Genome-wide analysis of miRNA expression reveals a potential role for miR-144 in brain aging and spinocerebellar ataxia pathogenesis

Neurobiology of Aging

Volumn 32, Issue 12, 2011, Pages 2316.e17-2316.e27

  Persengiev, Stephan ^a,c   Kondova, Ivanela ^a   Otting, Nel ^a   Koeppen, Arnulf H ^b   Bontrop, Ronald E ^a  

^a BIOMEDICAL PRIMATE RESEARCH CENTRE   (Netherlands)

^b STRATTON VA MEDICAL CENTER   (United States)

^c UNIVERSITY MEDICAL CENTER UTRECHT   (Netherlands)

Author keywords

ATXN1; MiR 144; MiRNA; Spinocerebellar ataxia

Indexed keywords

MICRORNA; MICRORNA 101; MICRORNA 130; MICRORNA 144; UNCLASSIFIED DRUG;

AGING; ALZHEIMER DISEASE; ANIMAL TISSUE; ARTICLE; ATAXN1 GENE; BRAIN CORTEX; CEREBELLUM; CHIMPANZEE; CONTROLLED STUDY; DOWN REGULATION; GENE EXPRESSION REGULATION; GENE LOCATION; GENETIC ASSOCIATION; GENETIC CONSERVATION; GENETIC RISK; HUMAN; HUMAN CELL; HUMAN TISSUE; HUMAN VERSUS ANIMAL COMPARISON; MARKER GENE; NEUROPATHOLOGY; NONHUMAN; PRIORITY JOURNAL; RHESUS MONKEY; RNA ANALYSIS; SPECIES DIFFERENCE; SPINOCEREBELLAR DEGENERATION; TISSUE DISTRIBUTION; UPREGULATION;

EID: 80053648859     PISSN: 01974580     EISSN: 15581497     Source Type: Journal    
DOI: 10.1016/j.neurobiolaging.2010.03.014     Document Type: Article

References (35)

1. Baev V., Daskalova E., Minkov I. Computational identification of novel microRNA homologs in the chimpanzee genome. Comput. Biol. Chem. 2009, 33:62-70.
2. Banfi S., Servadio A., Chung M.Y., Kwiatkowski T.J., McCall A.E., Duvick L.A., Shen Y., Roth E.J., Orr H.T., Zoghbi H.Y. Identification and characterization of the gene causing type 1 spinocerebellar ataxia. Nat. Genet. 1994, 7:513-520.
3. Barbato C., Ruberti F., Pieri M., Vilardo E., Costanzo M., Ciotti M.T., Zona C., Cogoni C. MicroRNA-92 modulates K(+) Cl(-) co-transporter KCC2 expression in cerebellar granule neurons. J. Neurochem. 2009, 113:591-600.
4. Berezikov E., Thuemmler F., van Laake L.W., Kondova I., Bontrop R., Cuppen E., Plasterk R.H. Diversity of microRNAs in human and chimpanzee brain. Nat. Genet. 2006, 38:1375-1377.
5. Blalock E.M., Chen K.C., Sharrow K., Herman J.P., Porter N.M., Foster T.C., Landfield P.W. Gene microarrays in hippocampal aging: statistical profiling identifies novel processes correlated with cognitive impairment. J. Neurosci. 2003, 23:3807-3819.
6. Choi W.Y., Giraldez A.J., Schier A.F. Target protectors reveal dampening and balancing of nodal agonist and antagonist by miR-430. Science 2007, 318:271-274.
7. Cogswell J.P., Ward J., Taylor I.A., Waters M., Shi Y., Cannon B., Kelnar K., Kemppainen J., Brown D., Chen C., Prinjha R.K., Richardson J.C., Saunders A.M., Roses A.D., Richards C.A. Identification of miRNA changes in Alzheimer's disease brain and CSF yields putative biomarkers and insights into disease pathways. J. Alzheimers Dis. 2008, 14:27-41.
8. Damiani D., Alexander J.J., O'Rourke J.R., McManus M., Jadhav A.P., Cepko C.L., Hauswirth W.W., Harfe B.D., Strettoi E. Dicer inactivation leads to progressive functional and structural degeneration of the mouse retina. J. Neurosci. 2008, 28:4878-4887.
9. Davidson J.D., Riley B., Burright E.N., Duvick L.A., Zoghbi H.Y., Orr H.T. Identification and characterization of an ataxin-1-interacting protein: A1Up, a ubiquitin-like nuclear protein. Hum. Mol. Genet. 2000, 9:2305-2312.
10. Dinger M.E., Mercer T.R., Mattick J.S. RNAs as extracellular signaling molecules. J. Mol. Endocrinol. 2008, 40:151-159.
11. Fraser H.B., Khaitovich P., Plotkin J.B., Paabo S., Eisen M.B. Aging and gene expression in the primate brain. PLoS Biol. 2005, 3:e274.
12. Freiman R.N., Tjian R. Neurodegeneration. A glutamine-rich trail leads to transcription factors. Science 2002, 296:2149-2150.
13. Fujita S., Ito T., Mizutani T., Minoguchi S., Yamamichi N., Sakurai K., Iba H. miR-21 Gene expression triggered by AP-1 is sustained through a double-negative feedback mechanism. J. Mol. Biol. 2008, 378:492-504.
14. Gatchel J.R., Zoghbi H.Y. Diseases of unstable repeat expansion: mechanisms and common principles. Nat. Rev. Genet. 2005, 6:743-755.
15. Grimson A., Farh K.K., Johnston W.K., Garrett-Engele P., Lim L.P., Bartel D.P. MicroRNA targeting specificity in mammals: determinants beyond seed pairing. Mol. Cell 2007, 27:91-105.
16. Hebert S.S., de Strooper B. Alterations of the microRNA network cause neurodegenerative disease. Trends Neurosci. 2009, 32:199-206.
17. Jiang C.H., Tsien J.Z., Schultz P.G., Hu Y. The effects of aging on gene expression in the hypothalamus and cortex of mice. Proc. Natl. Acad. Sci. U. S. A. 2001, 98:1930-1934.
18. Kumar M.S., Lu J., Mercer K.L., Golub T.R., Jacks T. Impaired microRNA processing enhances cellular transformation and tumorigenesis. Nat. Genet. 2007, 39:673-677.
19. Landgraf P., Rusu M., Sheridan R., Sewer A., Iovino N., Aravin A., Pfeffer S., Rice A., Kamphorst A.O., Landthaler M., Lin C., Socci N.D., Hermida L., Fulci V., Chiaretti S., Foa R., Schliwka J., Fuchs U., Novosel A., Muller R.U., Schermer B., Bissels U., Inman J., Phan Q., Chien M., Weir D.B., Choksi R., De Vita G., Frezzetti D., Trompeter H.I., Hornung V., Teng G., Hartmann G., Palkovits M., Di Lauro R., Wernet P., Macino G., Rogler C.E., Nagle J.W., Ju J., Papavasiliou F.N., Benzing T., Lichter P., Tam W., Brownstein M.J., Bosio A., Borkhardt A., Russo J.J., Sander C., Zavolan M., Tuschl T. A mammalian microRNA expression atlas based on small RNA library sequencing. Cell 2007, 129:1401-1414.
20. Lee C.K., Weindruch R., Prolla T.A. Gene-expression profile of the ageing brain in mice. Nat. Genet. 2000, 25:294-297.
21. Lee Y., Samaco R.C., Gatchel J.R., Thaller C., Orr H.T., Zoghbi H.Y. miR-19, miR-101 and miR-130 co-regulate ATXN1 levels to potentially modulate SCA1 pathogenesis. Nat. Neurosci. 2008, 11:1137-1139.
22. Lewis B.P., Burge C.B., Bartel D.P. Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets. Cell 2005, 120:15-20.
23. Loerch P.M., Lu T., Dakin K.A., Vann J.M., Isaacs A., Geula C., Wang J., Pan Y., Gabuzda D.H., Li C., Prolla T.A., Yankner B.A. Evolution of the aging brain transcriptome and synaptic regulation. PLoS One 2008, 3:e3329.
24. Lu J., Getz G., Miska E.A., Alvarez-Saavedra E., Lamb J., Peck D., Sweet-Cordero A., Ebert B.L., Mak R.H., Ferrando A.A., Downing J.R., Jacks T., Horvitz H.R., Golub T.R. MicroRNA expression profiles classify human cancers. Nature 2005, 435:834-838.
25. Lu T., Pan Y., Kao S.Y., Li C., Kohane I., Chan J., Yankner B.A. Gene regulation and DNA damage in the ageing human brain. Nature 2004, 429:883-891.
26. Lukiw W.J. Micro-RNA speciation in fetal, adult and Alzheimer's disease hippocampus. Neuroreport 2007, 18:297-300.
27. Nelson P.T., Wang W.X., Rajeev B.W. MicroRNAs (miRNAs) in neurodegenerative diseases. Brain Pathol. 2008, 18:130-138.
28. Sathyan P., Golden H.B., Miranda R.C. Competing interactions between micro-RNAs determine neural progenitor survival and proliferation after ethanol exposure: evidence from an ex vivo model of the fetal cerebral cortical neuroepithelium. J. Neurosci. 2007, 27:8546-8557.
29. Schaefer A., O'Carroll D., Tan C.L., Hillman D., Sugimori M., Llinas R., Greengard P. Cerebellar neurodegeneration in the absence of microRNAs. J. Exp. Med. 2007, 204:1553-1558.
30. Sewer A., Paul N., Landgraf P., Aravin A., Pfeffer S., Brownstein M.J., Tuschl T., van Nimwegen E., Zavolan M. Identification of clustered microRNAs using an ab initio prediction method. BMC Bioinform. 2005, 6:267.
31. Xiao J., Yang B., Lin H., Lu Y., Luo X., Wang Z. Novel approaches for gene-specific interference via manipulating actions of microRNAs: examination on the pacemaker channel genes HCN2 and HCN4. J. Cell. Physiol. 2007, 212:285-292.
32. Yankner B.A. A century of cognitive decline. Nature 2000, 404:125.
33. Yue J., Sheng Y., Orwig K.E. Identification of novel homologous microRNA genes in the rhesus macaque genome. BMC Genomics 2008, 9:8.
34. Zahn J.M., Poosala S., Owen A.B., Ingram D.K., Lustig A., Carter A., Weeraratna A.T., Taub D.D., Gorospe M., Mazan-Mamczarz K., Lakatta E.G., Boheler K.R., Xu X., Mattson M.P., Falco G., Ko M.S., Schlessinger D., Firman J., Kummerfeld S.K., Wood W.H., Zonderman A.B., Kim S.K., Becker K.G. AGEMAP: a gene expression database for aging in mice. PLoS Genet. 2007, 3:e201.
35. Zhai W., Jeong H., Cui L., Krainc D., Tjian R. In vitro analysis of huntingtin-mediated transcriptional repression reveals multiple transcription factor targets. Cell 2005, 123:1241-1253.