rna stability

Summary

Summary: The extent to which an RNA molecule retains its structural integrity and resists degradation by RNASE, and base-catalyzed HYDROLYSIS, under changing in vivo or in vitro conditions.

Top Publications

  1. pmc Coding-sequence determinants of gene expression in Escherichia coli
    Grzegorz Kudla
    Department of Biology and Program in Applied Mathematics and Computational Science, University of Pennsylvania, Philadelphia, PA 19104, USA
    Science 324:255-8. 2009
  2. pmc Ribosome profiling shows that miR-430 reduces translation before causing mRNA decay in zebrafish
    Ariel A Bazzini
    Department of Genetics, Yale University School of Medicine, New Haven, CT 06510, USA
    Science 336:233-7. 2012
  3. ncbi Zebrafish MiR-430 promotes deadenylation and clearance of maternal mRNAs
    Antonio J Giraldez
    Developmental Genetics Program, Skirball Institute of Biomolecular Medicine, and Department of Cell Biology, New York University School of Medicine, New York, NY 10016, USA
    Science 312:75-9. 2006
  4. pmc Stress granules and processing bodies are dynamically linked sites of mRNP remodeling
    Nancy Kedersha
    Division of Rheumatology and Immunology, Harvard Medical School, Brigham and Women s Hospital, Boston, MA 02115, USA
    J Cell Biol 169:871-84. 2005
  5. pmc Integrative regulatory mapping indicates that the RNA-binding protein HuR couples pre-mRNA processing and mRNA stability
    Neelanjan Mukherjee
    Department of Molecular Genetics and Microbiology, Duke University Medical Center, Durham, NC 27710, USA
    Mol Cell 43:327-39. 2011
  6. ncbi The many pathways of RNA degradation
    Jonathan Houseley
    Wellcome Trust Centre for Cell Biology, University of Edinburgh, EH9 3JR, UK
    Cell 136:763-76. 2009
  7. pmc Regulation of cytoplasmic mRNA decay
    Daniel R Schoenberg
    Department of Molecular and Cellular Biochemistry and Center for RNA Biology, The Ohio State University, Columbus, Ohio 43210, USA
    Nat Rev Genet 13:246-59. 2012
  8. ncbi The highways and byways of mRNA decay
    Nicole L Garneau
    Department of Microbiology, Immunology and Pathology, Colorado State University, Fort Collins, Colorado 80523, USA
    Nat Rev Mol Cell Biol 8:113-26. 2007
  9. ncbi RNA exosome depletion reveals transcription upstream of active human promoters
    Pascal Preker
    Centre for mRNP Biogenesis and Metabolism, Department of Molecular Biology, C F Møllers Alle, Building 1130, Aarhus University, Denmark
    Science 322:1851-4. 2008
  10. ncbi Human catechol-O-methyltransferase haplotypes modulate protein expression by altering mRNA secondary structure
    A G Nackley
    Center for Neurosensory Disorders, University of North Carolina, Chapel Hill, NC 27599, USA
    Science 314:1930-3. 2006

Detail Information

Publications365 found, 100 shown here

  1. pmc Coding-sequence determinants of gene expression in Escherichia coli
    Grzegorz Kudla
    Department of Biology and Program in Applied Mathematics and Computational Science, University of Pennsylvania, Philadelphia, PA 19104, USA
    Science 324:255-8. 2009
    ..In our analysis, mRNA folding and associated rates of translation initiation play a predominant role in shaping expression levels of individual genes, whereas codon bias influences global translation efficiency and cellular fitness...
  2. pmc Ribosome profiling shows that miR-430 reduces translation before causing mRNA decay in zebrafish
    Ariel A Bazzini
    Department of Genetics, Yale University School of Medicine, New Haven, CT 06510, USA
    Science 336:233-7. 2012
    ..These results show that miR-430 regulates translation initiation before inducing mRNA decay during zebrafish development...
  3. ncbi Zebrafish MiR-430 promotes deadenylation and clearance of maternal mRNAs
    Antonio J Giraldez
    Developmental Genetics Program, Skirball Institute of Biomolecular Medicine, and Department of Cell Biology, New York University School of Medicine, New York, NY 10016, USA
    Science 312:75-9. 2006
    ..We also show that miR-430 accelerates the deadenylation of target mRNAs. These results suggest that miR-430 facilitates the deadenylation and clearance of maternal mRNAs during early embryogenesis...
  4. pmc Stress granules and processing bodies are dynamically linked sites of mRNP remodeling
    Nancy Kedersha
    Division of Rheumatology and Immunology, Harvard Medical School, Brigham and Women s Hospital, Boston, MA 02115, USA
    J Cell Biol 169:871-84. 2005
    ..We propose that mRNA released from disassembled polysomes is sorted and remodeled at SGs, from which selected transcripts are delivered to PBs for degradation...
  5. pmc Integrative regulatory mapping indicates that the RNA-binding protein HuR couples pre-mRNA processing and mRNA stability
    Neelanjan Mukherjee
    Department of Molecular Genetics and Microbiology, Duke University Medical Center, Durham, NC 27710, USA
    Mol Cell 43:327-39. 2011
    ..We conclude that HuR coordinates gene expression outcomes at multiple interconnected steps of RNA processing...
  6. ncbi The many pathways of RNA degradation
    Jonathan Houseley
    Wellcome Trust Centre for Cell Biology, University of Edinburgh, EH9 3JR, UK
    Cell 136:763-76. 2009
    ..Because RNA degradation is ubiquitous in all cells, it is clear that it must be carefully controlled to accurately recognize target RNAs. How this is achieved is perhaps the most pressing question in the field...
  7. pmc Regulation of cytoplasmic mRNA decay
    Daniel R Schoenberg
    Department of Molecular and Cellular Biochemistry and Center for RNA Biology, The Ohio State University, Columbus, Ohio 43210, USA
    Nat Rev Genet 13:246-59. 2012
    ..This Review examines our current understanding of how mammalian cell mRNA decay is controlled by different signalling pathways and lays out a framework for future research...
  8. ncbi The highways and byways of mRNA decay
    Nicole L Garneau
    Department of Microbiology, Immunology and Pathology, Colorado State University, Fort Collins, Colorado 80523, USA
    Nat Rev Mol Cell Biol 8:113-26. 2007
    ..In this article, we discuss some of the mechanisms that are used by the cell to mediate and regulate this intriguing process...
  9. ncbi RNA exosome depletion reveals transcription upstream of active human promoters
    Pascal Preker
    Centre for mRNP Biogenesis and Metabolism, Department of Molecular Biology, C F Møllers Alle, Building 1130, Aarhus University, Denmark
    Science 322:1851-4. 2008
    ..We propose that PROMPT transcription is a common characteristic of RNA polymerase II (RNAPII) transcribed genes with a possible regulatory potential...
  10. ncbi Human catechol-O-methyltransferase haplotypes modulate protein expression by altering mRNA secondary structure
    A G Nackley
    Center for Neurosensory Disorders, University of North Carolina, Chapel Hill, NC 27599, USA
    Science 314:1930-3. 2006
    ..These data highlight the functional significance of synonymous variations and suggest the importance of haplotypes over single-nucleotide polymorphisms for analysis of genetic variations...
  11. pmc Genome-wide determination of RNA stability reveals hundreds of short-lived noncoding transcripts in mammals
    Hidenori Tani
    Radioisotope Center, The University of Tokyo, 2 11 16 Yayoi, Bunkyo ku, Tokyo, Japan
    Genome Res 22:947-56. 2012
    ..the half-life of each mRNA is closely related to its physiological function, raising the possibility that the RNA stability of an ncRNA reflects its function...
  12. ncbi Nonsense surveillance regulates expression of diverse classes of mammalian transcripts and mutes genomic noise
    Joshua T Mendell
    Institute of Genetic Medicine, Johns Hopkins University School of Medicine, 539 Broadway Research Building, 733 N Broadway, Baltimore, Maryland 21205, USA
    Nat Genet 36:1073-8. 2004
    ....
  13. ncbi RNA degradation by the exosome is promoted by a nuclear polyadenylation complex
    John LaCava
    Wellcome Trust Centre for Cell Biology, University of Edinburgh, Edinburgh EH9 3JR, UK
    Cell 121:713-24. 2005
    ..We speculate that this function was maintained in eukaryotic nuclei, while cytoplasmic mRNA poly(A) tails acquired different roles in translation...
  14. pmc AU-rich elements and associated factors: are there unifying principles?
    Carine Barreau
    UMR 6061 CNRS Génétique et développement, IFR 140 Génétique Fonctionnelle Agronomie et Santé, Universite de Rennes 1, Faculte de Medecine, CS 34317, 35043 Rennes Cedex, France
    Nucleic Acids Res 33:7138-50. 2005
    ..The potential relationship between mRNA stability and translation is also discussed. Finally, we present several hypotheses that could unify the published data and suggest avenues for future research...
  15. ncbi RNase E: at the interface of bacterial RNA processing and decay
    George A Mackie
    Department of Biochemistry and Molecular Biology, Life Sciences Centre, The University of British Columbia, Vancouver, British Columbia V6T 1Z3, Canada
    Nat Rev Microbiol 11:45-57. 2013
    ..I also propose a new model to rationalize the mechanism of RNase E action in the context of its localization in the bacterial cell...
  16. pmc Genome-wide analysis of long noncoding RNA stability
    Michael B Clark
    Institute for Molecular Bioscience, The University of Queensland, Brisbane, QLD 4072, Australia
    Genome Res 22:885-98. 2012
    ..We have created an online interactive resource (http://stability.matticklab.com) that allows easy navigation of lncRNA and mRNA stability profiles and provides a comprehensive annotation of ~7200 mouse lncRNAs...
  17. pmc Kinetic analysis reveals successive steps leading to miRNA-mediated silencing in mammalian cells
    Julien Béthune
    Friedrich Miescher Institute for Biomedical Research, Maulbeerstrasse 66, 4058 Basel, Switzerland
    EMBO Rep 13:716-23. 2012
    ..This step is followed by mRNA deadenylation and decay, which is the dominant effect at steady state. Our findings have important implications for understanding the mechanism of silencing and reconcile seemingly contradictory data...
  18. ncbi Synonymous mutations in the human dopamine receptor D2 (DRD2) affect mRNA stability and synthesis of the receptor
    Jubao Duan
    Schizophrenia Genetics Research Program, Department of Psychiatry, The University of Chicago, Jules F Knapp Medical Research Center, Chicago, IL 60637, USA
    Hum Mol Genet 12:205-16. 2003
    ....
  19. ncbi P bodies: at the crossroads of post-transcriptional pathways
    Ana Eulalio
    Max Planck Institute for Developmental Biology, Spemannstrasse 35, D 72076 Tubingen, Germany
    Nat Rev Mol Cell Biol 8:9-22. 2007
    ....
  20. ncbi HuR and mRNA stability
    C M Brennan
    Department of Molecular Biophysics and Biochemistry, Howard Hughes Medical Institute, Yale University School of Medicine, New Haven, Connecticut 06536, USA
    Cell Mol Life Sci 58:266-77. 2001
    ..The influence of newly identified protein ligands to HuR on HuR function in both normal and stressed cells may explain how ARE-mediated mRNA decay is regulated in response to environmental change...
  21. pmc Database for mRNA half-life of 19 977 genes obtained by DNA microarray analysis of pluripotent and differentiating mouse embryonic stem cells
    Lioudmila V Sharova
    Developmental Genomics and Aging Section, Laboratory of Genetics, National Institute on Aging, NIH, 251 Bayview Boulevard, Suite 100, Baltimore, MD 21224, USA
    DNA Res 16:45-58. 2009
    ..The mRNA decay rates presented in this report are the largest data set for mammals and the first for ES cells...
  22. ncbi A single subunit, Dis3, is essentially responsible for yeast exosome core activity
    Andrzej Dziembowski
    Equipe Labellisée La Ligue, Centre de Genetique Moleculaire, Centre National de la Recherche Scientifique UPR2167, associée à l Université Pierre et Marie Curie, Avenue de la Terrasse, 91198 Gif sur Yvette Cedex, France
    Nat Struct Mol Biol 14:15-22. 2007
    ..We observed that the yeast exosome ring mediates interactions with protein partners, providing an explanation for its essential function...
  23. pmc Single-molecule mRNA decay measurements reveal promoter- regulated mRNA stability in yeast
    Tatjana Trcek
    Anatomy and Structural Biology, Albert Einstein College of Medicine, Bronx, NY 10461, USA
    Cell 147:1484-97. 2011
    ..This work reveals the promoter-dependent control of mRNA stability, a regulatory mechanism that could be employed by a variety of mRNAs and organisms...
  24. pmc Polysomes, P bodies and stress granules: states and fates of eukaryotic mRNAs
    Vidya Balagopal
    Department of Molecular and Cellular Biology and Howard Hughes Medical Institute, University of Arizona, Tucson, AZ 85721 0206, USA
    Curr Opin Cell Biol 21:403-8. 2009
    ..Here we discuss how these different granules suggest a dynamic model for the metabolism of cytoplasmic mRNAs wherein they cycle between different mRNP states with different functional properties and subcellular locations...
  25. pmc Mammalian miRNA RISC recruits CAF1 and PABP to affect PABP-dependent deadenylation
    Marc R Fabian
    Department of Biochemistry, McGill University, Montreal, QC H3G 1Y6, Canada
    Mol Cell 35:868-80. 2009
    ..Importantly, we present evidence that GW182, a core component of the miRISC, directly interacts with PABP via its C-terminal region and that this interaction is required for miRNA-mediated deadenylation...
  26. pmc Upf1 phosphorylation triggers translational repression during nonsense-mediated mRNA decay
    Olaf Isken
    Department of Biochemistry and Biophysics, School of Medicine and Dentistry, 601 Elmwood Avenue, Box 712, University of Rochester, Rochester, NY 14642, USA
    Cell 133:314-27. 2008
    ..Our results uncover a critical step during NMD that converts a pioneer translation initiation complex to a translationally compromised mRNP...
  27. 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...
  28. ncbi Antisense RNA stabilization induces transcriptional gene silencing via histone deacetylation in S. cerevisiae
    Jurgi Camblong
    Department of Cell Biology, Sciences III, University of Geneva, 30 quai E Ansermet, 1211 Geneva 4, Switzerland
    Cell 131:706-17. 2007
    ....
  29. pmc Edc3p and a glutamine/asparagine-rich domain of Lsm4p function in processing body assembly in Saccharomyces cerevisiae
    Carolyn J Decker
    Department of Molecular and Cellular Biology and Howard Hughes Medical Institute, University of Arizona, Tucson, AZ 85721
    J Cell Biol 179:437-49. 2007
    ..These results suggest a stepwise model for P-body assembly with the initial formation of a core mRNA-protein complex that then aggregates through multiple specific mechanisms...
  30. ncbi Quality control of eukaryotic mRNA: safeguarding cells from abnormal mRNA function
    Olaf Isken
    Department of Biochemistry and Biophysics, School of Medicine and Dentistry, University of Rochester, Rochester, New York 14642, USA
    Genes Dev 21:1833-56. 2007
    ..Along with other types of quality control that occur during the complex processes of mRNA biogenesis, these mRNA surveillance mechanisms help to ensure the integrity of protein-encoding gene expression...
  31. pmc Small RNA-induced mRNA degradation achieved through both translation block and activated cleavage
    Karine Prévost
    Department of Biochemistry, RNA Group, University of Sherbrooke, Sherbrooke, Quebec J1H 5N4, Canada
    Genes Dev 25:385-96. 2011
    ..Thus, beyond translation initiation block, sRNA-induced mRNA cleavage requires several unexpected steps, many of which are determined by structural features of the target mRNA...
  32. ncbi Nonsense-mediated mRNA decay in human cells: mechanistic insights, functions beyond quality control and the double-life of NMD factors
    Pamela Nicholson
    Institute of Cell Biology, University of Bern, Baltzerstrasse 4, 3012, Bern, Switzerland
    Cell Mol Life Sci 67:677-700. 2010
    ..In recent years, the discovery of additional functions played by several of the NMD factors has further complicated the picture. Therefore, we also review the reported roles of UPF1, SMG1 and SMG6 in other cellular processes...
  33. pmc CleaveLand: a pipeline for using degradome data to find cleaved small RNA targets
    Charles Addo-Quaye
    Department of Computer Science and Engineering and Department of Biology, Pennsylvania State University, University Park, PA 16802, USA
    Bioinformatics 25:130-1. 2009
    ..CleaveLand can thus be applied to degradome data from any species provided a set of mRNA transcripts and a set of query miRNAs or other small RNAs are available...
  34. pmc miR-503 represses CUG-binding protein 1 translation by recruiting CUGBP1 mRNA to processing bodies
    Yu Hong Cui
    Department of Surgery, University of Maryland School of Medicine, Baltimore, MD 21201, USA
    Mol Biol Cell 23:151-62. 2012
    ..These findings identify miR-503 as both a novel regulator of CUGBP1 expression and a modulator of intestinal epithelial homoeostasis...
  35. pmc Three essential ribonucleases-RNase Y, J1, and III-control the abundance of a majority of Bacillus subtilis mRNAs
    Sylvain Durand
    CNRS UPR 9073, University Paris Diderot, Sorbonne Paris Cité, Institut de Biologie Physico Chimique, Paris, France
    PLoS Genet 8:e1002520. 2012
    ..Lastly, RNase depletion led to the stabilization of many low-abundance potential regulatory RNAs, both in intergenic regions and in the antisense orientation to known transcripts...
  36. ncbi Posttranscriptional regulation of microRNA biogenesis in animals
    Haruhiko Siomi
    Department of Molecular Biology, Keio University School of Medicine, 35 Shinanomachi, Shinjuku ku, Tokyo 160 8582, Japan
    Mol Cell 38:323-32. 2010
    ..Here, we discuss recent studies that shed light on how multiple steps in the miRNA biogenesis pathway are regulated to modulate miRNA function in animals...
  37. pmc The regulation of mRNA stability in mammalian cells: 2.0
    Xiangyue Wu
    Department of Molecular Genetics, UMDNJ Robert Wood Johnson Medical School, Piscataway, NJ 08854, USA
    Gene 500:10-21. 2012
    ..This review is an update to our 2001 Gene review on mRNA stability in mammalian cells, and we survey the enormous progress made over the past decade...
  38. pmc Co-transcriptional degradation of aberrant pre-mRNA by Xrn2
    Lee Davidson
    Wellcome Trust Centre for Cell Biology, University of Edinburgh, Edinburgh, UK
    EMBO J 31:2566-78. 2012
    ..Our data therefore establish a previously unknown function for Xrn2 and an important further aspect of pre-mRNA metabolism that occurs co-transcriptionally...
  39. pmc Not1 mediates recruitment of the deadenylase Caf1 to mRNAs targeted for degradation by tristetraprolin
    Heike Sandler
    Helmholtz Junior Research Group Posttranscriptional Control of Gene Expression, German Cancer Research Center, DKFZ ZMBH Alliance, Im Neuenheimer Feld 280, 69120 Heidelberg, Germany
    Nucleic Acids Res 39:4373-86. 2011
    ..Thus, cytoplasmic Not1 provides a platform that allows a specific RNA binding protein to recruit the Caf1 deadenylase and thereby trigger decay of its target mRNAs...
  40. ncbi A hexanucleotide element directs microRNA nuclear import
    Hun Way Hwang
    Program in Human Genetics and Molecular Biology, McKusick Nathans Institute of Genetic Medicine, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA
    Science 315:97-100. 2007
    ..Our results indicate that miRNAs sharing common 5' sequences, considered to be largely redundant, might have distinct functions because of the influence of cis-acting regulatory motifs...
  41. pmc Decapping activators in Saccharomyces cerevisiae act by multiple mechanisms
    Tracy Nissan
    Department of Molecular Biology, Umea University, SE 901 87 Umea, Sweden
    Mol Cell 39:773-83. 2010
    ..Moreover, Pat1 is identified as critical in mRNA decay by first inhibiting translation initiation, then serving as a scaffold to recruit components of the decapping complex, and finally activating Dcp2...
  42. ncbi Construction of Parallel Analysis of RNA Ends (PARE) libraries for the study of cleaved miRNA targets and the RNA degradome
    Marcelo A German
    Delaware Biotechnology Institute, University of Delaware, Newark, DE 19711, USA
    Nat Protoc 4:356-62. 2009
    ..The data are then matched to cDNAs and analyzed through bioinformatics filters. We describe the high-throughput protocol in detail and indicate alternative uses for PARE. The procedure presented here can be accomplished in 6-7 d...
  43. pmc Dynamic transcriptome analysis measures rates of mRNA synthesis and decay in yeast
    Christian Miller
    Gene Center and Department of Biochemistry, Center for Integrated Protein Science CIPSM, Ludwig Maximilians Universitat Munchen, Munich, Germany
    Mol Syst Biol 7:458. 2011
    ..Thus, DTA realistically monitors the dynamics in mRNA metabolism that underlie gene regulatory systems...
  44. ncbi Termination of cryptic unstable transcripts is directed by yeast RNA-binding proteins Nrd1 and Nab3
    John T Arigo
    Department of Molecular Biology and Genetics, Johns Hopkins University School of Medicine, 725 North Wolfe Street, Baltimore, Maryland 21205, USA
    Mol Cell 23:841-51. 2006
    ..These results suggest that transcription termination of CUTs directed by Nrd1 and Nab3 is a prerequisite for rapid degradation by the nuclear exosome...
  45. pmc A universal trend of reduced mRNA stability near the translation-initiation site in prokaryotes and eukaryotes
    Wanjun Gu
    Key Laboratory of Child Development and Learning Science of Ministry of Education of China, Southeast University, Nanjing, Jiangsu, China
    PLoS Comput Biol 6:e1000664. 2010
    ..We suggest that the origin of this reduction is selection for efficient recognition of the start codon by initiator-tRNA...
  46. ncbi The critical role of RNA processing and degradation in the control of gene expression
    Cecilia M Arraiano
    Instituto de Tecnologia Quimica e Biologica, Universidade Nova de Lisboa, Apartado 127, 2781 901 Oeiras, Portugal
    FEMS Microbiol Rev 34:883-923. 2010
    ..In general, RNases act as a global regulatory network extremely important for the regulation of RNA levels...
  47. ncbi Nonsense-mediated mRNA decay (NMD) mechanisms
    Saverio Brogna
    University of Birmingham, School of Biosciences, Edgbaston, Birmingham B15 2TT, UK
    Nat Struct Mol Biol 16:107-13. 2009
    ..Here we discuss the limitations of the new NMD model and the EJC concept; we argue that neither satisfactorily accounts for all of the available data and offer a new model to test in future studies...
  48. ncbi Decay of endoplasmic reticulum-localized mRNAs during the unfolded protein response
    Julie Hollien
    Department of Cellular and Molecular Pharmacology, University of California San Francisco, Howard Hughes Medical Institute, San Francisco, CA 94143, USA
    Science 313:104-7. 2006
    ..This response is well suited to complement other UPR mechanisms because it could selectively halt production of proteins that challenge the ER and clear the translocation and folding machinery for the subsequent remodeling process...
  49. pmc Transcriptome kinetics is governed by a genome-wide coupling of mRNA production and degradation: a role for RNA Pol II
    Ophir Shalem
    Department of Molecular Genetics, Weizmann Institute of Science, Rehovot, Israel
    PLoS Genet 7:e1002273. 2011
    ..The model shows how a simple manipulation of the rates of co-transcriptional mRNA imprinting by Pol II may govern genome-wide transcriptome kinetics in response to environmental changes...
  50. pmc Global RNA half-life analysis in Escherichia coli reveals positional patterns of transcript degradation
    Douglas W Selinger
    Harvard Medical School, Department of Genetics, Boston, Massachusetts 02115, USA
    Genome Res 13:216-23. 2003
    ..We discuss the application of subgenic resolution DNA microarray analysis to study global mechanisms of RNA transcription and processing...
  51. pmc A periodic pattern of mRNA secondary structure created by the genetic code
    Svetlana A Shabalina
    National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA
    Nucleic Acids Res 34:2428-37. 2006
    ....
  52. pmc Endonucleolytic cleavage of eukaryotic mRNAs with stalls in translation elongation
    Meenakshi K Doma
    Howard Hughes Medical Institute, Department of Molecular and Cellular Biology, University of Arizona, Tucson, Arizona 85721, USA
    Nature 440:561-4. 2006
    ..No-go decay provides a mechanism for clearing the cell of stalled translation elongation complexes, which could occur as a result of damaged mRNAs or ribosomes, or as a mechanism of post-transcriptional control...
  53. pmc Deadenylation is a widespread effect of miRNA regulation
    Ana Eulalio
    Max Planck Institute for Developmental Biology, D 72076 Tubingen, Germany
    RNA 15:21-32. 2009
    ..These results indicate that miRNAs promote mRNA decay by altering mRNP composition and/or conformation, rather than by directly interfering with the binding and function of ribosomal subunits...
  54. ncbi Zc3h12a is an RNase essential for controlling immune responses by regulating mRNA decay
    Kazufumi Matsushita
    Laboratory of Host Defense, WPI Immunology Frontier Research Center, Osaka University, 3 1 Yamada oka, Suita, Osaka 565 0871, Japan
    Nature 458:1185-90. 2009
    ..Together, these results indicate that Zc3h12a is an essential RNase that prevents immune disorders by directly controlling the stability of a set of inflammatory genes...
  55. pmc The multiple lives of NMD factors: balancing roles in gene and genome regulation
    Olaf Isken
    Department of Biochemistry and Biophysics, School of Medicine and Dentistry, University of Rochester, New York 14642, USA
    Nat Rev Genet 9:699-712. 2008
    ..These findings suggest a delicate balance of metabolic events - some not obviously related to NMD - that can be influenced by the cellular abundance, location and activity of NMD factors and their binding partners...
  56. pmc High-resolution gene expression profiling for simultaneous kinetic parameter analysis of RNA synthesis and decay
    Lars Dölken
    Max von Pettenkofer Institute, Ludwig Maximilians University Munich, Munich 80337, Germany
    RNA 14:1959-72. 2008
    ....
  57. pmc P-body formation is a consequence, not the cause, of RNA-mediated gene silencing
    Ana Eulalio
    Max Planck Institute for Developmental Biology, Spemannstrasse 35, D 72076 Tubingen, Germany
    Mol Cell Biol 27:3970-81. 2007
    ..Thus, even though P-body components play crucial roles in mRNA silencing and decay, aggregation into P bodies is not required for function but is instead a consequence of their activity...
  58. ncbi Execution of nonsense-mediated mRNA decay: what defines a substrate?
    Indrani Rebbapragada
    Department of Molecular, Cellular and Developmental Biology, University of Colorado, Boulder, CO 80309, USA
    Curr Opin Cell Biol 21:394-402. 2009
    ..This leads to mRNA decay following translational repression. Recent evidence suggests that in Drosophila and human cells, decay is initiated by the endonuclease Smg6...
  59. pmc Differential regulation of microRNA stability
    Sophie Bail
    Department of Cell Biology and Neuroscience, Rutgers University, Piscataway, New Jersey 08854 8082, USA
    RNA 16:1032-9. 2010
    ..The development of a biochemically amendable system to analyze the mechanism of differential miRNA stability provides an important step in efforts to regulate gene expression by modulating miRNA stability...
  60. pmc tRNA cleavage is a conserved response to oxidative stress in eukaryotes
    Debrah M Thompson
    Department of Molecular and Cellular Biology, University of Arizona, Tucson, Arizona 85721, USA
    RNA 14:2095-103. 2008
    ..Similar tRNA fragments are also observed in human cell lines and in plants during oxidative stress. These results demonstrate that tRNA cleavage is a conserved aspect of the response to oxidative stress...
  61. ncbi RNA polymerase II subunits link transcription and mRNA decay to translation
    Liat Harel-Sharvit
    Department of Molecular Microbiology, Rappaport Faculty of Medicine, Technion Israel Institute of Technology, Haifa, 31096, Israel
    Cell 143:552-63. 2010
    ..We propose that Rpb4/7, through its interactions at each step in the mRNA lifecycle, represents a class of factors, "mRNA coordinators," which integrate the various stages of gene expression into a system...
  62. pmc The exoribonuclease Dis3L2 defines a novel eukaryotic RNA degradation pathway
    Michal Malecki
    Instituto de Tecnologia Quimica e Biologica, Universidade Nova de Lisboa, Oeiras, Portugal
    EMBO J 32:1842-54. 2013
    ..pombe, and possibly in most other eukaryotes, Dis3L2 is an important factor in mRNA degradation. Therefore, this novel 3'-5' RNA decay pathway represents an alternative to degradation by Xrn1 and the exosome. ..
  63. pmc Site-specific binding of a PPR protein defines and stabilizes 5' and 3' mRNA termini in chloroplasts
    Jeannette Pfalz
    Institute of Molecular Biology, University of Oregon, Eugene, OR 97403, USA
    EMBO J 28:2042-52. 2009
    ..These results, together with recent insights into bacterial RNA decay, suggest a unifying model for the biogenesis of chloroplast transcript populations and for the determinants of chloroplast mRNA stability...
  64. pmc Genome-wide identification of alternative splice forms down-regulated by nonsense-mediated mRNA decay in Drosophila
    Kasper Daniel Hansen
    Division of Biostatistics, School of Public Health, University of California Berkeley, Berkeley, CA, USA
    PLoS Genet 5:e1000525. 2009
    ..Most notably, we found that the NMD-target mRNAs had significantly longer 3' untranslated regions (UTRs) than the nontarget isoforms of the same genes, supporting a role for 3' UTR length in the recognition of NMD targets in fly...
  65. pmc p38 Mitogen-activated protein kinase- and HuR-dependent stabilization of p21(Cip1) mRNA mediates the G(1)/S checkpoint
    Vanesa Lafarga
    CNIO Spanish National Cancer Center, Melchor Fernandez Almagro 3, 28029 Madrid, Spain
    Mol Cell Biol 29:4341-51. 2009
    ..Our findings help to understand the emerging role of p38 MAPK in the cellular responses to DNA damage and reveal the existence of p53-independent networks that cooperate in modulating p21(Cip1) levels at the G(1)/S checkpoint...
  66. 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...
  67. pmc The stability of mRNA influences the temporal order of the induction of genes encoding inflammatory molecules
    Shengli Hao
    Division of Biology, California Institute of Technology, Pasadena, California 91125, USA
    Nat Immunol 10:281-8. 2009
    ..Thus, mRNA stability and transcriptional control, two intrinsic characteristics of genes, control the kinetics of gene expression induced by proinflammatory cytokines...
  68. pmc Target RNA-directed trimming and tailing of small silencing RNAs
    Stefan L Ameres
    Howard Hughes Medical Institute and Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, Worcester, MA 01605, USA
    Science 328:1534-9. 2010
    ..Target complementarity also affects small RNA stability in human cells...
  69. ncbi Multiple processing body factors and the ARE binding protein TTP activate mRNA decapping
    Martin Fenger-Grøn
    Molecular, Cellular and Developmental Biology, University of Colorado, Boulder, 80309, USA
    Mol Cell 20:905-15. 2005
    ..These observations suggest that multiple proteins involved in human decapping are important subunits of PBs and are activated on ARE-mRNAs by the protein TTP...
  70. pmc Ribonucleases J1 and J2: two novel endoribonucleases in B.subtilis with functional homology to E.coli RNase E
    Sergine Even
    CNRS UPR9073, IBPC 13 rue P et M Curie, 75005 Paris, France
    Nucleic Acids Res 33:2141-52. 2005
    ..RNases J1/J2 appear to be implicated in regulatory processing/maturation of specific mRNAs, such as the T-box family members thrS and thrZ, but may also contribute to global mRNA degradation...
  71. pmc Processing bodies require RNA for assembly and contain nontranslating mRNAs
    Daniela Teixeira
    Department of Molecular and Cellular Biology and Howard Hughes Medical Institute, University of Arizona, Tucson, AZ 85721 0106, USA
    RNA 11:371-82. 2005
    ..Fourth, multiple translation factors and ribosomal proteins are lacking from P-bodies. These results suggest additional biological roles of P-bodies in addition to being sites of mRNA degradation...
  72. ncbi Promoter elements regulate cytoplasmic mRNA decay
    Almog Bregman
    Department of Molecular Microbiology, Technion Israel Institute of Technology, Haifa 31096, Israel
    Cell 147:1473-83. 2011
    ..Thus, promoters can play key roles in determining mRNA levels and have the capacity to coordinate rates of mRNA synthesis and decay...
  73. pmc Widespread selection for local RNA secondary structure in coding regions of bacterial genes
    Luba Katz
    Department of Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
    Genome Res 13:2042-51. 2003
    ..These results are interpreted in terms of possible roles of RNA structures in RNA processing, regulation of mRNA stability, and translational control...
  74. pmc Systematic analysis of cis-elements in unstable mRNAs demonstrates that CUGBP1 is a key regulator of mRNA decay in muscle cells
    Jerome E Lee
    Program in Cell and Molecular Biology, Colorado State University, Fort Collins, Colorado, USA
    PLoS ONE 5:e11201. 2010
    ..Moreover, just as transcription factor activity varies between different cell types, the factors influencing mRNA decay are also cell-type specific...
  75. ncbi Coding sequence targeting by MicC RNA reveals bacterial mRNA silencing downstream of translational initiation
    Verena Pfeiffer
    Max Planck Institute for Infection Biology, RNA Biology Group, Berlin, Germany
    Nat Struct Mol Biol 16:840-6. 2009
    ..The discovery of CDS targeting markedly expands the sequence space for sRNA target predictions in bacteria...
  76. pmc Phosphorylation of HuR by Chk2 regulates SIRT1 expression
    Kotb Abdelmohsen
    Laboratory of Cellular and Molecular Biology, Intramural Research Program, National Institute on Aging, National Institutes of Health, Baltimore, MD 21224, USA
    Mol Cell 25:543-57. 2007
    ..Our findings demonstrate that HuR regulates SIRT1 expression, underscore functional links between the two stress-response proteins, and implicate Chk2 in these processes...
  77. pmc Mechanism of RNA stabilization and translational activation by a pentatricopeptide repeat protein
    Jana Prikryl
    Institute of Molecular Biology, University of Oregon, Eugene, OR 97403, USA
    Proc Natl Acad Sci U S A 108:415-20. 2011
    ....
  78. pmc RNase Y, a novel endoribonuclease, initiates riboswitch turnover in Bacillus subtilis
    Karen Shahbabian
    Institut de Biologie Physico Chimique, CNRS UPR9073, affiliated with Université de Paris 7 Denis Diderot, Paris, France
    EMBO J 28:3523-33. 2009
    ..This indicates that RNase Y might be not only important for riboswitch RNA turnover but also as a key player in the initiation of mRNA decay in B. subtilis. About 40% of the sequenced eubacterial species have an RNase Y orthologue...
  79. pmc Phosphorylation of tristetraprolin by MK2 impairs AU-rich element mRNA decay by preventing deadenylase recruitment
    Sandra L Clement
    Molecular, Cellular, and Development Biology, Universit of Colorado, Boulder, Colorado 80309, USA
    Mol Cell Biol 31:256-66. 2011
    ..Thus, TTP may remain poised to rapidly reactivate deadenylation of bound transcripts to downregulate gene expression once the p38 MAPK pathway is deactivated...
  80. pmc Diverse molecular functions of Hu proteins
    M N Hinman
    Department of Genetics, School of Medicine, Case Western Reserve University, 10900 Euclid Ave, Cleveland, Ohio 44106, USA
    Cell Mol Life Sci 65:3168-81. 2008
    ..In addition, an intriguing theme of antagonism between Hu proteins and other AU-rich sequence binding proteins will be discussed...
  81. ncbi Active turnover modulates mature microRNA activity in Caenorhabditis elegans
    Saibal Chatterjee
    Friedrich Miescher Institute for Biomedical Research, PO Box 2543, CH 4002 Basel, Switzerland
    Nature 461:546-9. 2009
    ..This pathway might represent a potential target for therapeutic intervention on miRNA expression...
  82. ncbi Evolutionary changes in cis and trans gene regulation
    Patricia J Wittkopp
    Department of Molecular Biology and Genetics, Cornell University, Ithaca, New York 14853, USA
    Nature 430:85-8. 2004
    ..These data indicate that interspecific expression differences are not caused by select trans-regulatory changes with widespread effects, but rather by many cis-acting changes spread throughout the genome...
  83. pmc MK2-induced tristetraprolin:14-3-3 complexes prevent stress granule association and ARE-mRNA decay
    Georg Stoecklin
    Division of Rheumatology, Immunology, and Allergy, Brigham and Women s Hospital, Harvard Medical School, Boston, MA 02115, USA
    EMBO J 23:1313-24. 2004
    ..Our data reveal the mechanism by which the p38-MAPK/MK2 kinase cascade inhibits TTP-mediated degradation of ARE-containing transcripts and thereby contributes to lipopolysaccharide-induced TNFalpha expression...
  84. pmc RNPC1 modulates the RNA-binding activity of, and cooperates with, HuR to regulate p21 mRNA stability
    Seong Jun Cho
    Center for Comparative Oncology, The University of California, Davis, CA 95616, USA
    Nucleic Acids Res 38:2256-67. 2010
    ..Together, we hypothesize that RNPC1 modulates the RNA-binding activity of, and cooperates with, HuR to regulate p21 mRNA stability...
  85. pmc Ago-TNRC6 triggers microRNA-mediated decay by promoting two deadenylation steps
    Chyi Ying A Chen
    Department of Biochemistry and Molecular Biology, The University of Texas Medical School, Houston, Texas, USA
    Nat Struct Mol Biol 16:1160-6. 2009
    ..These findings indicate that promotion of biphasic deadenylation to trigger mRNA decay is an intrinsic property of miRISCs...
  86. pmc An RNA pyrophosphohydrolase triggers 5'-exonucleolytic degradation of mRNA in Bacillus subtilis
    Jamie Richards
    Kimmel Center for Biology and Medicine at the Skirball Institute and Department of Microbiology, New York University School of Medicine, 540 First Avenue, New York, NY 10016, USA
    Mol Cell 43:940-9. 2011
    ..This pathway, which closely resembles the mechanism by which deadenylated mRNA is degraded in eukaryotic cells, explains the stabilizing influence of 5'-terminal stem-loops in such bacteria...
  87. pmc The group A Streptococcus small regulatory RNA FasX enhances streptokinase activity by increasing the stability of the ska mRNA transcript
    Esmeralda Ramirez-Peña
    Department of Pathology, The Methodist Hospital Research Institute, Houston, TX 77030, USA
    Mol Microbiol 78:1332-47. 2010
    ..Our data provide new insights into the mechanisms used by small regulatory RNAs to activate target mRNAs, and enhances our understanding of the regulation of a key GAS virulence factor...
  88. pmc Sliced microRNA targets and precise loop-first processing of MIR319 hairpins revealed by analysis of the Physcomitrella patens degradome
    Charles Addo-Quaye
    Huck Institutes of the Life Sciences, Pennsylvania State University, University Park, Pennsylvania 16802, USA
    RNA 15:2112-21. 2009
    ..MIR319 is thus a conserved exception to the general rule of loop-last processing of MIRNA hairpins. Loop-first MIR319 processing may contribute to the high efficacy of a widely used MIR319-based strategy for aMIRNA production in plants...
  89. pmc Conserved GU-rich elements mediate mRNA decay by binding to CUG-binding protein 1
    Irina A Vlasova
    Center for Infectious Diseases and Microbiology Translational Research, University of Minnesota, Minneapolis, MN 55455, USA
    Mol Cell 29:263-70. 2008
    ..Overall, our results suggest that the GRE mediates coordinated mRNA decay by binding to CUGBP1...
  90. ncbi Regulation of RpoS by a novel small RNA: the characterization of RprA
    N Majdalani
    Laboratory of Molecular Biology, National Cancer Institute, National Institutes of Health, Bldg 37 Room 2E 18, Bethesda, MD 20892 4255, USA
    Mol Microbiol 39:1382-94. 2001
    ..The existence of two very different small RNA regulators of RpoS translation suggests that such additional regulatory RNAs are likely to exist, both for regulation of RpoS and for regulation of other important cellular components...
  91. pmc Triplex structures in an RNA pseudoknot enhance mechanical stability and increase efficiency of -1 ribosomal frameshifting
    Gang Chen
    Department of Chemistry, University of California, Berkeley, CA 94720, USA
    Proc Natl Acad Sci U S A 106:12706-11. 2009
    ..Better understanding of the molecular determinants of frameshifting efficiency may facilitate the development of anti-virus therapeutics targeting frameshifting...
  92. pmc Signatures of RNA binding proteins globally coupled to effective microRNA target sites
    Anders Jacobsen
    The Bioinformatics Centre, Department of Biology, and Biotech Research and Innovation Centre BRIC, University of Copenhagen, Copenhagen 2200, Denmark
    Genome Res 20:1010-9. 2010
    ..Our results suggest that binding sites of miRNAs and RNA-BPs should be considered in combination when interpreting and predicting miRNA regulation in vivo...
  93. pmc MAPKAP kinase 2 blocks tristetraprolin-directed mRNA decay by inhibiting CAF1 deadenylase recruitment
    Francesco P Marchese
    Kennedy Institute of Rheumatology Division, Faculty of Medicine, Imperial College London, London W6 8LH, United Kingdom
    J Biol Chem 285:27590-600. 2010
    ..Cyclooxygenase-2 mRNA stability is increased in CAF1-depleted cells in which it is no longer p38 MAPK/MK2-regulated...
  94. ncbi UPF1 is required for nonsense-mediated mRNA decay (NMD) and RNAi in Arabidopsis
    Luis Arciga-Reyes
    Centre for Plant Sciences, University of Leeds, Leeds LS2 9JT, UK
    Plant J 47:480-9. 2006
    ..Finally, gene silencing by an inverted repeat transgene is impaired in upf1-5 mutants, indicating a connection between UPF1 and RNA interference in plants...
  95. ncbi Endonucleolytic initiation of mRNA decay in Escherichia coli
    Agamemnon J Carpousis
    Laboratoire de Microbiologie et Genetique Moleculaires, CNRS et Université Paul Sabatier, 31062 Toulouse, France
    Prog Mol Biol Transl Sci 85:91-135. 2009
    ..Here, we discuss current models for mRNA degradation in E. coli and we present current thinking on the structure and function of RNase E based on recent crystal structures of its catalytic core...
  96. pmc Bidirectional promoters generate pervasive transcription in yeast
    Zhenyu Xu
    European Molecular Biology Laboratory, Meyerhofstrasse 1, 69117 Heidelberg, Germany
    Nature 457:1033-7. 2009
    ....
  97. pmc Global coordination of transcriptional control and mRNA decay during cellular differentiation
    Maria J Amorim
    Department of Biochemistry, University of Cambridge, Cambridge CB2 1QW, UK
    Mol Syst Biol 6:380. 2010
    ..Our data provide insight into the topology of regulatory networks integrating transcriptional and posttranscriptional controls...
  98. pmc Co-translational mRNA decay in Saccharomyces cerevisiae
    Wenqian Hu
    Center for RNA Molecular Biology, Case Western Reserve University, Cleveland, Ohio 44106, USA
    Nature 461:225-9. 2009
    ..The data indicate that dissociation of ribosomes from mRNA is not a prerequisite for decay and we suggest that the 5'-3' polarity of mRNA degradation has evolved to ensure that the last translocating ribosome can complete translation...
  99. pmc The role of AUF1 in regulated mRNA decay
    Frances M Gratacós
    Department of Molecular Genetics, Microbiology and Immunology, UMDNJ Robert Wood Johnson Medical School, Piscataway, New Jersey 08854 5635, USA
    Wiley Interdiscip Rev RNA 1:457-73. 2010
    ..This review briefly describes the roles of mRNA decay in gene expression in general and ARE-mediated decay (AMD) in particular, with a focus on AUF1 and the different modes of regulation that govern AUF1 involvement in AMD...
  100. ncbi Therapeutic silencing of an endogenous gene by systemic administration of modified siRNAs
    Jürgen Soutschek
    Alnylam Europe AG, Fritz Hornschuch Str 9, 95326 Kulmbach, Germany
    Nature 432:173-8. 2004
    ..These findings demonstrate the therapeutic potential of siRNAs for the treatment of disease...
  101. ncbi A moss pentatricopeptide repeat protein binds to the 3' end of plastid clpP pre-mRNA and assists with mRNA maturation
    Mitsuru Hattori
    Center for Gene Research, Nagoya University, Japan
    FEBS J 276:5860-9. 2009
    ..Taking together all of the above findings, we conclude that PpPPR_38 is necessary for several steps in the clpP mRNA maturation process...

Research Grants73

  1. Genetic variation and regulatory networks: Mechanisms and complexity
    DANA PE ER; Fiscal Year: 2009
    ..These tools will be made publicly available, including a friendly graphical user interface and visualization. ..
  2. Gamma-Synuclein-Mediated Regulation of Norepinephrine Transporter
    Anita Sidhu; Fiscal Year: 2010
    ..This grant is also relevant for the ARRA in that it will immediately create 3 new professional jobs. ..
  3. Lung Lysyl Oxidase Regulation by Metal Ion Homeostasis
    Wande Li; Fiscal Year: 2013
    ..The outcomes of the proposed research are expected to enhance our understanding of mechanisms of LO gene silence by Cd providing the basis for developing prophylaxis and treatment strategies for Cd-related lung diseases. ..
  4. Regulation of PTHrP in Squamous Cell Carcinoma by the EGF Receptor
    GWENDOLEN LORCH; Fiscal Year: 2010
    ..The results of the research will then be translated to advance the standard of human and animal cancer care worldwide. ..
  5. Thirteenth Annual Meeting of the Rocky Mountain Virology Association
    Joel Rovnak; Fiscal Year: 2013
    ..e. RNA stability and Flavivirus biology...
  6. Regulation of apoptosis by PI 3-kinase/Akt signaling
    Geoffrey M Cooper; Fiscal Year: 2012
    ..The present proposal seeks to further understand the mechanism by which this pathway regulates cell survival. Discoveries of novel targets of PI 3-kinase signaling may provide new targets for cancer treatment. ..
  7. New Molecular and Cellular Mechanisms of Glaucoma
    Andrei Surguchov; Fiscal Year: 2013
    ..The purpose of this proposal is to examine how 3-synuclein affects prosurvival/prodeath signaling and how it is implicated in MMP-9 regulation in glaucoma. ..
  8. StAR expression: Integration of Transcription with regulation via the mRNA 3'UTR
    COLIN ROBERT JEFCOATE; Fiscal Year: 2012
    ..TIS11b regulation is present in other tissues that make steroids (testis). Deficiency in this mRNA regulator may lead to more sluggish responses to ACTH and stress as well as abnormal cortisol output. ..
  9. Molecular regulation of GM-CSF expression in alveolar epithelial cells
    Robert Paine; Fiscal Year: 2013
    ..Thus, they have the potential to provide new therapeutic approaches to restore alveolar epithelial integrity while limiting unintended adverse effects. ..
  10. Enterovirus RNA Translation and Replication
    David J Barton; Fiscal Year: 2013
    ..The success of the poliovirus eradication campaign may depend upon improved poliovirus vaccines and new antiviral drugs. ..
  11. Regulation Of Inorganic Phosphorus (Pi) Metabolism By Estrogen
    Hassane Amlal; Fiscal Year: 2013
    ..This effect should be considered when prescribing estrogen, and this hormone can also be used when blood level of Pi is high (hyperphosphatemia). ..
  12. Metal-dependent phosphohydrolase activity of CvfA from Streptococcus pyogenes
    GABRIELA CITLALLI PEREZ-ALVARADO; Fiscal Year: 2012
    ..This will allow us to begin developing therapeutic measures against streptococcal diseases based on our knowledge of CvfA. ..
  13. MOLECULAR REGULATION OF ILEAL/RENAL BILE ACID TRANSPORT
    Benjamin L Shneider; Fiscal Year: 2012
    ..These studies will advance our understanding of the regulation of ASBT and provide new ways to understand and treat intestinal and liver diseases. ..
  14. Control of Renal Glutaminase Expression during Acidosis
    Norman P Curthoys; Fiscal Year: 2012
    ..This knowledge will constitute the basis for biochemical and pharmacological studies that may improve the treatment of patients who present with chronic forms of metabolic acidosis. ..
  15. HORMONAL REGULATION OF MESSENGER RNA STABILITY
    Daniel R Schoenberg; Fiscal Year: 2013
    ....
  16. Coronavirus modulation of cellular microRNAs in the liver: role in hepatitis
    Sonia Navas-Martin; Fiscal Year: 2012
    ..abstract_text> ..
  17. Role of microRNAs in Coronavirus-induced lethal encephalitis
    Sonia Navas-Martin; Fiscal Year: 2012
    ..Overall, there is significant translational potential in the proposed investigations since they will facilitate the development of therapeutic approaches to prevent and/or treat neuro-inflammatory diseases of viral etiology. ..
  18. Development of quantitative multiplex RNA in situ hybridization
    Thomas Tuschl; Fiscal Year: 2013
    ..We have re-analyzed the critical components of the ISH process including RNA stability, RNA fixation, probe design and hybridization, signal amplification and detection, and established a research ..
  19. Contractile Regulation of Cardiocyte Protein Synthesis
    Paul J McDermott; Fiscal Year: 2013
    ..S. population. ..
  20. RNA CONFORMATION AND CATALYSIS
    David P Bartel; Fiscal Year: 2013
    ....
  21. 2011 Nucleic Acids Gordon Research Conference
    Christopher D Lima; Fiscal Year: 2011
    ..Replication;Transcription and Chromatin Dynamics;Co- and Post-transcriptional Regulation;Non-coding RNA;RNA Stability and Export;Ribosome Biogenesis, Function and Regulation;Nucleic Acid Structure and Catalysis...
  22. Function of mRNA Editing in Trypanosomes
    Stephen L Hajduk; Fiscal Year: 2010
    ..Putative alternatively edited mRNAs will be validated based on coding sequence, RNA stability and the identification of predicted protein products by proteomic, cell fractionation and reverse genetics...
  23. Mitochondrial Roles of the SUV3 in Premature Aging and Cancer
    Wen Hwa Lee; Fiscal Year: 2012
    ..Results derived from these studies will provide a molecular basis to explain how SUV3-mediated RNA degradation plays a role in the aging process and tumorigenesis. ..
  24. A novel therapy for HER2 positive hormone refractory breast cancer
    Anne W Hamburger; Fiscal Year: 2010
    ..Our studies would establish EBP1 as a new therapeutic agent in breast cancer to restore hormone sensitivity in cells which overexpress ErbB receptors. ..
  25. Alternative regulation of ISGs in WNV-infected cells
    Margo A Brinton; Fiscal Year: 2013
    ..Delineation of the viral counteraction mechanism will provide a new cell target for the development of antiviral therapeutics that may be applicable to a broad spectrum of virus infections. ..
  26. Feedback and Hormonal Regulation of Hepatic HMG-CoA Reductase
    GENE CHARLES NESS; Fiscal Year: 2010
    ....
  27. microRNA and Down Syndrome
    Karl H Obrietan; Fiscal Year: 2010
    ..Our project will define miRNA/mRNA targets responsible for DS and will potentially lead to novel therapeutic strategies to treat DS individuals in the perinatal period to change the course of pathogenesis. ..
  28. IL8-induced Post-transcriptional Regulation of the MUC5AC mucin gene
    Mary C Rose; Fiscal Year: 2010
    ..This will be fundamental for formulating therapeutic interventions for lung diseases that manifest with mucin overproduction. ..
  29. Scleroderma Subtyping from Fresh and Archived Biopsies using NextGen Sequencing
    Michael W Fanger; Fiscal Year: 2011
    ..The goal of this project is to simplify the currently complex sample preparation protocol while improving the robustness and decreasing the cost of the genetic analyses. ..
  30. Role of HSV Induced RNA Degradation in Pathogenesis
    David A Leib; Fiscal Year: 2013
    ..Specific inhibitors of virus-induced RNA destabilization might therefore be of value as broad-spectrum antivirals. This work is therefore of broad interest and application. ..
  31. Regulation of Immunoglobulin Class Switch in Aged Mice
    Bonnie B Blomberg; Fiscal Year: 2013
    ..Studies of protein and mRNA stability, post translational regulation, and signal transduction pathways including MAPK, will determine key molecular elements in the control of Ig class switch in aged mice. ..
  32. Regulation of Endothelial Nitric Oxide Synthase mRNA stability
    Jianxin Sun; Fiscal Year: 2013
    ..the proposed study may well provide significant insights into the molecular mechanisms underlying these conditions and thus facilitate the development of novel therapeutic agents. ..
  33. Role of miRNAs in Vascular Physiology
    Akiko Hata; Fiscal Year: 2012
    ..This application will elucidate a novel mechanism of regulation of VSMC phenotype in normal physiology, which is of fundamental importance in understanding the etiology of cardiovascular disorders. ..
  34. Regulation and Function of Germline RNP Granules
    JENNIFER SCHISA; Fiscal Year: 2010
    ..multicellular model system, with the hypothesis that large RNP granules form in oocytes in order to maintain RNA stability, repress translation, and maintain overall oocyte viability/ fertility...
  35. ETHANOL REGULATION OF KUPFFER CELL SIGNAL TRANSDUCTION
    Laura E Nagy; Fiscal Year: 2013
    ....
  36. Defining the messenger RNP code in the brain
    EUGENE WEI MING YEO; Fiscal Year: 2013
    ..interactions result in the faithful execution of RNA processing events such as pre-mRNA alternative splicing, RNA stability and translational control...
  37. Role of ncRNA Surveillance Complex "RNA Exosome" in Class Switch Recombination an
    Uttiya Basu; Fiscal Year: 2013
    ..Understanding of AID function in B-lymphocytes will allow treatment of these patients with directed clinical therapies. ..
  38. REGULATION OF OVARIAN FUNCTION BY GONADOTROPIN
    JAIRAM K M MENON; Fiscal Year: 2013
    ..The studies proposed here address novel questions that are central to reproductive endocrinology and the results might provide new insights into novel approaches for the treatment of infertility. ..
  39. The role of host endogenous small RNAs in innate immunity
    Hailing Jin; Fiscal Year: 2013
    ..The proposed research will significantly advance our understanding of the mechanisms and function of small RNA-mediated gene regulation in innate immunity using the model organism Arabidopsis thaliana. ..
  40. Novel prognostic microRNA biomarkers for primary sclerosing cholangitis
    Kris Kowdley; Fiscal Year: 2013
    ....
  41. Regulation of a Novel Trypanosome RNA Binding Protein by Arginine Methylation
    Kaylen Lott; Fiscal Year: 2013
    ..absence of transcriptional control, gene regulation relies largely on posttranscriptional processes such as RNA stability and translation, thereby making RNA binding proteins (RBPs) critical regulators of cellular function...
  42. ENTEROHEPATIC LIPID FLUX AND APOPROTEIN BIOSYNTHESIS
    NICHOLAS DAVIDSON; Fiscal Year: 2013
    ....
  43. MiR-223 Regulation of Blood-Brain Barrier Function After Traumatic Brain Injury
    John B Redell; Fiscal Year: 2013
    ....
  44. Small heat shock proteins in smooth muscle plasticity
    William T Gerthoffer; Fiscal Year: 2013
    ..Discovering how this pathway can alter the function of microRNAs could lead to new anti-inflammatory drugs or combinations of drugs to treat lung diseases more effectively. ..
  45. Regulation of B Lymphocyte Defects in Senescent Humans
    Bonnie B Blomberg; Fiscal Year: 2013
    ....
  46. Monocyte microRNA155 and atherosclerosis
    Daping Fan; Fiscal Year: 2012
    ..We will also explore the underlying molecular mechanism. ..
  47. Roles of RNA helicase and ribosomal biogenesis in normal and diseased muscle
    Vandana Gupta; Fiscal Year: 2013
    ..The support provided with K01 award will help her to complete her training and with provide her with a launch pad to obtain data for a successful R01 application to fund her future work. ..
  48. Nikon TiE Motorized Microscope System For 3D Image Acquisition, Deconvolution, Li
    Robert S Fuller; Fiscal Year: 2010
    ..pathways, bimolecular fluorescence complementation), Stephen Ragsdale (heme oxygenase-2 interactions), Anne Vojtek (signaling mechanisms regulating neuronal morphogenesis), Aaron Goldstrohm (RNA stability and degradation).
  49. Serum Biomarkers Associated With Phenotypic Expression of Hemochromatosis.
    Kris Kowdley; Fiscal Year: 2013
    ..The proposed studies are feasible, will harness the vast resources of the HEIRS Study and will provide a unique opportunity to determine novel mechanisms involved in the penetrance of the C282Y HFE mutation. ..
  50. Role of microRNA in HIV associated neurological disorder (HAND).
    Bassel E Sawaya; Fiscal Year: 2013
    ..of genome function including chromatin structure, chromosome segregation, transcription, RNA processing, RNA stability, and translation...
  51. REGULATION OF DNA DAMAGE INDUCED GENES BY YEAST TAFIIS
    Joseph C Reese; Fiscal Year: 2013
    ..The long term goals of this project are to understand how this multi-functional complex regulates multiple steps in gene regulation to maintain normal development and the integrity of the genome in eukaryotic cells. ..
  52. The influence of genotype on the outcome of gene transfer in beta-thalassemia
    Stefano Rivella; Fiscal Year: 2013
    ..With this model, based on the genotype and analysis of the mRNA stability, we aim to predict the potential success of gene therapy given a specific mutation. ..
  53. A role for miRNAs in adenosine-dependent alternative macrophage activation
    Samuel Joseph Leibovich; Fiscal Year: 2013
    ..These studies should provide novel insights into differential gene regulation in macrophages under conditions that induce "M2d" activation. ..
  54. Regulation of miRNA expression in breast cancer cells
    CAROLYN KLINGE; Fiscal Year: 2009
    ..It is our long term hope that miRNAs may provide novel biomarkers and new insights into the mechanisms by which breast tumors gain TAM/antiestrogen-resistance and become invasive and metastatic. ..
  55. Interferon Alpha: The Link Between Lupus and Endothelial Dysfunction
    JOY N BUIE; Fiscal Year: 2013
    ..Finally, the student will submit work for publication in peer-reviewed journals. ..
  56. Molecular mechanisms of Myotonic Dystrophy 1
    Lubov T Timchenko; Fiscal Year: 2012
    ..CUGBP1 is a multifunctional protein which regulates translation, RNA stability and splicing. The translational function of CUGBP1 is essential for normal myogenesis...
  57. Notch and Wnt signaling in protection by nandrolone against disuse atrophy
    Christopher Cardozo; Fiscal Year: 2012
    ..abstract_text> ..
  58. Mechanisms of 5'UTR splicing of human surfactant protein (SP)-A1 and SP-A2
    Guirong Wang; Fiscal Year: 2011
    ..New methodologies used and knowledge gained will contribute to the growing field of mRNA splicing regulation and to future studies that can help us to better understand the pathogenesis of several lung diseases. ..
  59. Post-Transcriptional Regulation in Colorectal Cancer
    DAN ALAN DIXON; Fiscal Year: 2013
    ....
  60. mRNA Capping Enzymes
    STEWART H SHUMAN; Fiscal Year: 2013
    ..In this project, we propose to dissect genetically and biochemically the phosphoprotein substrate specificity of S. pombe Fcp1 and the requirements for Fcp1 function in vivo. ..
  61. RNA-Targeted Dysregulation of Survival Factors in ALS: HuR to the Rescue
    Peter H King; Fiscal Year: 2013
    ..2. To determine the molecular impact of transgenic HuR expression in motor neurons and astrocytes with regard to posttranscriptional regulation and production of cytoprotective factors. ..
  62. Analysis of Coronavirus-Host Cell Interactions
    Shinji Makino; Fiscal Year: 2013
    ....
  63. MOLECULAR REGULATION OF LIVER REGENERATION
    Clifford Steer; Fiscal Year: 1999
    ..The proposed studies will provide important and new information in our understanding of cell growth and the control of gene expression in the ability of the liver to recover from injury. ..
  64. POSTTRANSCRIPTIONAL REGULATION OF ANTIOXIDANT ENZYMES
    LINDA CLERCH; Fiscal Year: 2002
    ..The goal of this grant is to understand the mechanisms controlling AOE RNA stability and translation into protein...
  65. Computational and Experimental Analysis of RNA structures in mRNA polyadenylation
    BIN contact TIAN; Fiscal Year: 2010
    ....
  66. Functional Analysis of an hnRNP C-Like Protein, p542
    JAMES MCAFEE; Fiscal Year: 2004
    ..The in-vitro telomere binding specificity of p542, parallels inferences linking hnRNP C to telomeres, and prompts our investigations into the in vivo association of p542 with telomeric DNA. ..
  67. DEREGULATION BY HU PROTEINS IN LUNG CANCER
    Ite Laird Offringa; Fiscal Year: 2002
    ..The study of the role of Hu proteins in SCLC offers a unique opportunity to begin to understand the role of RNA- binding proteins in the development and progression of cancer. ..
  68. Control of Immune Cell Sialylation
    KENTON MILLER; Fiscal Year: 2007
    ..An in depth understanding of the controls regulating this important enzyme may eventually lead to new modalities for the treatment immune based disease. [unreadable] [unreadable] [unreadable]..
  69. MODULATION OF THE IMMUNE RESPONSE BY VITAMIN D
    William Rigby; Fiscal Year: 1993
    ....
  70. GENE EXPRESSION IN XENOBIOTICS METABOLISM
    CHEN PEI TU; Fiscal Year: 1999
    ..g., PB) influence gene expression at the level of RNA stability and the biological/detoxification functions of GST D21...
  71. A system for detecting functional microRNA targets
    Nandita Sarkar; Fiscal Year: 2009
    ..This proposal describes an easy way to find the proteins affected by microRNAs so we can better understand how microRNAs cause disease and may suggest new ways to treat diseases. ..
  72. MITOCHONDRIAL RNA METABOLISM IN TRYPANOSOMA BRUCEI
    LAURIE READ; Fiscal Year: 2004
    ..Our hypothesis is that RNA stability plays a critical role in the regulation of gene expression in this system...
  73. SIGNAL TRANSDUCTION DEFECTS IN HUMAN PLATELETS
    A Rao; Fiscal Year: 2006
    ..Overall, our studies will provide new important insights into the regulation of two key platelet proteins (G-alpha-q and PLC-beta2) involved in platelet signaling and into the signaling mechanisms in platelets. ..