MicroRNA定量检测方法的研究进展
收稿日期: 2009-05-14
修回日期: 2009-06-28
网络出版日期: 2010-01-15
基金资助
江苏省自然科学基金项目(编号:BK2008067)资助
Advances in approaches for the quantitative detection of microRNAs
Received date: 2009-05-14
Revised date: 2009-06-28
Online published: 2010-01-15
MicroRNA是一类内源性的非编码小分子RNA, 通过下调蛋白编码基因的表达而对不同的细胞发育过程起到重要的调控作用。分析组织或细胞样本中microRNA的表达可为研究这类分子的生物学功能提供重要的信息。近年来, 研究者发展了许多方法检测不同的生理和病理学过程中microRNA的表达差异, 并发现microRNA的异常表达与癌症、神经紊乱和心脏疾病等的发生相关。文章系统地介绍了最新发展的microRNA定量检测方法, 详细阐述了基于探针杂交技术的Northern blotting法、微阵列芯片法、纳米金标记法、桥连同位素标记法, 以及基于扩增技术的定量PCR检测法、滚环扩增法、引物入侵法和新一代大规模高通量测序法等, 并对这些方法的优缺点进行了分析比较。
景花,宋沁馨,周国华 . MicroRNA定量检测方法的研究进展[J]. 遗传, 2010 , 32(1) : 31 -40 . DOI: 10.3724/SP.J.1005.2010.00031
MicroRNAs (miRNAs) are a class of endogenous non-coding RNAs that play an important role in the control of developmental process of different cells by negative regulation of protein-coding gene expression. Analyzing miRNA expression in tissues or cells can supply valuable information for investigating the biological function of these molecules. Recently, researchers had proposed a number of approaches for analyzing the differences of miRNA expression among dif-ferent physiological or pathological conditions, and found that aberrant expression of miRNA was related to cancers, neu-rological disorders and heart diseases, etc. This review focuses on newly developed strategies for miRNA quantification, and elucidates in detail the probe-hybridization based methods including Northern blotting, microarray, gold nanoparticle labelling, and splinted ligation with radioactive labels. The amplification-based methods including quantitative PCR, rolling cycle amplification, invader assay, and the next generation sequencing methods were also discussed. The advantages and disadvantages of these methods were compared.
Key words: MicroRNA; quantitative detection;research progress
[1] Bartel DP. MicroRNAs: genomics, biogenesis, mechanism, and function. Cell, 2004, 116(2): 281-297.
[2] Farh KK, Grimson A, Jan C, Lewis BP, Johnston WK, Lim LP, Burge CB, Bartel DP. The widespread impact of mammalian MicroRNAs on mRNA repression and evolu-tion. Science, 2005, 310(5755): 1817-1821.
[3] Griffiths-Jones S, Grocock RJ, van Dongen S, Bateman A, Enright AJ. miRBase: microRNA sequences, targets and gene nomenclature. Nucleic Acids Res, 2006, 34(Database issue): D140-144.
[4] Cho WC. OncomiRs: the discovery and progress of mi-croRNAs in cancers. Mol Cancer, 2007, 6: 60.
[5] Schetter AJ, L1eung SY, Sohn JJ, Zanetti KA, Bowman ED, Yanaihara N, Yuen ST, Chan TL, Kwong DL, Au GK, Liu CG, Calin GA, Croce CM, Harris CC. MicroRNA expression pro-files associated with prognosis and therapeutic outcome in colon adenocarcinoma. JAMA, 2008, 299(4): 425-436.
[6] Zhang C. MicroRNAs: role in cardiovascular biology and disease. Clin Sci (Lond), 2008, 114(12): 699-706.
[7] Chen X, Ba Y, Ma L, Cai X, Yin Y, Wang K, Guo J, Zhang Y, Chen J, Guo X, Li Q, Li X, Wang W, Wang J, Jiang X, Xiang Y, Xu C, Zheng P, Zhang J, Li R, Zhang H, Shang X, Gong T, Ning G, Zen K, Zhang CY. Characterization of microRNAs in serum: a novel class of biomarkers for diagnosis of cancer and other diseases. Cell Res, 2008, 18(10): 997-1006.
[8] Bruchova H, Merkerova M, Prchal JT. Aberrant expression of microRNA in polycythemia vera. Haematologica, 2008, 93(7): 1009-1016.
[9] Varallyay E, Burgyan J, Havelda Z. Detection of mi-croRNAs by Northern blot analyses using LNA probes. Methods, 2007, 43(2): 140-145.
[10] Pall GS, Codony-Servat C, Byrne J, Ritchie L, Hamilton A. Carbodiimide-mediated cross-linking of RNA to nylon mem-branes improves the detection of siRNA, miRNA and piRNA by northern blot. Nucleic Acids Res, 2007, 35(8): e60.
[11] Liu CG, Calin GA, Meloon B, Gamliel N, Sevignani C, Ferracin M, Dumitru CD, Shimizu M, Zupo S, Dono M, Alder H, Bullrich F, Negrini M, Croce CM. An oligonu-cleotide microchip for genome-wide microRNA profiling in human and mouse tissues. Proc Natl Acad Sci USA, 2004, 101(26): 9740-9744.
[12] Grundhoff A, Sullivan CS, Ganem D. A combined com-putational and microarray-based approach identifies novel microRNAs encoded by human gamma- herpesviruses. RNA, 2006, 12(5): 733-750.
[13] Beuvink I, Kolb FA, Budach W, Garnier A, Lange J, Natt F, Dengler U, Hall J, Filipowicz W, Weiler J. A novel microar-ray approach reveals new tissue-specific signatures of known and predicted mammalian microRNAs. Nucleic Acids Res, 2007, 35(7): e52.
[14] Castoldi M, Schmidt S, Benes V, Hentze MW, Muckenthaler MU. miChip: an array-based method for microRNA expres-sion profiling using locked nucleic acid capture probes. Nat Protoc, 2008, 3(2): 321-329.
[15] Ambros V, Lee RC. Identification of microRNAs and other tiny noncoding RNAs by cDNA cloning. Methods Mol Biol, 2004, 265: 131-158.
[16] Chen PY, Manninga H, Slanchev K, Chien M, Russo JJ, Ju J, Sheridan R, John B, Marks DS, Gaidatzis D, Sander C, Zavolan M, Tuschl T. The developmental miRNA profiles of zebrafish as determined by small RNA cloning. Genes Dev, 2005, 19(11): 1288-1293.
[17] Yao Y, Guo G, Ni Z, Sunkar R, Du J, Zhu JK, Sun Q. Cloning and characterization of microRNAs from wheat (Triticum aestivum L.). Genome Biol, 2007, 8 (6): R96.
[18] Shi R, Chiang VL. Facile means for quantifying microRNA expression by real-time PCR. Biotechniques, 2005, 39(4): 519-525.
[19] Raymond CK, Roberts BS, Garrett-Engele P, Lim LP, John-son JM. Simple, quantitative primer-extension PCR assay for direct monitoring of microRNAs and short-interfering RNAs. RNA, 2005, 11(11): 1737-1744.
/
| 〈 |
|
〉 |