co-evolution of tRNA 3' trailer sequences with 3' processing enzymes in bacteria
    Zhongwei Li
    Department of Biomedical Sciences, Florida Atlantic University, 777 Glades Road, BC71, Boca Raton, FL 33431, USA
    RNA 11:567-77. 2005
    ..Selective conservation of the AUE is usually not observed in bacteria without RNase E. These results demonstrate a novel example of co-evolution of RNA sequences with processing activities...
  30. pmc RNaseE and the other constituents of the RNA degradosome are components of the bacterial cytoskeleton
    Aziz Taghbalout
    Department of Molecular, Microbial, and Structural Biology, University of Connecticut Health Center, Farmington, CT 06032, USA
    Proc Natl Acad Sci U S A 104:1667-72. 2007
    ....
  31. pmc Characterization of the role of ribonucleases in Salmonella small RNA decay
    Sandra C Viegas
    Instituto de Tecnologia Quimica e Biologica, Universidade Nova de Lisboa, Apartado 127, 2781 901 Oeiras, Portugal
    Nucleic Acids Res 35:7651-64. 2007
    ..Taken together, the results of this study provide initial insight into the mechanisms of sRNA decay in Salmonella, and indicate specific contributions of the RNA decay machinery components to the turnover of individual sRNAs...
  32. pmc RNase E autoregulates its synthesis in Escherichia coli by binding directly to a stem-loop in the rne 5' untranslated region
    Alyssa Schuck
    Kimmel Center for Biology and Medicine at the Skirball Institute, New York University School of Medicine, New York, NY 10016, USA
    Mol Microbiol 72:470-8. 2009
    RNase E autoregulates its production in Escherichia coli by governing the decay rate of rne (RNase E) mRNA. It does so by a mechanism that is dependent in part on hp2, a cis-acting stem-loop within the rne 5' untranslated region...
  33. ncbi Structural analysis and in vitro processing to p5 rRNA of a 9S RNA molecule isolated from an rne mutant of E. coli
    B K Ghora
    Cell 15:1055-66. 1978
    A temperature-sensitive mutant of E. coli, rne (RNAase E-), accumulates a number of relatively small RNA molecules at the nonpermissive temperature. One of these molecules, 9S, contains 5S rRNA sequences...
  34. pmc Isolation, genetic mapping and some characterization of a mutation in Escherichia coli that affects the processing of ribonuleic acid
    D Apirion
    Genetics 90:659-71. 1978
    ..The mutation rne is recessive with respect to temperature sensitivity and the pattern of rRNA...
  35. ncbi Escherichia coli RNase E has a role in the decay of bacteriophage T4 mRNA
    E A Mudd
    Department of Molecular Biology, University of Geneva, Switzerland
    Genes Dev 4:873-81. 1990
    ..Although the effect of the rne temperature-sensitive mutation could be indirect, the simplest interpretation of our results is that RNase E acts ..
  36. pmc Cloning of the altered mRNA stability (ams) gene of Escherichia coli K-12
    F Claverie-Martin
    Department of Genetics, University of Georgia, Athens 30602
    J Bacteriol 171:5479-86. 1989
    A temperature-sensitive mutation in the ams gene of Escherichia coli causes an increase in the chemical half-life of pulse-labeled RNA at the nonpermissive temperature...
  37. ncbi Nucleolytic inactivation and degradation of the RNase III processed pnp message encoding polynucleotide phosphorylase of Escherichia coli
    E Hajnsdorf
    CNRS URA1139, Institut de Biologie Physico Chimique, Paris, France
    J Mol Biol 239:439-54. 1994
    ..Taken together, our results suggest that in wild-type E. coli the degradation of the RNase III processed mRNA is mediated by RNase E...
  38. pmc Roles of RNase E, RNase II and PNPase in the degradation of the rpsO transcripts of Escherichia coli: stabilizing function of RNase II and evidence for efficient degradation in an ams pnp rnb mutant
    E Hajnsdorf
    Institut de Biologie Physico Chimique, Paris, France
    EMBO J 13:3368-77. 1994
    ..The enzyme(s) involved in this degradation pathway is not known. We detected an unstable elongated rpsO mRNA presumably resulting from the addition of nucleotides at the 3' end of the transcript...
  39. ncbi Site-specific RNase E cleavage of oligonucleotides and inhibition by stem-loops
    K J McDowall
    Department of Genetics, Stanford University School of Medicine, California 94305
    Nature 374:287-90. 1995
    ..Modulation of RNase E cleavages by stem-loop regions and to a lesser extent by higher-order structure may explain why this enzyme, which does not have stringent sequence specificity, cleaves complex RNAs at a limited number of sites...
  40. ncbi Ribonuclease E provides substrates for ribonuclease P-dependent processing of a polycistronic mRNA
    P Alifano
    Dipartimento di Biologia e Patologia Cellulare e Molecolare L Califano, Universita Degli Studi Di Napoli, Italy
    Genes Dev 8:3021-31. 1994
    ..RNA region upstream of the 5' end of the processed transcript that can be substituted by another well-characterized rne-dependent cleavage site; (3) efficient translation initiation of the first cistron immediately downstream of the 5' ..
  41. ncbi Escherichia coli endoribonuclease RNase E: autoregulation of expression and site-specific cleavage of mRNA
    E A Mudd
    Imperial Cancer Research Fund Laboratories, University of Oxford, John Radcliffe Hospital, UK
    Mol Microbiol 9:557-68. 1993
    Mutations in the Escherichia coli rne (ams) gene have a general effect on the rate of mRNA decay in vivo. Using antibodies we have shown that the product of the rne gene is a polypeptide of relative mobility 180 kDa...
  42. ncbi The N-terminal domain of the rne gene product has RNase E activity and is non-overlapping with the arginine-rich RNA-binding site
    K J McDowall
    Department of Genetics, Stanford University School of Medicine, Stanford University, CA 94305, USA
    J Mol Biol 255:349-55. 1996
    The rne gene of Escherichia coli encodes a 118 kDa protein that has ribonuclease E (RNase E) activity and binds RNA...
  43. ncbi A DEAD-box RNA helicase in the Escherichia coli RNA degradosome
    B Py
    Nuffield Department of Clinical Biochemisstry and Imperial Cancer Research Fund Laboratories, Institute of Molecular Medicine, UK
    Nature 381:169-72. 1996
    ..These results suggest that RhlB acts by unwinding RNA structures that impede the processive activity of PNPase. RhlB is thus an important enzyme in mRNA turnover...
  44. pmc Proteins associated with RNase E in a multicomponent ribonucleolytic complex
    A Miczak
    Institute of Molecular Biology, Academia Sinica, Nankang Taipei, Taiwan, Republic of China
    Proc Natl Acad Sci U S A 93:3865-9. 1996
    ..7.7.8). To isolate and identify other components of the RNase E complex, FLAG-epitope-tagged RNase E (FLAG-Rne) fusion protein was purified on a monoclonal antibody-conjugated agarose column...
  45. pmc RNase E polypeptides lacking a carboxyl-terminal half suppress a mukB mutation in Escherichia coli
    M Kido
    Department of Molecular Cell Biology, Institute of Molecular Embryology and Genetics, Kumamoto University School of Medicine, Kumamoto, Japan
    J Bacteriol 178:3917-25. 1996
    ..A linkage group (smbB) of the suppressor mutations is located in the rne/ams/hmp gene encoding the processing endoribonuclease RNase E...
  46. ncbi Sok antisense RNA from plasmid R1 is functionally inactivated by RNase E and polyadenylated by poly(A) polymerase I
    N Dam Mikkelsen
    Department of Molecular Biology, Odense University, Odense M, Denmark
    Mol Microbiol 26:311-20. 1997
    ..We also show that Sok RNA is polyadenylated by poly(A) polymerase I (PAP I), and that the poly(A)-tailing is prerequisite for the rapid 3'-exonucleolytic degradation by PNPase...
  47. ncbi Reconstitution of the degradation of the mRNA for ribosomal protein S20 with purified enzymes
    G A Coburn
    D H Copp Building, University of British Columbia, 2146 Health Sciences Mall, Vancouver, British Columbia, V6T 1Z3, Canada
    J Mol Biol 279:1061-74. 1998
    ..Moreover, decay of a model mRNA can be reconstituted in vitro by a small number of purified components in a process which is more dynamic and ATP-dependent than previously imagined...
  48. ncbi Ribonuclease E is a 5'-end-dependent endonuclease
    G A Mackie
    Department of Biochemistry and Molecular Biology, University of British Columbia, Vancouver, Canada
    Nature 395:720-3. 1998
    ..coli, the phenomenon of 'all or none' mRNA decay, and the stabilization provided by 5' stem-loop structures...
  49. pmc An evolutionarily conserved RNA stem-loop functions as a sensor that directs feedback regulation of RNase E gene expression
    A Diwa
    Skirball Institute of Biomolecular Medicine and Department of Microbiology, New York University School of Medicine, New York, New York 10016, USA
    Genes Dev 14:1249-60. 2000
    ..Autoregulation is mediated in cis by the 361-nucleotide 5' untranslated region (UTR) of rne (RNase E) mRNA...
  50. ncbi Stabilization of circular rpsT mRNA demonstrates the 5'-end dependence of RNase E action in vivo
    G A Mackie
    Department of Biochemistry and Molecular Biology, University of British Columbia, Vancouver, Canada
    J Biol Chem 275:25069-72. 2000
    ....
  51. ncbi Escherichia coli poly(A)-binding proteins that interact with components of degradosomes or impede RNA decay mediated by polynucleotide phosphorylase and RNase E
    Y Feng
    Department of Genetics and the Program in Cancer Biology, Stanford University School of Medicine, Stanford, California 94305 5120, USA
    J Biol Chem 276:31651-6. 2001
    ..Our findings raise the prospect that E. coli proteins that bind to poly(A) tails may link the functions of degradosomes and ribosomes...
  52. ncbi The Escherichia coli RNA degradosome: structure, function and relationship in other ribonucleolytic multienzyme complexes
    A J Carpousis
    Laboratoire de Microbiologie et Genetique Moleculaire, Centre National de la Recherche Scientifique, UMR 5100, 118 route de Narbonne, 31061 Toulouse Cedex, France
    Biochem Soc Trans 30:150-5. 2002
    ..RhlB in vitro can facilitate the degradation of structured RNA by PNPase. Since the discovery of the RNA degradosome in E. coli, related complexes have been described in other organisms...
  53. ncbi Function in Escherichia coli of the non-catalytic part of RNase E: role in the degradation of ribosome-free mRNA
    Anne Leroy
    Laboratoire de Microbiologie et Génétique Moléculaire CNRS, UMR 5100, Universite Paul Sabatier, 118 rue de Narbonne, 31062 Toulouse, France
    Mol Microbiol 45:1231-43. 2002
    ..The rne gene was replaced with alleles encoding deletions in the non-catalytic part of RNase E...
  54. ncbi Ectopic RNase E sites promote bypass of 5'-end-dependent mRNA decay in Escherichia coli
    Kristian E Baker
    Department of Biochemistry and Molecular Biology, University of British Columbia, Vancouver, BC, Canada V6T 1Z3
    Mol Microbiol 47:75-88. 2003
    ..Insertion of a 12-15 residue 'ectopic' RNase E cleavage site from either the rne leader or 9S pre-rRNA into the 5'-non-coding region of the rpsT mRNA significantly reduces the stabilizing effect ..
  55. ncbi Determination of the catalytic parameters of the N-terminal half of Escherichia coli ribonuclease E and the identification of critical functional groups in RNA substrates
    Yulia Redko
    Astbury Centre for Structural Molecular Biology, Faculty of Biological Sciences, University of Leeds, Manton Building, LS2 9JT Leeds, United Kingdom
    J Biol Chem 278:44001-8. 2003
    ..Combined, these observations establish a foundation for the functional interpretation of a three-dimensional structure of the catalytic domain of RNaseE when solved...
  56. pmc Coupled degradation of a small regulatory RNA and its mRNA targets in Escherichia coli
    Eric Massé
    Laboratory of Molecular Biology, National Cancer Institute, National Institutes of Health, Bethesda, Maryland 20892, USA
    Genes Dev 17:2374-83. 2003
    ..Thus, this large class of regulatory RNAs share an unexpected intrinsic mechanism for shutting off their action...
  57. ncbi The RNA degradosome and poly(A) polymerase of Escherichia coli are required in vivo for the degradation of small mRNA decay intermediates containing REP-stabilizers
    Vanessa Khemici
    Laboratoire de Microbiologie et Genetique Moleculaire, CNRS, UMR 5100 and Paul Sabatier Université, 118 route de Narbonne, 31062 Toulouse, France
    Mol Microbiol 51:777-90. 2004
    ....
  58. pmc Both RNase E and RNase III control the stability of sodB mRNA upon translational inhibition by the small regulatory RNA RyhB
    Taras Afonyushkin
    Max F Perutz Laboratories, Department of Microbiology and Immunobiology, University Departments at the Vienna Biocenter Dr Bohrgasse 9 4, A 1030 Vienna, Austria
    Nucleic Acids Res 33:1678-89. 2005
    ..These data are discussed in terms of a model, which accounts for the observed roles of RNase E and RNase III in sodB mRNA turnover...
  59. ncbi RNase E cleavage in the 5' leader of a tRNA precursor
    Fredrik Söderbom
    Department of Molecular Biology, Swedish University of Agricultural Sciences, Box 590, Biomedical Centre, SE 751 24 Uppsala, Sweden
    J Mol Biol 352:22-7. 2005
    ..These data are in keeping with the suggestion that the structure of the 5' leader influences tRNA expression by affecting tRNA processing and indicate the involvement of RNase E in the regulation of cellular tRNA levels...
  60. ncbi Differential modulation of E. coli mRNA abundance by inhibitory proteins that alter the composition of the degradosome
    Junjun Gao
    Institute for Cell and Molecular Biology, University of Texas, TX 78712, USA
    Mol Microbiol 61:394-406. 2006
    ..coli...
  61. ncbi Retention of core catalytic functions by a conserved minimal ribonuclease E peptide that lacks the domain required for tetramer formation
    Jonathan M Caruthers
    Department of Structural Biology, Stanford University School of Medicine, Stanford, California 94305, USA
    J Biol Chem 281:27046-51. 2006
    ..and cleavage site specificity characteristic of full-length RNase E and that also confer colony forming ability on rne null mutant bacteria. Further truncation leads to loss of these properties...
  62. ncbi Recognition and cooperation between the ATP-dependent RNA helicase RhlB and ribonuclease RNase E
    Vidya Chandran
    Department of Biochemistry, University of Cambridge, 80 Tennis Court Road, Cambridge CB2 1GA, UK
    J Mol Biol 367:113-32. 2007
    ....
  63. ncbi Physiological consequences of small RNA-mediated regulation of glucose-phosphate stress
    Carin K Vanderpool
    Department of Microbiology, University of Illinois at Urbana Champaign B213, Chemical and Life Sciences Laboratories CLSL, MC 110 Urbana, IL 61801, USA
    Curr Opin Microbiol 10:146-51. 2007
    ..The current model is that SgrS promotes recovery by stopping the synthesis of glucose transport proteins, which in turn limits the accumulation of toxic sugar-phosphates...
  64. pmc Initiation of RNA decay in Escherichia coli by 5' pyrophosphate removal
    Helena Celesnik
    Kimmel Center for Biology and Medicine at the Skirball Institute, New York University School of Medicine, New York, NY 10016, USA
    Mol Cell 27:79-90. 2007
    ..Moreover, these results reveal a striking parallel between the mechanisms of mRNA decay in prokaryotic and eukaryotic organisms...
  65. ncbi Dual function of RNase E for control of M1 RNA biosynthesis in Escherichia coli
    Jae hyeong Ko
    Department of Chemistry and Center for Molecular Design and Synthesis, Korea Advanced Institute of Science and Technology, Daejeon 305 701, Korea
    Biochemistry 47:762-70. 2008
    ..Considering that RNase E is a processing enzyme involved in 3' end formation of M1 RNA, our results imply that this enzyme plays a dual role in processing and degradation to achieve tight control of M1 RNA biosynthesis...
  66. doi Reconstitution and analysis of the multienzyme Escherichia coli RNA degradosome
    Jonathan A R Worrall
    Department of Biochemistry, University of Cambridge, 80 Tennis Court Road, Cambridge CB2 1GA, UK
    J Mol Biol 382:870-83. 2008
    ..We discuss the implications for the regulation of RNA degradosome function in vivo...
  67. pmc Substrate binding and active site residues in RNases E and G: role of the 5'-sensor
    Stephen M Garrey
    Department of Biochemistry and Molecular Biology, The University of British Columbia Life Sciences Centre, Vancouver, British Columbia V6T 1Z3, Canada
    J Biol Chem 284:31843-50. 2009
    ..Our results point to the importance of alternative RNA binding sites in RNase E and to alternative pathways of RNA recognition...
  68. ncbi Analysis of the altered mRNA stability (ams) gene from Escherichia coli. Nucleotide sequence, transcriptional analysis, and homology of its product to MRP3, a mitochondrial ribosomal protein from Neurospora crassa
    F Claverie-Martin
    Department of Biology, Massachusetts Institute of Technology, Cambridge 02139
    J Biol Chem 266:2843-51. 1991
    The product of the altered mRNA stability (ams) gene of Escherichia coli is involved in decay of mRNA. The complete nucleotide sequence of a 4-kilobase BamHI restriction fragment containing the ams coding sequence was determined...
  69. ncbi RNase E, an endoribonuclease, has a general role in the chemical decay of Escherichia coli mRNA: evidence that rne and ams are the same genetic locus
    E A Mudd
    Imperial Cancer Research Fund Laboratories, John Radcliffe Hospital, University of Oxford, UK
    Mol Microbiol 4:2127-35. 1990
    ..coli mRNA turnover and affects the stability of specific transcripts. The effect of the rne mutation on functional stability of mRNA was much less pronounced than that on chemical stability, although the ..
  70. ncbi Genetic studies of cleavage-initiated mRNA decay and processing of ribosomal 9S RNA show that the Escherichia coli ams and rne loci are the same
    O Melefors
    Department of Bacteriology, Karolinska Institute, Stockholm, Sweden
    Mol Microbiol 5:857-64. 1991
    ..kb fragment from this genomic DNA segment was cloned into a low-copy plasmid and used to transform the ams(ts) and rne(ts) strains...
  71. ncbi Specificity of Escherichia coli endoribonuclease RNase E: in vivo and in vitro analysis of mutants in a bacteriophage T4 mRNA processing site
    C P Ehretsmann
    Department of Molecular Biology, University of Geneva, Switzerland
    Genes Dev 6:149-59. 1992
    ..Processing by RNase E was apparently inhibited by sequences that sequester the site in secondary structure...
  72. pmc Stabilization of discrete mRNA breakdown products in ams pnp rnb multiple mutants of Escherichia coli K-12
    C M Arraiano
    Department of Genetics, University of Georgia, Athens 30602
    J Bacteriol 170:4625-33. 1988
    ..a series of multiple mutants containing the pnp-7 (polynucleotide phosphorylase), rnb-500 (RNase II), and ams-1 (altered message stability) alleles, it was possible to study general mRNA turnover as well as the degradation of ..
  73. pmc Inactivation of the ribonucleic acid-processing enzyme ribonuclease E blocks cell division
    K Goldblum
    J Bacteriol 146:128-32. 1981
    ..of precursor 5S ribosomal ribonucleic acid (RNA) from the nascent ribosomal RNA transcript, is thermolabile in rne-3071 mutants...
  74. pmc Processing of the precursor to the catalytic RNA subunit of RNase P from Escherichia coli
    U Lundberg
    Department of Biology, Yale University, New Haven, Connecticut 06520, USA
    RNA 1:327-34. 1995
    ..The enzymatic activity that removes the 5' nucleotides from the precursor to M1 RNA is not due to RNase E, RNase P, or RNase III alone...
  75. ncbi Copurification of E. coli RNAase E and PNPase: evidence for a specific association between two enzymes important in RNA processing and degradation
    A J Carpousis
    Department of Molecular Biology, University of Geneva, Switzerland
    Cell 76:889-900. 1994
    ..coli 5S ribosomal RNA, bacteriophage T4 gene 32 mRNA and E. coli ompA mRNA at sites known to depend on the rne gene for cleavage in vivo...
  76. pmc The stability of Escherichia coli lacZ mRNA depends upon the simultaneity of its synthesis and translation
    I Iost
    Laboratoire de Génétique Moléculaire CNRS D1302, Ecole Normale Superieure, Paris, France
    EMBO J 14:3252-61. 1995
    ..The low beta-galactosidase yield from T7 transcripts reflects their low stability: the ams-1/rne-50 mutation, which inactivates RNase E, nearly equalizes the beta-galactosidase yields from T7 and E...
  77. ncbi Evidence for an RNA binding region in the Escherichia coli processing endoribonuclease RNase E
    L Taraseviciene
    Department of Microbiology, Umea University, Sweden
    J Biol Chem 270:26391-8. 1995
    The processing endoribonuclease RNase E (Rne), which is encoded by the rne gene, is involved in the maturation process of messenger RNAs and a ribosomal RNA...
  78. ncbi A protein complex mediating mRNA degradation in Escherichia coli
    B Py
    Imperial Cancer Research Fund Laboratories, Institute of Molecular Medicine, Oxford, UK
    Mol Microbiol 14:717-29. 1994
    ..The identification of a complex which includes several activities associated with mRNA degradation has implications for the mechanisms and co-ordinated control of mRNA degradation...
  79. ncbi Poly(A)- and poly(U)-specific RNA 3' tail shortening by E. coli ribonuclease E
    H Huang
    Department of Genetics, Stanford University School of Medicine, California 94305 5120, USA
    Nature 391:99-102. 1998
    ..The ability of RNase E to shorten poly(A) tails, together with the effect of tail length on endonucleolytic cleavage within primary transcripts, suggests a mechanism by which RNase E may exercise overall control over RNA decay...
  80. pmc Ribosomes inhibit an RNase E cleavage which induces the decay of the rpsO mRNA of Escherichia coli
    F Braun
    Institut de Biologie Physico Chimique, 13 rue Pierre et Marie Curie, 75005 Paris, France
    EMBO J 17:4790-7. 1998
    ....
  81. ncbi E. coli RpsO mRNA decay: RNase E processing at the beginning of the coding sequence stimulates poly(A)-dependent degradation of the mRNA
    E Hajnsdorf
    UPR 9073 du CNRS, Institut de Biologie Physico Chimique, 13 rue Pierre et Marie Curie, Paris, 75005, France
    J Mol Biol 286:1033-43. 1999
    ..We conclude that 5' extremities modulate the poly(A)-dependent degradation of mRNA fragments and that the 5' cleavage by RNase E at M3 activates the chemical degradation of the rpsO mRNA...
  82. ncbi Analysis of the function of Escherichia coli poly(A) polymerase I in RNA metabolism
    B K Mohanty
    Department of Genetics, University of Georgia, Athens, GA 30602, USA
    Mol Microbiol 34:1094-108. 1999
    ..In contrast, the transcripts for rne (RNase E) and pnp (polynucleotide phosphorylase, PNPase), enzymes involved in mRNA decay, were stabilized...
  83. pmc RNA degradosomes exist in vivo in Escherichia coli as multicomponent complexes associated with the cytoplasmic membrane via the N-terminal region of ribonuclease E
    G G Liou
    Institute of Molecular Biology, Academia Sinica, Nankang, Taipei 115, Taiwan
    Proc Natl Acad Sci U S A 98:63-8. 2001
    ..Our findings, which establish the existence and cellular location of RNase E-based degradosomes in vivo in E. coli, also suggest that RNA processing and decay may occur at specific sites within cells...
  84. ncbi Critical features of a conserved RNA stem-loop important for feedback regulation of RNase E synthesis
    Alexis A Diwa
    Skirball Institute of Biomolecular Medicine and Department of Microbiology, New York University School of Medicine, New York, New York 10016, USA
    J Biol Chem 277:20415-22. 2002
    ..This endonuclease controls its own synthesis via a feedback mechanism in which the longevity of rne (RNase E) mRNA is modulated by a cis-acting sensory element that responds to changes in cellular RNase E activity...
  85. ncbi Polyadenylation of Escherichia coli transcripts plays an integral role in regulating intracellular levels of polynucleotide phosphorylase and RNase E
    Bijoy K Mohanty
    Department of Genetics, University of Georgia, Athens, GA 30602, USA
    Mol Microbiol 45:1315-24. 2002
    ..However, transiently increasing intracellular poly(A) levels has also been shown to stabilize the pnp and rne transcripts, leading to increased polynucleotide phosphorylase (PNPase) and RNase E levels respectively...
  86. ncbi RNase G of Escherichia coli exhibits only limited functional overlap with its essential homologue, RNase E
    Maria C Ow
    Department of Genetics, University of Georgia, Athens, GA 30602, USA
    Mol Microbiol 49:607-22. 2003
    RNase G (rng) is an E. coli endoribonuclease that is homologous to the catalytic domain of RNase E (rne), an essential protein that is a major participant in tRNA maturation, mRNA decay, rRNA processing and M1 RNA processing...
  87. pmc Probing the substrate specificity of Escherichia coli RNase E using a novel oligonucleotide-based assay
    Vladimir R Kaberdin
    Max F Perutz Laboratories, Department of Microbiology and Genetics, University Department at the Vienna Biocenter, Dr Bohrgasse 9 4, A 1030 Vienna, Austria
    Nucleic Acids Res 31:4710-6. 2003
    ..Moreover, the simplicity and efficiency of the proposed assay suggest that it can be a valuable tool not only for the characterization of RNase E homologs but also for the analysis of other site-specific nucleases...
  88. pmc Catalytic activation of multimeric RNase E and RNase G by 5'-monophosphorylated RNA
    Xunqing Jiang
    Skirball Institute of Biomolecular Medicine and Department of Microbiology, New York University School of Medicine, New York, NY 10016, USA
    Proc Natl Acad Sci U S A 101:9211-6. 2004
    ..Among the molecular mechanisms that could account for these properties are those in which 5'-end binding by one enzyme subunit induces a protein structural change that accelerates RNA cleavage by another subunit...
  89. pmc RNase E-based ribonucleoprotein complexes: mechanical basis of mRNA destabilization mediated by bacterial noncoding RNAs
    Teppei Morita
    Division of Biological Science, Graduate School of Science, Nagoya University, Chikusa, Nagoya 464 8602, Japan
    Genes Dev 19:2176-86. 2005
    ..The formation of ribonucleoprotein complexes containing RNases could be a general way by which small RNAs destabilize target mRNAs in both prokaryotes and eukaryotes...
  90. ncbi Structure of Escherichia coli RNase E catalytic domain and implications for RNA turnover
    Anastasia J Callaghan
    Department of Biochemistry, University of Cambridge, 80 Tennis Court Road, Cambridge CB2 1GA, UK
    Nature 437:1187-91. 2005
    ..The structure explains how the recognition of the 5' terminus of the substrate may trigger catalysis and also sheds light on the question of how RNase E might selectively process, rather than destroy, specific RNA precursors...
  91. pmc Translational repression is sufficient for gene silencing by bacterial small noncoding RNAs in the absence of mRNA destruction
    Teppei Morita
    Division of Biological Science, Graduate School of Science, Nagoya University, Chikusa, Nagoya 464 8602, Japan
    Proc Natl Acad Sci U S A 103:4858-63. 2006
    ..One possible physiological role of mRNA degradation mediated by sRNP is to rid the cell of translationally inactive mRNAs, making gene silencing irreversible...
  92. ncbi The role of endoribonucleases in the regulation of RNase R
    Fatima Cairrao
    Instituto de Tecnologia Quimica e Biologica, Universidade Nova de Lisboa, Apt 127, 2781 901 Oeiras, Portugal
    Biochem Biophys Res Commun 343:731-7. 2006
    ..These results demonstrated that other ribonucleases can act as an additional level of regulation in the control of the expression of RNase R...
  93. pmc Translational control and target recognition by Escherichia coli small RNAs in vivo
    Johannes H Urban
    Max Planck Institute for Infection Biology, RNA Biology Group, Chariteplatz 1, 10117 Berlin, Germany
    Nucleic Acids Res 35:1018-37. 2007
    ..We expect our GFP fusion approach to be applicable to sRNA targets of other bacteria, and also demonstrate that Vibrio RyhB sRNA represses a Vibrio sodB fusion when co-expressed in E.coli...
  94. ncbi Mechanism of RNA silencing by Hfq-binding small RNAs
    Hiroji Aiba
    Division of Biological Science, Graduate School of Science, Nagoya University, Chikusa, Nagoya 464 8602, Japan
    Curr Opin Microbiol 10:134-9. 2007
    ..Hfq accelerates the rate of duplex formation between SgrS and the target mRNA. Membrane localization of target mRNA contributes to efficient SgrS action by competing with ribosome loading...
  95. ncbi The gene specifying RNase E (rne) and a gene affecting mRNA stability (ams) are the same gene
    L Taraseviciene
    Department of Molecular Microbiology, Washington University School of Medicine, St Louis, Missouri 63110
    Mol Microbiol 5:851-5. 1991
    A DNA clone complementing the rne-3071 mutation has been expressed and localized in the physical map of Escherichia coli. The DNA fragment from this clone was localized to the region of the E...
  96. ncbi Analysis of a myosin-like protein and the role of calcium in the E. coli cell cycle
    S Casaregola
    Institut de Genetique et Microbiologie, Universite Paris Sud, Orsay, France
    Res Microbiol 142:201-7. 1991
    ..coli cell cycle. We shall also briefly indicate recent data from other laboratories consistent with our general hypothesis...
  97. pmc Sequencing and expression of the rne gene of Escherichia coli
    A K Chauhan
    Department of Molecular Microbiology, Washington University School of Medicine, St Louis, MO 63110
    Nucleic Acids Res 19:125-9. 1991
    ..We have sequenced a 3.2 kb EcoRI-BamHI fragment encoding the rne gene, and identified its reading frame...
  98. pmc Gene rne affects the structure of the ribonucleic acid-processing enzyme ribonuclease E of Escherichia coli
    T K Misra
    J Bacteriol 142:359-61. 1980
    The activity, ribonuclease E, isolated from an rne mutant was irreversibly inactivated at lower temperatures than ribonuclease E isolated from a wild-type strain...
  99. ncbi Maturation of 5-S rRNA: ribonuclease E cleavages and their dependence on precursor sequences
    M K Roy
    Eur J Biochem 131:119-27. 1983
    ..Finally, the removal of as little as seven nucleotides from the 5' end of 8-S RNA rendered it almost completely unsuitable as a substrate for RNase E...
  100. ncbi Coupling between mRNA synthesis and mRNA stability in Escherichia coli
    J Chow
    Department of Biochemistry and Molecular Biology, University of British Columbia, Vancouver
    Mol Microbiol 11:919-31. 1994
    ..The mechanism that links mRNA synthesis to mRNA decay is not known...
  101. ncbi Improved recombinant tandem expression of translation initiation factor IF2 in RNASE E deficient E. coli cells
    K K Mortensen
    Department of Chemistry, Aarhus University, Denmark
    Biochem Biophys Res Commun 214:1254-9. 1995
    ..This observation may have a more general application within the field of recombinant protein production and expression efficiency...