Home LiteratureArticle Details
PMID: 20051982 Published · ppublish English Journal Article Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov't Review

MicroRNA assassins: factors that regulate the disappearance of miRNAs.

Nature structural & molecular biology ·Vol. 17 ·No. 1 ·2010-01-00 ·Pages 5-10

Kai ZS, Pasquinelli AE

Abstract

MicroRNAs (miRNAs) control essential gene regulatory pathways in plants and animals. Serving as guides in silencing complexes, miRNAs direct Argonaute proteins to specific target messenger RNAs to repress protein expression. The mature, 22-nucleotide (nt) miRNA is the product of multiple processing steps, and recent studies have uncovered factors that directly control the stability of the functional RNA form. Although alteration of miRNA levels has been linked to numerous disease states, the mechanisms responsible for stabilized or reduced miRNA expression have been largely elusive. The discovery of specific cis-acting modifications and trans-acting proteins that affect miRNA half-life reveals new elements that contribute to the homeostasis of these vital regulatory molecules.

MeSH Terms
Eukaryotic Initiation Factors/metabolism Exoribonucleases/metabolism Gene Expression Regulation/genetics Gene Regulatory Networks/genetics Karyopherins/metabolism MicroRNAs/biosynthesis,metabolism Models, Molecular Ribonuclease III/metabolism
Chemicals
Eukaryotic Initiation Factors Karyopherins MicroRNAs Exoribonucleases Ribonuclease III
Authors & Affiliations
2 authors, click to expand affiliations / ORCID
Kai Zoya S
Department of Biology, University of California, San Diego, La Jolla, California, USA.
Pasquinelli Amy E
References (55)
55 references, click to expand
  1. Effect of 3' terminal adenylic acid residue on the uridylation of human small RNAs in vitro and in frog oocytes.
    RNA. 2000 Sep;6(9):1277-88 PMID: 10999605
  2. Meta-analysis of small RNA-sequencing errors reveals ubiquitous post-transcriptional RNA modifications.
    Nucleic Acids Res. 2009 May;37(8):2461-70 PMID: 19255090
  3. Methylation as a crucial step in plant microRNA biogenesis.
    Science. 2005 Feb 11;307(5711):932-5 PMID: 15705854
  4. Integration of microRNA miR-122 in hepatic circadian gene expression.
    Genes Dev. 2009 Jun 1;23(11):1313-26 PMID: 19487572
  5. Micro-RNA abundance and stability in human brain: specific alterations in Alzheimer's disease temporal lobe neocortex.
    Neurosci Lett. 2009 Aug 7;459(2):100-4 PMID: 19406203
  6. A hexanucleotide element directs microRNA nuclear import.
    Science. 2007 Jan 5;315(5808):97-100 PMID: 17204650
  7. The role of PACT in the RNA silencing pathway.
    EMBO J. 2006 Feb 8;25(3):522-32 PMID: 16424907
  8. Characterization of endogenous human Argonautes and their miRNA partners in RNA silencing.
    Proc Natl Acad Sci U S A. 2008 Jun 10;105(23):7964-9 PMID: 18524951
  9. CDE-1 affects chromosome segregation through uridylation of CSR-1-bound siRNAs.
    Cell. 2009 Oct 2;139(1):135-48 PMID: 19804759
  10. A Slicer-independent role for Argonaute 2 in hematopoiesis and the microRNA pathway.
    Genes Dev. 2007 Aug 15;21(16):1999-2004 PMID: 17626790
  11. Asymmetry in the assembly of the RNAi enzyme complex.
    Cell. 2003 Oct 17;115(2):199-208 PMID: 14567917
  12. Regulation of MicroRNA Biogenesis: A miRiad of mechanisms.
    Cell Commun Signal. 2009 Aug 10;7:18 PMID: 19664273
  13. LIN-28 and the poly(U) polymerase PUP-2 regulate let-7 microRNA processing in Caenorhabditis elegans.
    Nat Struct Mol Biol. 2009 Oct;16(10):1016-20 PMID: 19713957
  14. Extensive post-transcriptional regulation of microRNAs and its implications for cancer.
    Genes Dev. 2006 Aug 15;20(16):2202-7 PMID: 16882971
  15. The mouse homolog of HEN1 is a potential methylase for Piwi-interacting RNAs.
    RNA. 2007 Sep;13(9):1397-401 PMID: 17652135
  16. Degradation of microRNAs by a family of exoribonucleases in Arabidopsis.
    Science. 2008 Sep 12;321(5895):1490-2 PMID: 18787168
  17. RNA-specific ribonucleotidyl transferases.
    RNA. 2007 Nov;13(11):1834-49 PMID: 17872511
  18. Methylation protects miRNAs and siRNAs from a 3'-end uridylation activity in Arabidopsis.
    Curr Biol. 2005 Aug 23;15(16):1501-7 PMID: 16111943
  19. Primary microRNA transcripts are processed co-transcriptionally.
    Nat Struct Mol Biol. 2008 Sep;15(9):902-9 PMID: 19172742
  20. Selective stabilization of mammalian microRNAs by 3' adenylation mediated by the cytoplasmic poly(A) polymerase GLD-2.
    Genes Dev. 2009 Feb 15;23(4):433-8 PMID: 19240131
  21. Coupled RNA processing and transcription of intergenic primary microRNAs.
    Mol Cell Biol. 2009 Oct;29(20):5632-8 PMID: 19667074
  22. Argonaute HITS-CLIP decodes microRNA-mRNA interaction maps.
    Nature. 2009 Jul 23;460(7254):479-86 PMID: 19536157
  23. Highly dynamic and sex-specific expression of microRNAs during early ES cell differentiation.
    PLoS Genet. 2009 Aug;5(8):e1000620 PMID: 19714213
  24. Large-scale sequencing reveals 21U-RNAs and additional microRNAs and endogenous siRNAs in C. elegans.
    Cell. 2006 Dec 15;127(6):1193-207 PMID: 17174894
  25. Transfection of small RNAs globally perturbs gene regulation by endogenous microRNAs.
    Nat Biotechnol. 2009 Jun;27(6):549-55 PMID: 19465925
  26. Characterization of small RNAs in Aplysia reveals a role for miR-124 in constraining synaptic plasticity through CREB.
    Neuron. 2009 Sep 24;63(6):803-17 PMID: 19778509
  27. Alterations of the microRNA network cause neurodegenerative disease.
    Trends Neurosci. 2009 Apr;32(4):199-206 PMID: 19268374
  28. Application of massively parallel sequencing to microRNA profiling and discovery in human embryonic stem cells.
    Genome Res. 2008 Apr;18(4):610-21 PMID: 18285502
  29. Big impacts by small RNAs in plant development.
    Curr Opin Plant Biol. 2009 Feb;12(1):81-6 PMID: 18980858
  30. miRBase: tools for microRNA genomics.
    Nucleic Acids Res. 2008 Jan;36(Database issue):D154-8 PMID: 17991681
  31. Pimet, the Drosophila homolog of HEN1, mediates 2'-O-methylation of Piwi- interacting RNAs at their 3' ends.
    Genes Dev. 2007 Jul 1;21(13):1603-8 PMID: 17606638
  32. MicroRNAs and cancer--new paradigms in molecular oncology.
    Curr Opin Cell Biol. 2009 Jun;21(3):470-9 PMID: 19411171
  33. Lin28 mediates the terminal uridylation of let-7 precursor MicroRNA.
    Mol Cell. 2008 Oct 24;32(2):276-84 PMID: 18951094
  34. Dual role for argonautes in microRNA processing and posttranscriptional regulation of microRNA expression.
    Cell. 2007 Dec 14;131(6):1097-108 PMID: 18083100
  35. The Drosophila RNA methyltransferase, DmHen1, modifies germline piRNAs and single-stranded siRNAs in RISC.
    Curr Biol. 2007 Jul 17;17(14):1265-72 PMID: 17604629
  36. Genes and mechanisms related to RNA interference regulate expression of the small temporal RNAs that control C. elegans developmental timing.
    Cell. 2001 Jul 13;106(1):23-34 PMID: 11461699
  37. MicroRNAs and cardiac pathology.
    Nat Rev Cardiol. 2009 Jun;6(6):419-29 PMID: 19434076
  38. Cell-type-specific signatures of microRNAs on target mRNA expression.
    Proc Natl Acad Sci U S A. 2006 Feb 21;103(8):2746-51 PMID: 16477010
  39. Mechanisms of miRNA-mediated post-transcriptional regulation in animal cells.
    Curr Opin Cell Biol. 2009 Jun;21(3):452-60 PMID: 19450959
  40. The action of ARGONAUTE1 in the miRNA pathway and its regulation by the miRNA pathway are crucial for plant development.
    Genes Dev. 2004 May 15;18(10):1187-97 PMID: 15131082
  41. Control of stress-dependent cardiac growth and gene expression by a microRNA.
    Science. 2007 Apr 27;316(5824):575-9 PMID: 17379774
  42. Zcchc11-dependent uridylation of microRNA directs cytokine expression.
    Nat Cell Biol. 2009 Sep;11(9):1157-63 PMID: 19701194
  43. TUT4 in concert with Lin28 suppresses microRNA biogenesis through pre-microRNA uridylation.
    Cell. 2009 Aug 21;138(4):696-708 PMID: 19703396
  44. A mammalian microRNA expression atlas based on small RNA library sequencing.
    Cell. 2007 Jun 29;129(7):1401-14 PMID: 17604727
  45. Connections between mRNA 3' end processing and transcription termination.
    Curr Opin Cell Biol. 2005 Jun;17(3):257-61 PMID: 15901494
  46. RNA quality control in eukaryotes.
    Cell. 2007 Nov 16;131(4):660-8 PMID: 18022361
  47. Functional siRNAs and miRNAs exhibit strand bias.
    Cell. 2003 Oct 17;115(2):209-16 PMID: 14567918
  48. Adenylation of plant miRNAs.
    Nucleic Acids Res. 2009 Apr;37(6):1878-85 PMID: 19188256
  49. Active turnover modulates mature microRNA activity in Caenorhabditis elegans.
    Nature. 2009 Sep 24;461(7263):546-9 PMID: 19734881
  50. Mouse let-7 miRNA populations exhibit RNA editing that is constrained in the 5'-seed/ cleavage/anchor regions and stabilize predicted mmu-let-7a:mRNA duplexes.
    Genome Res. 2008 Oct;18(10):1571-81 PMID: 18614752
  51. Many roads to maturity: microRNA biogenesis pathways and their regulation.
    Nat Cell Biol. 2009 Mar;11(3):228-34 PMID: 19255566
  52. Importin 8 is a gene silencing factor that targets argonaute proteins to distinct mRNAs.
    Cell. 2009 Feb 6;136(3):496-507 PMID: 19167051
  53. Small RNAs and their roles in plant development.
    Annu Rev Cell Dev Biol. 2009;25:21-44 PMID: 19575669
  54. Lin28 recruits the TUTase Zcchc11 to inhibit let-7 maturation in mouse embryonic stem cells.
    Nat Struct Mol Biol. 2009 Oct;16(10):1021-5 PMID: 19713958
  55. Arabidopsis FIERY1, XRN2, and XRN3 are endogenous RNA silencing suppressors.
    Plant Cell. 2007 Nov;19(11):3451-61 PMID: 17993620
Article Info
Journal
Nature structural & molecular biology
Abbr.
Nat Struct Mol Biol
ISSN
1545-9985
Published
2010-01-00
Pages
5-10
Language
English
Region
United States
NLM ID
101186374
PMCID
PMC6417416
Subset
IM
Grants
NIGMS NIH HHS · R01 GM071654 · United States
NIGMS NIH HHS · R01 GM071654-07 · United States
NIGMS NIH HHS · GM071654-01 · United States
Analysis Services
Analysis Services

Contact

No. 2 Wenbo Road, Zhangqiu District, Jinan, Shandong

Qilu Normal University · Genelibs Bioinformatics Lab

750 Shunhua Rd, Jinan

2F, Bldg F, University Science Park

Tel: 0531-88819269

WeChat Official Account

Follow our WeChat subscription account for real-time updates and the latest in medical and biological research.


Business Email

E-mail: product@genelibs.com