簡易檢索 / 詳目顯示

研究生: 張志泉
Chang, Chin-Chuan
論文名稱: 比較斑馬魚ADAR2α與其複製基因ADAR2β間的生理功能差異
Comparison of the physiological function of ADAR2α and its duplicated gene ADAR2β in zebrafish
指導教授: 周姽嫄
Chow, Wei-Yuan
口試委員:
學位類別: 碩士
Master
系所名稱: 生命科學暨醫學院 - 分子與細胞生物研究所
Institute of Molecular and Cellular Biology
論文出版年: 2011
畢業學年度: 99
語文別: 中文
論文頁數: 69
中文關鍵詞: 斑馬魚
外文關鍵詞: ADAR2, Adenosine deaminases acting on RNA, zebrafish
相關次數: 點閱:1下載:0
分享至:
查詢本校圖書館目錄 查詢臺灣博碩士論文知識加值系統 勘誤回報
  • ADAR2為一種ADARs (Adenosine deaminase that acts on RNAs) 酵素,可以催化RNA進行A-to-I (adenosine to inosine) editing的後轉錄修飾,增加基因組的複雜度。我們以生物資訊方法搜尋發現斑馬魚基因組具有兩個ADAR2相似基因,遂將新發現之ADAR2基因命名為ADAR2β,並由RT-PCR結果確定成年斑馬魚腦中會表現ADAR2β。此外,增加斑馬魚ADAR2β表現可增加ADAR2α pre-mRNA之intron 1中某特定位點編輯 (RNA editing)。 為了比較ADAR2α與ADAR2β之生理功能差異,我們針對ADAR2α、ADAR2β設計反義寡核苷酸 (morpholinos) 抑制基因活性。 觀察ADAR2α morphant在表現型、細胞凋亡以及側腺染色實驗發現其發育明顯出現異常;但降低ADAR2β活性結果卻與野生種斑馬魚相同,與抑制ADAR2α所導致斑馬魚早期神經發育異常大相逕庭,表示ADAR2β與ADAR2α在斑馬魚胚體發育中所扮演的生理功能角色有所差異。 此外由於GluR-2 (AMPA receptor subunit) Q/R site為ADAR2影響生理功能的重要受質,故本篇論文亦利用morpholino抑制gria2α (哺乳類之GluR-2 homologue) Q/R editing,結果發現抑制ADAR2α活性或調控gria2α Q/R editing出現問題皆會導致胚體神經發育異常。 本篇論文顯示ADAR2β為ADAR2α的複製基因,可藉由RNA editing編輯彼此的pre-mRNA,且扮演不同的生理功能。ADAR2β已知具有RNA editing功能,但其他生理功能仍有待進一步探討。


    ADAR2 is a member of the ADARs (Adenosine deaminase that acts on RNAs) protein family. ADAR2 can post-transcriptionally edit specific adenosine at double-stranded RNA region into inosine (A-to-I RNA editing), and increase the complexity of transcriptome. Two paralogues of ADAR2 have been discovered in the pufferfish (Takifugu rubripes). Using bioinformatic tools, a gene ADAR2β whose sequence is conserved to ADAR2α was found on the 9th chromosome of zebrafish. The RT-PCR analysis showed that ADAR2β was expressed in adult zebrafish brain. In addition, overexpression of ADAR2β (ADAR2β cRNA microinjection into one-cell zygote) can increase the RNA editing level of ADAR2α pre-mRNA. In order to examine the physiological functions of ADAR2α and ADAR2β, we employed antisense morpholinos targeted to ADAR2α and ADAR2β to reduce the expression of these genes. The phenotypes, distribution of apoptotic cells and posterior lateral line neuromasts of mophants indicated that the phenotype of ADAR2β morphant was the same as that of the wild type but different from that of ADAR2α morphant. These results suggested that the physiological functions of ADAR2α and ADAR2β differed. Genetic studies have indicated that the Q/R site of mouse GluR2 (AMPA receptor subunit) is the most important physiological substrate of ADAR2. Therefore, we also made use of a morpholino to suppress the Q/R editing of gira2α□(homologue of mammalian GluR2) to observe if Q/R site of zebrafish gria2α□is also the key site edited by ADAR2. The results showed that both ADAR2α and gria2α Q/R morphants led to abnormal neural development. In this study, we have demonstrated that ADAR2β is the duplicated gene of ADAR2α, and ADAR2α and ADAR2β can mutually modify the pre-mRNA sequences of each other. In addition, the physiological function of ADAR2α is different from that of ADAR2β. ADAR2β possesses RNA editing activity; however, its physiological function remains to be elucidated.

    Abstract...……………………………………………………………………...I 中文摘要……………………………………………………………………..II 前言…………………………………………………………………………. .. 1 材料與方法……………………………………………………………….. ... 8 結果…………………………………………………………………………..15 討論…………………………………………………………………………..27 參考文獻…………………………………………………………………….33 圖表及附錄…………………………………………………………………40

    Abrams, J.M., White, K., Fessler, L.I., and Steller, H. (1993). PROGRAMMED CELL-DEATH DURING DROSOPHILA EMBRYOGENESIS. Development 117, 29-43.
    Altschul, S.F., Gish, W., Miller, W., Myers, E.W., and Lipman, D.J. (1990). BASIC LOCAL ALIGNMENT SEARCH TOOL. Journal of Molecular Biology 215, 403-410.
    Altschul, S.F., Madden, T.L., Schaffer, A.A., Zhang, J.H., Zhang, Z., Miller, W., and Lipman, D.J. (1997). Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Research 25, 3389-3402.
    Basilio, C., Wahba, A.J., Ochoa, S., Speyer, J.F., and Lengyel, P. (1962). SYNTHETIC POLYNUCLEOTIDES AND AMINO ACID CODE .5. P Natl Acad Sci USA 48, 613-&.
    Bass, B.L. (2002a). RNA editing by adenosine deaminases that act on RNA. Annu Rev Biochem 71, 817-846.
    Bass, B.L. (2002b). RNA editing by adenosine deaminases that act on RNA. Annual Review of Biochemistry 71, 817-846.
    Bass, B.L., Nishikura, K., Keller, W., Seeburg, P.H., Emeson, R.B., Oconnell, M.A., Samuel, C.E., and Herbert, A. (1997). A standardized nomenclature for adenosine deaminases that act on RNA. RNA-Publ RNA Soc 3, 947-949.
    Benne, R., Vandenburg, J., Brakenhoff, J.P.J., Sloof, P., Vanboom, J.H., and Tromp, M.C. (1986). MAJOR TRANSCRIPT OF THE FRAMESHIFTED COXLL GENE FROM TRYPANOSOME MITOCHONDRIA CONTAINS 4 NUCLEOTIDES THAT ARE NOT ENCODED IN THE DNA. Cell 46, 819-826.
    Bradford, M.M. (1976). RAPID AND SENSITIVE METHOD FOR QUANTITATION OF MICROGRAM QUANTITIES OF PROTEIN UTILIZING PRINCIPLE OF PROTEIN-DYE BINDING. Anal Biochem 72, 248-254.
    Brusa, R., Zimmermann, F., Koh, D.S., Feldmeyer, D., Gass, P., Seeburg, P.H., and Sprengel, R. (1995). EARLY-ONSET EPILEPSY AND POSTNATAL LETHALITY ASSOCIATED WITH AN EDITING-DEFICIENT GLUR-B ALLELE IN MICE. Science 270, 1677-1680.
    Burns, C.M., Chu, H., Rueter, S.M., Hutchinson, L.K., Canton, H., SandersBush, E., and Emeson, R.B. (1997). Regulation of serotonin-2C receptor G-protein coupling by RNA editing. Nature 387, 303-308.
    Chen, C.X., Cho, D.S., Wang, Q., Lai, F., Carter, K.C., and Nishikura, K. (2000). A third member of the RNA-specific adenosine deaminase gene family, ADAR3, contains both single- and double-stranded RNA binding domains. RNA 6, 755-767.
    Chen, S.H., Su, S.Y., Lo, C.Z., Chen, K.H., Huang, T.J., Kuo, B.H., and Lin, C.Y. (2009). PALM: A Paralleled and Integrated Framework for Phylogenetic Inference with Automatic Likelihood Model Selectors. PLoS One 4.
    Chong, L. (2001). Molecular cloning - A laboratory manual, 3rd edition. Science 292, 446-446.
    Desterro, J.M.P., Keegan, L.R., Lafarga, M., Berciano, M.T., O'Connell, M., and Carmo-Fonseca, M. (2003). Dynamic association of RNA-editing enzymes with the nucleolus. Journal of Cell Science 116, 1805-1818.
    Feldmeyer, D., Kask, K., Brusa, R., Kornau, H.C., Kolhekar, R., Rozov, A., Burnashev, N., Jensen, V., Hvalby, O., Sprengel, R., et al. (1999). Neurological dysfunctions in mice expressing different levels of the Q/R site-unedited AMPAR subunit GluR-B. Nat Neurosci 2, 57-64.
    Fierro-Monti, I., and Mathews, M.B. (2000). Proteins binding to duplexed RNA: one motif, multiple functions. Trends BiochemSci 25, 241-246.
    FurutaniSeiki, M., Jiang, Y.J., Brand, M., Heisenberg, C.P., Houart, C., Beuchle, D., vanEeden, F.J.M., Granato, M., Haffter, P., Hammerschmidt, M., et al. (1996). Neural degeneration mutants in the zebrafish, Danio rerio. Development 123, 229-239.
    Gavrieli, Y., Sherman, Y., and Bensasson, S.A. (1992). IDENTIFICATION OF PROGRAMMED CELL-DEATH INSITU VIA SPECIFIC LABELING OF NUCLEAR-DNA FRAGMENTATION. Journal of Cell Biology 119, 493-501.
    George, C.X., and Samuel, C.E. (1999). Human RNA-specific adenosine deaminase ADAR1 transcripts possess alternative exon 1 structures that initiate from different promoters, one constitutively active and the other interferon inducible. P Natl Acad Sci USA 96, 4621-4626.
    Gerber, A., Grosjean, H., Melcher, T., and Keller, W. (1998). Tad1p, a yeast tRNA-specific adenosine deaminase, is related to the mammalian pre-mRNA editing enzymes ADAR1 and ADAR2. Embo J 17, 4780-4789.
    Gerber, A., OConnell, M.A., and Keller, W. (1997). Two forms of human double-stranded RNA-specific editase 1 (hRED1) generated by the insertion of an Alu cassette. RNA-Publ RNA Soc 3, 453-463.
    Gott, J.M., and Emeson, R.B. (2000). Functions and mechanisms of RNA editing. Annu Rev Genet 34, 499-U434.
    Hall, T.A. (1999). BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symposium Series 41, 95-98.
    He, X., and Goldwasser, M.H. (2005). Identifying conserved gene clusters in the presence of homology families. J Comput Biol 12, 638-656.
    Hideyama, T., Yamashita, T., Nishimoto, Y., Suzuki, T., and Kwak, S. (2010). Novel etiological and therapeutic strategies for neurodiseases: RNA editing enzyme abnormality in sporadic amyotrophic lateral sclerosis. J Pharmacol Sci 113, 9-13.
    Higuchi, M., Maas, S., Single, F.N., Hartner, J., Rozov, A., Burnashev, N., Feldmeyer, D., Sprengel, R., and Seeburg, P.H. (2000). Point mutation in an AMPA receptor gene rescues lethality in mice deficient in the RNA-editing enzyme ADAR2. Nature 406, 78-81.
    Higuchi, M., Single, F.N., Kohler, M., Sommer, B., Sprengel, R., and Seeburg, P.H. (1993). RNA EDITING OF AMPA RECEPTOR SUBUNIT GLUR-B - A BASE-PAIRED INTRON-EXON STRUCTURE DETERMINES POSITION AND EFFICIENCY. Cell 75, 1361-1370.
    Hoberman, R., Sankoff, D., and Durand, D. (2005). The statistical analysis of spatially clustered genes under the maximum gap criterion. J Comput Biol 12, 1083-1102.
    Hough, R.F., and Bass, B.L. (1997). Analysis of Xenopus dsRNA adenosine deaminase cDNAs reveals similarities to DNA methyltransferases. Rna-a Publication of the Rna Society 3, 356-370.
    Kask, K., Zamanillo, D., Rozov, A., Burnashev, N., Sprengel, R., and Seeburg, P.H. (1998). The AMPA receptor subunit GluR-B in its Q/R site-unedited form is not essential for brain development and function. P Natl Acad Sci USA 95, 13777-13782.
    Kassahn KS, D.V., Wilkins SJ, Perkins AC, Ragan MA. (2009). Evolution of gene function and regulatory control after whole-genome duplication: Comparative analyses in vertebrates. Genome Res 19, 1404-1418.
    Kawahara, Y., Ito, K., Sun, H., Aizawa, H., Kanazawa, I., and Kwak, S. (2004). Glutamate receptors: RNA editing and death of motor neurons. Nature 427, 801-801.
    Keegan, L.P., Leroy, A., Sproul, D., and O'Connell, M.A. (2004). Adenosine deaminases acting on RNA (ADARs): RNA-editing enzymes. Genome Biology 5.
    Kohler, M., Burnashev, N., Sakmann, B., and Seeburg, P.H. (1993). DETERMINANTS OF CA2+ PERMEABILITY IN BOTH TM1 AND TM2 OF HIGH-AFFINITY KAINATE RECEPTOR CHANNELS - DIVERSITY BY RNA EDITING. Neuron 10, 491-500.
    Lai, F., Chen, C.X., Carter, K.C., and Nishikura, K. (1997). Editing of glutamate receptor B subunit ion channel RNAs by four alternatively spliced DRADA2 double-stranded RNA adenosine deaminases. Mol Cell Biol 17, 2413-2424.
    Lomeli, H., Mosbacher, J., Melcher, T., Hoger, T., Geiger, J.R.P., Kuner, T., Monyer, H., Higuchi, M., Bach, A., and Seeburg, P.H. (1994). CONTROL OF KINETIC-PROPERTIES OF AMPA RECEPTOR CHANNELS BY NUCLEAR-RNA EDITING. Science 266, 1709-1713.
    Maas, S., Rich, A., and Nishikura, K. (2003). A-to-I RNA editing: Recent news and residual mysteries. J Biol Chem 278, 1391-1394.
    Melcher, T., Maas, S., Herb, A., Sprengel, R., Higuchi, M., and Seeburg, P.H. (1996a). RED2, a brain-specific member of the RNA-specific adenosine deaminase family. Journal of Biological Chemistry 271, 31795-31798.
    Melcher, T., Maas, S., Herb, A., Sprengel, R., Seeburg, P.H., and Higuchi, M. (1996b). A mammalian RNA editing enzyme. Nature 379, 460-464.
    Nie, Y.Z., Hammond, G.L., and Yang, J.H. (2007). Double-stranded RNA deaminase ADAR1 increases host susceptibility to virus infection. J Virol 81, 917-923.
    Nirmalananthan, N., and Greensmith, L. (2005). Amyotrophic lateral sclerosis: recent advances and future therapies. Current Opinion in Neurology 18, 712-719.
    Nishikura, K. (2006). Editor meets silencer: crosstalk between RNA editing and RNA interference. Nat Rev Mol Cell Biol 7, 919-931.
    Patterson, J.B., and Samuel, C.E. (1995). EXPRESSION AND REGULATION BY INTERFERON OF A DOUBLE-STRANDED-RNA-SPECIFIC ADENOSINE-DEAMINASE FROM HUMAN-CELLS - EVIDENCE FOR 2 FORMS OF THE DEAMINASE. Mol Cell Biol 15, 5376-5388.
    Rueter, S.M., Dawson, T.R., and Emeson, R.B. (1999). Regulation of alternative splicing by RNA editing. Nature 399, 75-80.
    Sanger, F., Nicklen, S., and Coulson, A.R. (1977). DNA SEQUENCING WITH CHAIN-TERMINATING INHIBITORS. P Natl Acad Sci USA 74, 5463-5467.
    Seeburg, P.H. (2002). A-to-I editing: new and old sites, functions and speculations. Neuron 35, 17-20.
    Simillion, C., Vandepoele, K., and Van de Peer, Y. (2004). Recent developments in computational approaches for uncovering genomic homology. Bioessays 26, 1225-1235.
    Slavov, D., Clark, M., and Gardiner, K. (2000). Comparative analysis of the RED1 and RED2 A-to-I RNA editing genes from mammals, pufferfish and zebrafish. Gene 250, 41-51.
    Slavov, D., and Gardiner, K. (2002). Phylogenetic comparison of the pre-mRNA adenosine deaminase ADAR2 genes and transcripts: conservation and diversity in editing site sequence and alternative splicing patterns. Gene 299, 83-94.
    Smith, H.C., Gott, J.M., and Hanson, M.R. (1997). A guide to RNA editing. RNA 3, 1105-1123.
    Sommer, B., Kohler, M., Sprengel, R., and Seeburg, P.H. (1991). RNA EDITING IN BRAIN CONTROLS A DETERMINANT OF ION FLOW IN GLUTAMATE-GATED CHANNELS. Cell 67, 11-19.
    Takuma, H., Kwak, S., Yoshizawa, T., and Kanazawa, I. (1999). Reduction of GluR2 RNA editing, a molecular change that increases calcium influx through AMPA receptors, selective in the spinal ventral gray of patients with amyotrophic lateral sclerosis. Annals of Neurology 46, 806-815.
    Thompson, J.D., Gibson, T.J., Plewniak, F., Jeanmougin, F., and Higgins, D.G. (1997). The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Research 25, 4876-4882.
    Villard, L., Tassone, F., Haymowicz, M., Welborn, R., and Gardiner, K. (1997). Map location, genomic organization and expression patterns of the human RED1 RNA editase. Somatic Cell and Molecular Genetics 23, 135-145.
    Wang, Q.D., O'Brien, P.J., Chen, C.X., Cho, D.S.C., Murray, J.M., and Nishikura, K. (2000). Altered G protein-coupling functions of RNA editing isoform and splicing variant serotonin(2C) receptors. Journal of Neurochemistry 74, 1290-1300.
    Westerfield, M. (1995). The Zebrafish Book. A Guide for the Laboratory Use of Zebrafish (Danio rerio), 3rd Edition. Eugene, OR, University of Oregon Press, 385.
    Yang, J.H., Sklar, P., Axel, R., and Maniatis, T. (1995). EDITING OF GLUTAMATE-RECEPTOR SUBUNIT-B PRE-MESSENGER-RNA IN-VITRO BY SITE-SPECIFIC DEAMINATION OF ADENOSINE. Nature 374, 77-81.
    Yeo, G.H., Cheah, F.S., Winkler, C., EW., J., B., V., and SS., C. (2009). Phylogenetic and evolutionary relationships and developmental expression patterns of the zebrafish twist gene family. Dev Genes Evol 219, 289-300.
    Zuker, M. (2003). Mfold web server for nucleic acid folding and hybridization prediction. Nucleic Acids Research 31, 3406-3415.
    高上淨 (2008). 研究斑馬魚胚體發育過程中ADAR2及ADAR2-like,zCH9,的活性. 清華大學分子與細胞生物所碩士論文.
    歐瓊雯 (2004). Knock down ADAR2基因對斑馬魚胚胎發育的影響. 清華大學分子與細胞生物所碩士論文.

    無法下載圖示 全文公開日期 本全文未授權公開 (校內網路)
    全文公開日期 本全文未授權公開 (校外網路)

    QR CODE