MicroRNAs: Small regulators with a big impact

Cytokine and Growth Factor Reviews

Volumn 16, Issue 4-5, 2005, Pages 387-393

  Yang, Maocheng ^a   Li, Ying ^a   Padgett, Richard W ^a  

^a RUTGERS UNIVERSITY   (United States)

Author keywords

Development; Gene regulation; MicroRNA; RNA

Indexed keywords

MESSENGER RNA; MICRORNA; RNA;

3' UNTRANSLATED REGION; BIOGENESIS; BIOLOGICAL ACTIVITY; DEVELOPMENT; DNA MICROARRAY; GENE; GENE EXPRESSION; GENE FUNCTION; GENE IDENTIFICATION; GENE SEQUENCE; GENE TARGETING; GENETIC ANALYSIS; GENETIC CONSERVATION; GENETIC REGULATION; GENOME ANALYSIS; HUMAN; MALIGNANT NEOPLASTIC DISEASE; NONHUMAN; PRIORITY JOURNAL; REGULATORY MECHANISM; RNA ANALYSIS; RNA BINDING; RNA GENE; RNA SEQUENCE; RNA TRANSLATION; SEQUENCE ANALYSIS; SHORT SURVEY; SIGNAL TRANSDUCTION; STEM CELL; VALIDATION PROCESS;

ANIMALS; HUMANS; MICROARRAY ANALYSIS; MICRORNAS; NEOPLASMS; SIGNAL TRANSDUCTION; STEM CELLS;

ANIMALIA;

EID: 22644440849     PISSN: 13596101     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.cytogfr.2005.02.008     Document Type: Short Survey

References (71)

1. R.C. Lee, R.L. Feinbaum, and V. Ambros The C. elegans heterochronic gene lin-4 encodes small RNAs with antisense complementarity to lin-14 Cell 75 1993 843 854
2. B. Wightman, I. Ha, and G. Ruvkun Posttranscriptional regulation of the heterochronic gene lin-14 by lin-4 mediates temporal pattern formation in C. elegans Cell 75 1993 855 862
3. B.J. Reinhart, F.J. Slack, M. Basson, A.E. Pasquinelli, J.C. Bettinger, and A.E. Rougvie The 21-nucleotide let-7 RNA regulates developmental timing in Caenorhabditis elegans Nature 403 2000 901 906
4. F.J. Slack, M. Basson, Z. Liu, V. Ambros, H.R. Horvitz, and G. Ruvkun The lin-41 RBCC gene acts in the C. elegans heterochronic pathway between the let-7 regulatory RNA and the lin-29 transcription factor Mol Cell 5 2000 659 669
5. A.A. Aravin, M. Lagos-Quintana, A. Yalcin, M. Zavolan, D. Marks, and B. Snyder The small RNA profile during Drosophila melanogaster development Dev Cell 5 2003 337 350
6. D.P. Bartel MicroRNAs: genomics, biogenesis, mechanism, and function Cell 116 2004 281 297
7. M. Lagos-Quintana, R. Rauhut, J. Meyer, A. Borkhardt, and T. Tuschl New microRNAs from mouse and human RNA 9 2003 175 179
8. E.C. Lai, P. Tomancak, R.W. Williams, and G.M. Rubin Computational identification of Drosophila microRNA genes Genome Biol 4 2003 42
9. Y. Lee, K. Jeon, J.T. Lee, S. Kim, and V.N. Kim MicroRNA maturation: stepwise processing and subcellular localization Embo J 21 2002 4663 4670
10. D.J. Luciano, H. Mirsky, N.J. Vendetti, and S. Maas RNA editing of a miRNA precursor RNA 10 2004 1174 1177
11. E. Lund, S. Guttinger, A. Calado, J.E. Dahlberg, and U. Kutay Nuclear export of microRNA precursors Science 303 2004 95 98
12. S.Y. Ying, and S.L. Lin Intronic microRNAs Biochem Biophys Res Commun 326 2005 515 520
13. M. Lagos-Quintana, R. Rauhut, W. Lendeckel, and T. Tuschl Identification of novel genes coding for small expressed RNAs Science 294 2001 853 858
14. X. Cai, C.H. Hagedorn, and B.R. Cullen Human microRNAs are processed from capped, polyadenylated transcripts that can also function as mRNAs RNA 10 2004 1957 1966
15. Y. Lee, M. Kim, J. Han, K.H. Yeom, S. Lee, and S.H. Baek MicroRNA genes are transcribed by RNA polymerase II Embo J 23 2004 4051 4060
16. Y. Lee, C. Ahn, J. Han, H. Choi, J. Kim, and J. Yim The nuclear RNase III Drosha initiates microRNA processing Nature 425 2003 415 419
17. Y. Zeng, and B.R. Cullen Sequence requirements for microRNA processing and function in human cells RNA 9 2003 112 123
18. R. Yi, Y. Qin, I.G. Macara, and B.R. Cullen Exportin-5 mediates the nuclear export of pre-microRNAs and short hairpin RNAs Genes Dev 17 2003 3011 3016
19. Y.S. Lee, K. Nakahara, J.W. Pham, K. Kim, Z. He, and E.J. Sontheimer Distinct roles for Drosophila Dicer-1 and Dicer-2 in the siRNA/miRNA silencing pathways Cell 117 2004 69 81
20. B. Yu, Z. Yang, J. Li, S. Minakhina, M. Yang, and R.W. Padgett Methylation as a crucial step in plant microRNA biogenesis Science 307 2005 932 935
21. A. Khvorova, A. Reynolds, and S.D. Jayasena Functional siRNAs and miRNAs exhibit strand bias Cell 115 2003 209 216
22. D.S. Schwarz, G. Hutvagner, T. Du, Z. Xu, N. Aronin, and P.D. Zamore Asymmetry in the assembly of the RNAi enzyme complex Cell 115 2003 199 208
23. G. Hutvagner, and P.D. Zamore A microRNA in a multiple-turnover RNAi enzyme complex Science 297 2002 2056 2060
24. Y. Zeng, R. Yi, and B.R. Cullen MicroRNAs and small interfering RNAs can inhibit mRNA expression by similar mechanisms Proc Natl Acad Sci USA 100 2003 9779 9784
25. S. Yekta, I.H. Shih, and D.P. Bartel MicroRNA-directed cleavage of HOXB8 mRNA Science 304 2004 594 596
26. X. Chen A microRNA as a translational repressor of APETALA2 in Arabidopsis flower development Science 303 2004 2022 2025
27. L.P. Lim, N.C. Lau, E.G. Weinstein, A. Abdelhakim, S. Yekta, and M.W. Rhoades The microRNAs of Caenorhabditis elegans Genes Dev 17 2003 991 1008
28. E.C. Lai MicroRNAs: runts of the genome assert themselves Curr Biol 13 2003 925 936
29. A.E. Pasquinelli, B.J. Reinhart, F. Slack, M.Q. Martindale, M.I. Kuroda, and B. Maller Conservation of the sequence and temporal expression of let-7 heterochronic regulatory RNA Nature 408 2000 86 89
30. V. Ambros, B. Bartel, D.P. Bartel, C.B. Burge, J.C. Carrington, and X. Chen A uniform system for microRNA annotation RNA 9 2003 277 279
31. S. Griffiths-Jones The microRNA registry Nucl Acids Res 32 Database issue 2004 D109 D111
32. E. Berezikov, V. Guryev, J. van de Belt, E. Wienholds, R.H. Plasterk, and E. Cuppen Phylogenetic shadowing and computational identification of human microRNA genes Cell 120 2005 21 24
33. Y. Grad, J. Aach, G.D. Hayes, B.J. Reinhart, G.M. Church, and G. Ruvkun Computational and experimental identification of C. elegans microRNAs Mol Cell 11 2003 1253 1263
34. V. Ambros, and R.C. Lee Identification of microRNAs and other tiny noncoding RNAs by cDNA cloning Meth Mol Biol 265 2004 131 158
35. N.C. Lau, L.P. Lim, E.G. Weinstein, and D.P. Bartel An abundant class of tiny RNAs with probable regulatory roles in Caenorhabditis elegans Science 294 2001 858 862
36. R.C. Lee, and V. Ambros An extensive class of small RNAs in Caenorhabditis elegans Science 294 2001 862 864
37. S.M. Elbashir, W. Lendeckel, and T. Tuschl RNA interference is mediated by 21- and 22-nucleotide RNAs Genes Dev 15 2001 188 200
38. A. Grishok, and C.C. Mello RNAi (Nematodes: Caenorhabditis elegans) Adv Genet 46 2002 339 360
39. J. Dostie, Z. Mourelatos, M. Yang, A. Sharma, and G. Dreyfuss Numerous microRNPs in neuronal cells containing novel microRNAs RNA 9 2003 180 186
40. M.N. Poy, L. Eliasson, J. Krutzfeldt, S. Kuwajima, X. Ma, and P.E. Macdonald A pancreatic islet-specific microRNA regulates insulin secretion Nature 432 2004 226 230
41. M.R. Suh, Y. Lee, J.Y. Kim, S.K. Kim, S.H. Moon, and J.Y. Lee Human embryonic stem cells express a unique set of microRNAs Dev Biol 270 2004 488 498
42. B.P. Lewis, I.H. Shih, M.W. Jones-Rhoades, D.P. Bartel, and C.B. Burge Prediction of mammalian microRNA targets Cell 115 2003 787 798
43. H. Robins, Y. Li, and R.W. Padgett Incorporating structure to predict microRNA targets Proc Natl Acad Sci USA 102 2005 4006 4009
44. N. Rajewsky, and N.D. Socci Computational identification of microRNA targets Dev Biol 267 2004 529 535
45. G.A. Calin, C.D. Dumitru, M. Shimizu, R. Bichi, S. Zupo, and E. Noch Frequent deletions and down-regulation of micro-RNA genes miR15 and miR16 at 13q14 in chronic lymphocytic leukemia Proc Natl Acad Sci USA 99 2002 15524 15529
46. G.A. Calin, C.G. Liu, C. Sevignani, M. Ferracin, N. Felli, and C.D. Dumitru MicroRNA profiling reveals distinct signatures in B cell chronic lymphocytic leukemias Proc Natl Acad Sci USA 101 2004 11755 11760
47. P. Jin, D.C. Zarnescu, S. Ceman, M. Nakamoto, J. Mowrey, and T.A. Jongens Biochemical and genetic interaction between the fragile X mental retardation protein and the microRNA pathway Nat Neurosci 7 2004 113 117
48. M.Z. Michael, O.C. SM, N.G. van Holst Pellekaan, G.P. Young, and R.J. James Reduced accumulation of specific microRNAs in colorectal neoplasia Mol Cancer Res 1 2003 882 891
49. J. Takamizawa, H. Konishi, K. Yanagisawa, S. Tomida, H. Osada, and H. Endoh Reduced expression of the let-7 microRNAs in human lung cancers in association with shortened postoperative survival Cancer Res 64 2004 3753 3756
50. H.B. Houbaviy, M.F. Murray, and P.A. Sharp Embryonic stem cell-specific microRNAs Dev Cell 5 2003 351 358
51. M. Rao Conserved and divergent paths that regulate self-renewal in mouse and human embryonic stem cells Dev Biol 275 2004 269 286
52. J. Brennecke, D.R. Hipfner, A. Stark, R.B. Russell, and S.M. Cohen bantam encodes a developmentally regulated microRNA that controls cell proliferation and regulates the proapoptotic gene hid in Drosophila Cell 113 2003 25 36
53. P. Xu, S.Y. Vernooy, M. Guo, and B.A. Hay The Drosophila microRNA Mir-14 suppresses cell death and is required for normal fat metabolism Curr Biol. 13 2003 790 795
54. C. Esau, X. Kang, E. Peralta, E. Hanson, E.G. Marcusson, and L.V. Ravichandran MicroRNA-143 regulates adipocyte differentiation J Biol Chem 279 2004 52361 52365
55. C.Z. Chen, L. Li, H.F. Lodish, and D.P. Bartel MicroRNAs modulate hematopoietic lineage differentiation Science 303 2004 83 86
56. L.F. Sempere, S. Freemantle, I. Pitha-Rowe, E. Moss, E. Dmitrovsky, and V. Ambros Expression profiling of mammalian microRNAs uncovers a subset of brain-expressed microRNAs with possible roles in murine and human neuronal differentiation Genome Biol 5 2004 R13
57. J. Kim, A. Krichevsky, Y. Grad, G.D. Hayes, K.S. Kosik, and G.M. Church Identification of many microRNAs that copurify with polyribosomes in mammalian neurons Proc Natl Acad Sci U S A 101 2004 360 365
58. M. Lagos-Quintana, R. Rauhut, A. Yalcin, J. Meyer, W. Lendeckel, and T. Tuschl Identification of tissue-specific microRNAs from mouse Curr Biol 12 2002 735 739
59. T. Watanabe, A. Takeda, K. Mise, T. Okuno, T. Suzuki, and N. Minami Stage-specific expression of microRNAs during Xenopus development FEBS Lett 579 2005 318 324
60. T. Babak, W. Zhang, Q. Morris, B.J. Blencowe, and T.R. Hughes Probing microRNAs with microarrays: tissue specificity and functional inference RNA 10 2004 1813 1819
61. O. Barad, E. Meiri, A. Avniel, R. Aharonov, A. Barzilai, and I. Bentwich MicroRNA expression detected by oligonucleotide microarrays: system establishment and expression profiling in human tissues Genome Res 14 2004 2486 2494
62. C.G. Liu, G.A. Calin, B. Meloon, N. Gamliel, C. Sevignani, and M. Ferracin An oligonucleotide microchip for genome-wide microRNA profiling in human and mouse tissues Proc Natl Acad Sci USA 101 2004 9740 9744
63. E.A. Miska, E. Alvarez-Saavedra, M. Townsend, A. Yoshii, N. Sestan, and P. Rakic Microarray analysis of microRNA expression in the developing mammalian brain Genome Biol 5 2004 R68
64. Y. Sun, S. Koo, N. White, E. Peralta, C. Esau, and N.M. Dean Development of a micro-array to detect human and mouse microRNAs and characterization of expression in human organs Nucl Acids Res 32 2004 e188
65. X.J. Wang, J.L. Reyes, N.H. Chua, and T. Gaasterland Prediction and identification of Arabidopsis thaliana microRNAs and their mRNA targets Genome Biol 5 2004 65
66. A. Adai, C. Johnson, S. Mlotshwa, S. Archer-Evans, V. Manocha, and V. Vance Computational prediction of miRNAs in Arabidopsis thaliana Genome Res 15 2005 78 91
67. B. John, A.J. Enright, A. Aravin, T. Tuschl, C. Sander, and D.S. Marks Human microRNA targets PLoS Biol 2 2004 e363
68. M. Kiriakidou, P.T. Nelson, A. Kouranov, P. Fitziev, C. Bouyioukos, and Z. Mourelatos A combined computational-experimental approach predicts human microRNA targets Genes Dev 18 2004 1165 1178
69. M. Rehmsmeier, P. Steffen, M. Hochsmann, and R. Giegerich Fast and effective prediction of microRNA/target duplexes RNA 10 2004 1507 1517
70. A. Stark, J. Brennecke, R.B. Russell, and S.M. Cohen Identification of Drosophila microRNA targets PLoS Biol 1 2003 E60
71. V. Ambros MicroRNAs: tiny regulators with great potential Cell 107 2001 823 826