Biogenesis, evolution and functional targets of microRNA-125a

Molecular Genetics and Genomics

Volumn 288, Issue 9, 2013, Pages 381-389

  Potenza, Nicoletta ^a   Russo, Aniello ^a  

^a SECOND UNIVERSITY OF NAPLES   (Italy)

Author keywords

Cancer; Differentiation; Gene expression; Hepatitis B; MicroRNA

Indexed keywords

DICER; ENDOTHELIN 1; EPIDERMAL GROWTH FACTOR RECEPTOR; EPIDERMAL GROWTH FACTOR RECEPTOR 2; EPIDERMAL GROWTH FACTOR RECEPTOR 3; HEPATITIS B SURFACE ANTIGEN; MICRORNA; MICRORNA 125A; MICRORNA 125B; PROTEIN P53; UNCLASSIFIED DRUG;

ANTIPROLIFERATIVE ACTIVITY; APOPTOSIS; CANCER STEM CELL; CELL DIFFERENTIATION; CELL PROLIFERATION; CHROMOSOME 19; DEVELOPMENT; DOWN REGULATION; EMBRYONIC STEM CELL; GENE EXPRESSION; GENE STRUCTURE; HEPATITIS B VIRUS; HUMAN; NERVE CELL DIFFERENTIATION; NONHUMAN; ONCOGENE; PRIORITY JOURNAL; PROMOTER REGION; REVIEW; TUMOR GROWTH; TUMOR SUPPRESSOR GENE; VIRUS LOAD; VIRUS REPLICATION;

ANIMALS; APOPTOSIS; CAENORHABDITIS ELEGANS; CELL DIFFERENTIATION; CELL MOVEMENT; EVOLUTION, MOLECULAR; GENE EXPRESSION REGULATION, VIRAL; HEPATITIS B; HEPATITIS B SURFACE ANTIGENS; HEPATITIS B VIRUS; HUMANS; LIVER; MICRORNAS; RNA INTERFERENCE;

CAENORHABDITIS ELEGANS; HEPATITIS B VIRUS; MAMMALIA;

EID: 84884283186     PISSN: 16174615     EISSN: 16174623     Source Type: Journal    
DOI: 10.1007/s00438-013-0757-5     Document Type: Review

References (67)

1. Aloia L, Parisi S, Fusco L, Pastore L, Russo T (2010) Differentiation of embryonic stem cells 1 (Dies1) is a component of bone morphogenetic protein 4 (BMP4)signaling pathway required for proper differentiation of mouse embryonic stem cells. J Biol Chem 285:7776-7783. doi: 10.1074/jbc.M109.077156
2. Ambros V (2004) The functions of animal microRNAs. Nature 431:350-355
3. Bartel DP (2004) MicroRNAs: genomics, biogenesis, mechanism, and function. Cell 116:281-297
4. Berkhout B, Jeang KT (2011) MicroRNAs in viral gene regulation. Biochim Biophys Acta 1809:587. doi: 10.1016/j.bbagrm.2011.10.009
5. Bi Q, Tang S, Xia L, Du R, Fan R, Gao L, Jin J, Liang S, Chen Z, Xu G, Nie Y, Wu K, Liu J, Shi Y, Ding J, Fan D (2012) Ectopic expression of miR-125a inhibits the proliferation and metastasis of hepatocellular carcinoma by targeting MMP11 and VEGF. PLoS One 7:e40169. doi: 10.1371/journal.pone.0040169
6. Caygill EE, Johnston LA (2008) Temporal regulation of metamorphic processes in drosophila by the let-7 and miR-125 heterochronic microRNAs. Curr Biol 18:943-950
7. Coppola N, Potenza N, Pisaturo M, Mosca N, Tonziello G, Signoriello G, Messina V, Sagnelli C, Russo A, Sagnelli E (2013) Liver microRNA hsa-miR-125a-5p in HBV chronic infection: correlation with HBV replication and disease progression. PLoS One. doi: 10.1371/journal.pone.0065336
8. Cortez MA, Nicoloso MS, Shimizu M, Rossi S, Gopisetty G, Molina JR, Carlotti C Jr, Tirapelli D, Neder L, Brassesco MS, Scrideli CA, Tone LG, Georgescu MM, Zhang W, Puduvalli V, Calin GA (2010) miR-29b and miR-125a regulate podoplanin and suppress invasion in glioblastoma. Gen Chrom Can 49:981-990
9. Cowden Dahl KD, Dahl R, Kruichak JN, Hudson LG (2009) The epidermal growth factor receptor responsive miR-125a represses mesenchymal morphology in ovarian cancer cells. Neoplasia 11:1208-1215
10. Ely A, Naidoo T, Arbuthnot P (2009) Efficient silencing of gene expression with modular trimeric Pol II expression cassettes comprising microRNA shuttles. Nucleic Acids Res 37:e91. doi: 10.1093/nar/gkp446
11. Esquela-Kerscher A, Slack FJ (2006) Oncomirs - microRNAs with a role in cancer. Nat Rev Cancer 6:259-269
12. Eulalio A, Huntzinger E, Izaurralde E (2008) Getting to the root of miRNA-mediated gene silencing. Cell 132:9-14
13. Feng C, Li J, Ruan J, Ding K (2012) MicroRNA-125a inhibits cell growth by targeting glypican-4. Glycoconj J 29:503-511
14. Ferretti E, De Smaele E, Po A, Di Marcotullio L, Tosi E, Espinola MS, Di Rocco C, Riccardi R, Giangaspero F, Farcomeni A, Nofroni I, Laneve P, Gioia U, Caffarelli E, Bozzoni I, Screpanti I, Gulino A (2009) MicroRNA profiling in human medulloblastoma. Int J Cancer 124:568-577
15. Garzon R, Calin GA, Croce CM (2009) MicroRNAs in cancer. Annu Rev Med 60:167-179. doi: 10.1146/annurev.med.59.053006.104707
16. Gerrits A, Walasek MA, Olthof S, Weersing E, Ritsema M, Zwart E, van Os R, Bystrykh LV, de Haan G (2012) Genetic screen identifies microRNA cluster 99b/let-7e/125a as a regulator of primitive hematopoietic cells. Blood 119:377-387
17. Griffiths-Jones S, Saini HK, van Dongen S, Bateman A, Enright AJ (2008) miRBase: tools for microRNA genomics. Nucleic Acids Res 36:D154-D158
18. Guo X, Wu Y, Hartley RS (2009) MicroRNA-125a represses cell growth by targeting HuR in breast cancer. RNA Biol 6:575-583
19. Guo S, Lu J, Schlanger R, Zhang H, Wang JY, Fox MC, Purton LE, Fleming HH, Cobb B, Merkenschlager M, Golub TR, Scadden DT (2010) MicroRNA miR-125a controls hematopoietic stem cell number. Proc Natl Acad Sci U S A 107:14229-14234
20. Guzman-Villanueva D, El-Sherbiny IM, Herrera-Ruiz D, Vlassov AV, Smyth HD (2012) Formulation approaches to short interfering RNA and microRNA: challenges and implications. J Pharm Sci 101:4046-4066. doi: 10.1002/jps.23300
21. Haasnoot J, Berkhout B (2011) RNAi and cellular miRNAs in infections by mammalian viruses. Methods Mol Biol 721:23-41. doi: 10.1007/978-1-61779-037-9-2
22. Hammond SM (2005) Dicing and slicing: the core machinery of the RNA interference pathway. FEBS Lett 579:5822-5829
23. Hanson EK, Lubenow H, Ballantyne J (2009) Identification of forensically relevant body fluids using a panel of differentially expressed microRNAs. Anal Biochem 387(2):303-314
24. Hemida MG, Ye X, Thair S, Yang D (2010) Exploiting the therapeutic potential of microRNAs in viral diseases: expectations and limitations. Mol Diagn Ther 14:271-282
25. Herrera BM, Lockstone HE, Taylor JM, Wills QF, Kaisaki PJ, Barrett A, Camps C, Fernandez C, Ragoussis J, Gauguier D, McCarthy MI, Lindgren CM (2009) MicroRNA-125a is over-expressed in insulin target tissues in a spontaneous rat model of type 2 diabetes. BMC Med Genomics 2:54. doi: 10.1186/1755-8794-2-54
26. Hou J, Lin L, Zhou W, Wang Z, Ding G, Dong Q, Qin L, Wu X, Zheng Y, Yang Y, Tian W, Zhang Q, Wang C, Zhang Q, Zhuang SM, Zheng L, Liang A, Tao W, Cao X (2011) Identification of miRNomes in human liver and hepatocellular carcinoma reveals miR-199a/b-3p as therapeutic target for hepatocellular carcinoma. Cancer Cell 19:232-243
27. Keller A, Leidinger P, Gislefoss R, Haugen A, Langseth H, Staehler P, Lenhof HP, Meese E (2011) Stable serum miRNA profiles as potential tool for non-invasive lung cancer diagnosis. RNA Biol 8:506-516
28. Kim JK, Noh JH, Jung KH, Eun JW, Bae HJ, Kim MG, Chang YG, Shen Q, Park WS, Lee JY, Borlak J, Nam SW (2012a) Sirtuin7 oncogenic potential in human hepatocellular carcinoma and its regulation by the tumor suppressors MiR-125a-5p and MiR-125b. Hepatology. doi: 10.1002/hep.26101
29. Kim SW, Ramasamy K, Bouamar H, Lin AP, Jiang D, Aguiar RC (2012b) MicroRNAs miR-125a and miR-125b constitutively activate the NF-κB pathway by targeting the tumor necrosis factor alpha-induced protein 3 (TNFAIP3, A20). Proc Natl Acad Sci U S A 109:7865-7870
30. Kuhn DE, Martin MM, Feldman DS, Terry AV Jr, Nuovo GJ, Elton TS (2008) Experimental validation of miRNA targets. Methods 44:47-54
31. Kurreck J (2009) RNA interference: from basic research to therapeutic applications. Angew Chem Int Ed Engl 48:1378-1398. doi: 10.1002/anie.200802092
32. Landgraf P, Rusu M, Sheridan R et al (2007) A mammalian microRNA expression atlas based on small RNA library sequencing. Cell 129:1401-1414
33. Laneve P, Di Marcotullio L, Gioia U, Fiori ME, Ferretti E, Gulino A, Bozzoni I, Caffarelli E (2007) The interplay between microRNAs and the neurotrophin receptor tropomyosin-related kinase C controls proliferation of human neuroblastoma cells. Proc Natl Acad Sci U S A. 104:7957-7962
34. Lee RC, Feinbaum RL, Ambros V (1993) The C. elegans heterochronic gene lin-4 encodes small RNAs with antisense complementarity to lin-14. Cell 75:843-854
35. Lewis BP, Burge CB, Bartel DP (2005) Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets. Cell 120:15-20
36. Li W, Duan R, Kooy F, Sherman SL, Zhou W, Jin P (2009) Germline mutation of microRNA-125a is associated with breast cancer. J Med Genet 46:358-360
37. Li D, Yang P, Xiong Q, Song X, Yang X, Liu L, Yuan W, Rui YC (2010) MicroRNA-125a/b-5p inhibits endothelin-1 expression in vascular endothelial cells. J Hypertens 28:1646-1654
38. Liu YP, Berkhout B (2013) Design of lentivirally expressed siRNAs. Methods Mol Biol 942:233-257. doi: 10.1007/978-1-62703-119-6-13
39. Liu X, Luo G, Bai X, Wang XJ (2009a) Bioinformatic analysis of microRNA biogenesis and function related proteins in eleven animal genomes. J Genet Genomics 36:591-601
40. Liu YP, Gruber J, Haasnoot J, Konstantinova P, Berkhout B (2009b) RNAi-mediated inhibition of HIV-1 by targeting partially complementary viral sequences. Nucleic Acids Res 37:6194-6204
41. Liu YP, Westerink JT, ter Brake O, Berkhout B (2011) RNAi-inducing lentiviral vectors for anti-HIV-1 gene therapy. Methods Mol Biol 721:293-311
42. Lu J, Getz G, Miska EA, Alvarez-Saavedra E, Llamb J, Peck D, Sweet-Cordero A, Ebert BL, Mark RH, Ferrando AA, Downing JR, Jacks T, Horvitz HR, Golub TR (2005) MicroRNA expression profiles classify human cancers. Nature 435:834-838
43. Ma JB, Yuan YR, Meister G, Pei Y, Tuschl T, Patel DJ (2005) Structural basis for 5′-end-specific recognition of guide RNA by the A. fulgidus Piwi protein. Nature 434:666-670
44. Mattie MD, Benz CC, Bowers J, Sensinger K, Wong L, Scott GK, Fedele V, Ginzinger D, Getts R, Haqq C (2006) Optimized high-throughput microRNA expression profiling provides novel biomarker assessment of clinical prostate and breast cancer biopsies. Mol Cancer. doi: 10.1186/1476-4598-5-24
45. Moss EG, Lee RC, Ambros V (1997) The cold shock domain protein lin-28 controls developmental timing in C. elegans and is regulated by the lin-4 RNA. Cell 88:637-646
46. Murphy D, Dancis B, Brown JR (2008) The evolution of core proteins involved in microRNA biogenesis. BMC Evol Biol 8:92. doi: 10.1186/1471-2148-8-92
47. Nana-Sinkam SP, Croce CM (2012) Clinical applications for microRNAs in cancer. Clin Pharmacol Ther 93:98-104. doi: 10.1038/clpt.2012.192
48. Nishida N, Mimori K, Fabbri M, Yokobori T, Sudo T, Tanaka F, Shibata K, Ishii H, Doki Y, Mori M (2011) MicroRNA-125a-5p is an independent prognostic factor in gastric cancer and inhibits the proliferation of human gastric cancer cells in combination with trastuzumab. Clin Cancer Res 17:2725-2733
49. Olena AF, Patton JG (2010) Genomic organization of microRNAs. J Cell Physiol 222:540-545
50. Parisi S, Battista M, Musto A, Navarra A, Tarantino C, Russo T (2012) A regulatory loop involving Dies1 and miR-125a controls BMP4 signaling in mouse embryonic stem cells. FASEB J 26:3957-3968
51. Park SO, Kumar M, Gupta S (2012) TGF-β and iron differently alter HBV replication in human hepatocytes through TGF-β/BMP signaling and cellular microRNA expression. PLoS One 7:e39276. doi: 10.1371/journal.pone. 0039276
52. Potenza N, Papa U, Mosca N, Zerbini F, Nobile V, Russo A (2011) Human microRNA hsa-miR-125a-5p interferes with expression of hepatitis B virus surface antigen. Nucleic Acids Res 39:5157-5163
53. Rothe D, Wajant G, Grunert HP, Zeichhardt H, Fechner H, Kurreck J (2010) Rapid construction of adeno-associated virus vectors expressing multiple short hairpin RNAs with high antiviral activity against echovirus 30. Oligonucleotides 20:191-198. doi: 10.1089/oli.2010.0236
54. Rothe D, Wade EJ, Kurreck J (2011) Design of small interfering RNAs for antiviral applications. Methods Mol Biol 721:267-292. doi: 10.1007/978-1-61779- 037-9-17
55. Russo A, Potenza N (2011) Antiviral effects of human microRNAs and conservation of their target sites. FEBS Lett 585:2551-2555
56. Scott GK, Goga A, Bhaumik D, Berger CE, Sullivan CS, Benz CC (2007) Coordinate suppression of ERBB2 and ERBB3 by enforced expression of micro-RNA miR-125a or miR-125b. J Biol Chem 282:1479-1486
57. Sun D, Rösler C, Kidd-Ljunggren K, Nassal M (2010) Quantitative assessment of the antiviral potencies of 21 shRNA vectors targeting conserved, including structured, hepatitis B virus sites. J Hepatol 52:817-826
58. Treiber T, Treiber N, Meister G (2012) Regulation of microRNA biogenesis and function. Thromb Haemost 107:605-610
59. Umbach JL, Cullen BR (2009) The role of RNAi and microRNAs in animal virus replication and antiviral immunity. Genes Dev 23:1151-1164
60. Vaz C, Ahmad HM, Sharma P, Gupta R, Kumar L, Kulshreshtha R, Bhattacharya A (2010) Analysis of microRNA transcriptome by deep sequencing of small RNA libraries of peripheral blood. BMC Genomics 11:288. doi: 10.1186/1471-2164-11- 288
61. Wang G, Mao W, Zheng S, Ye J (2009) Epidermal growth factor receptor-regulated miR-125a-5p-a metastatic inhibitor of lung cancer. FEBS J 276:5571-5578
62. Wienholds E, Plasterk RH (2005) MicroRNA function in animal development. FEBS Lett 579:5911-5922
63. Wu L, Belasco JG (2005) Micro-RNA regulation of the mammalian lin-28 gene during neuronal differentiation of embryonal carcinoma cells. Mol Cell Biol 25:9198-9208
64. Yu J, Vodyanik MA, Smuga-Otto K, Antosiewicz-Bourget J, Frane JL, Tian S, Nie J, Jonsdottir GA, Ruotti V, Stewart R, Slukvin II, Thomson JA (2007) Induced pluripotent stem cell lines derived from human somatic cells. Science 318:1917-1920
65. Zhang Y, Gao JS, Tang X, Tucker LD, Quesenberry P, Rigoutsos I, Ramratnam B (2009) MicroRNA 125a and its regulation of the p53 tumor suppressor gene. FEBS Lett 583:3725-3730
66. Zhao X, Tang Y, Qu B, Cui H, Wang S, Wang L, Luo X, Huang X, Li J, Chen S, Shen N (2010) MicroRNA-125a contributes to elevated inflammatory chemokine RANTES levels via targeting KLF13 in systemic lupus erythematosus. Arthritis Rheum 62:3425-3435
67. Zhong X, Li N, Liang S, Huang Q, Coukos G, Zhang L (2010) Identification of microRNAs regulating reprogramming factor lin28 in embryonic stem cells and cancer cells. J Biol Chem 285:41961-41971