請用此 Handle URI 來引用此文件:
http://tdr.lib.ntu.edu.tw/jspui/handle/123456789/76628
完整後設資料紀錄
DC 欄位 | 值 | 語言 |
---|---|---|
dc.contributor.advisor | 蕭超隆(Chiaolong Hsiao) | |
dc.contributor.author | Lei Fang | en |
dc.contributor.author | 方雷 | zh_TW |
dc.date.accessioned | 2021-07-10T21:34:08Z | - |
dc.date.available | 2021-07-10T21:34:08Z | - |
dc.date.copyright | 2017-02-21 | |
dc.date.issued | 2017 | |
dc.date.submitted | 2017-01-19 | |
dc.identifier.citation | Athavale, S. S., Petrov, A. S., Hsiao, C., Watkins, D., Prickett, C. D., Gossett, J. J., . . . Williams, L. D. (2012). RNA Folding and Catalysis Mediated by Iron (II). PLOS ONE, 7(5), e38024. doi:10.1371/journal.pone.0038024
Chelikani, P., Fita, I., & Loewen, P. C. (2004). Diversity of structures and properties among catalases. Cellular and Molecular Life Sciences CMLS, 61(2), 192-208. doi:10.1007/s00018-003-3206-5 DeRose, V. J. (2003). Metal ion binding to catalytic RNA molecules. Current Opinion in Structural Biology, 13(3), 317-324. doi:http://dx.doi.org/10.1016/S0959-440X(03)00077-0 Gilbert, W. (1986). Origin of life: The RNA world. Nature, 319(6055), 618-618. Retrieved from http://dx.doi.org/10.1038/319618a0 Hsiao, C., Lenz, T. K., Peters, J. K., Fang, P.-Y., Schneider, D. M., Anderson, E. J., . . . Dean Williams, L. (2013). Molecular paleontology: a biochemical model of the ancestral ribosome. Nucleic Acids Research. doi:10.1093/nar/gkt023 Lincoln, T. A., & Joyce, G. F. (2009). Self-Sustained Replication of an RNA Enzyme. Science, 323(5918), 1229-1232. doi:10.1126/science.1167856 Athavale, Shreyas S., Anton S. Petrov, Chiaolong Hsiao, Derrick Watkins, Caitlin D. Prickett, J. Jared Gossett, Lively Lie, Jessica C. Bowman, Eric O'Neill, Chad R. Bernier, Nicholas V. Hud, Roger M. Wartell, Stephen C. Harvey, and Loren Dean Williams. 2012. 'RNA Folding and Catalysis Mediated by Iron (II)', PLOS ONE, 7: e38024. Barbusiński, Krzysztof. 2009. 'Fenton reaction-controversy concerning the chemistry', Ecological Chemistry and Engineering. S, 16: 347-58. Chelikani, P., I. Fita, and P. C. Loewen. 2004. 'Diversity of structures and properties among catalases', Cellular and Molecular Life Sciences CMLS, 61: 192-208. DeRose, Victoria J. 2003. 'Metal ion binding to catalytic RNA molecules', Current Opinion in Structural Biology, 13: 317-24. Dupont, Christopher L, Andrew Butcher, Ruben E Valas, Philip E Bourne, and Gustavo Caetano-Anollés. 2010. 'History of biological metal utilization inferred through phylogenomic analysis of protein structures', Proceedings of the National Academy of Sciences, 107: 10567-72. Gilbert, Walter. 1986. 'Origin of life: The RNA world', Nature, 319: 618-18. Hsiao, Chiaolong, I. Chun Chou, C. Denise Okafor, Jessica C. Bowman, Eric B. O'Neill, Shreyas S. Athavale, Anton S. Petrov, Nicholas V. Hud, Roger M. Wartell, Stephen C. Harvey, and Loren Dean Williams. 2013. 'RNA with iron(II) as a cofactor catalyses electron transfer', Nat Chem, 5: 525-28. Hsiao, Chiaolong, Timothy K. Lenz, Jessica K. Peters, Po-Yu Fang, Dana M. Schneider, Eric J. Anderson, Thanawadee Preeprem, Jessica C. Bowman, Eric B. O'Neill, Lively Lie, Shreyas S. Athavale, J. Jared Gossett, Catherine Trippe, Jason Murray, Anton S. Petrov, Roger M. Wartell, Stephen C. Harvey, Nicholas V. Hud, and Loren Dean Williams. 2013. 'Molecular paleontology: a biochemical model of the ancestral ribosome', Nucleic Acids Research. Imlay, James A, Sherman M Chin, and Stuart Linn. 1988. 'Toxic DNA damage by hydrogen peroxide through the Fenton reaction in vivo and in vitro', Science, 240: 640. Lincoln, Tracey A., and Gerald F. Joyce. 2009. 'Self-Sustained Replication of an RNA Enzyme', Science, 323: 1229-32. | |
dc.identifier.uri | http://tdr.lib.ntu.edu.tw/jspui/handle/123456789/76628 | - |
dc.description.abstract | 核糖體被認為是一個生命的原始型態而且出現的時間更早於最早的共同祖先(last universal common ancestor, LUCA)。在古代地理學的地球史中,有個階段叫做大氧化事件,長達十億年將生物從無氧世界轉換至現今的有氧世界。在生物分子的演化當中,包括核糖體;如何在這過渡期中生存是至關重要的。此外,金屬在分子演化過程中扮演著不可或缺之角色,他給予生物分子各種不同的催化功能。我們假設23S核糖體核糖核酸(ribosomal RNA)的核糖體在有金屬離子,特別是正二價離子可以展現出各種不同的功能。在我的論文中,我測試23S rRNA是否有類過氧化氫酶(Catalase)的反應。過氧化氫酶幾乎在全部生物中都可以被發現,就像核糖體存在於所有生物當中。首先,過氧化氫酶的功能是保護細胞免於氧化壓力的破壞。過氧化氫酶的催化位是由含有鐵離子的紫質血紅素或者含有錳離子的雙核金屬簇(無血紅素的過氧化氫酶)所組成。結果顯示23S rRNA和二價鐵離子在特定的有氧條件下,可能可以催化過氧化氫解成氧氣。因此,可以說是為23S rRNA又增添一項催化功能。然而,這催化分解的功能在無氧狀態下是無法被觀察到的;進而推論23S rRNA在二價鐵離子當作輔因子之下,可能在大氧化事件的過渡期中,扮演著保護細胞免於氧化傷害攻擊的一個重要角色。 | zh_TW |
dc.description.abstract | The ribosome predates the last universal common ancestor and is considered a primordial form of life. In the paleo-geographic history of the earth, there was a great oxidation event, which took biology one billion years to transit from anoxic world to modern (oxic) condition. The transition to be survived is crucial upon the evolution of biomolecules, including the ribosomes. Moreover, metals play imperative roles in the molecular evolution, conferred all sorts of catalytic functions on molecules. We hypothesize that the 23S ribosomal RNA (rRNA) of the ribosome exhibits a variety of catalytic functions with metal cations, beyond the Group II cations. Here I test the 23S rRNA with the catalase-like reactivity. Catalase, like the ribosome exists in all livings, is also found in nearly all living organisms. Primarily, the function of catalase is to protect cells against oxidative stress. The catalytic site of catalase is either comprised of porphyrin-heme with iron ion or a dinuclear metal cluster with manganese ion (non-heme catalase). The current settings for the 23S rRNA with Fe(II) in an oxic condition presumably catalyzes the decomposition of hydrogen peroxide into oxygen gas, thus expands the catalytic repertoire of the 23S rRNA. However, this catalytic decomposition is not observed in anoxic condition, suggests that the 23S rRNA with Fe(II) as a cofactor may shield cells from oxidative damages for biology during the transition of great oxidation event. | en |
dc.description.provenance | Made available in DSpace on 2021-07-10T21:34:08Z (GMT). No. of bitstreams: 1 ntu-106-R03b46017-1.pdf: 1697466 bytes, checksum: f90a0d87b6ba5797c713b60e544634e4 (MD5) Previous issue date: 2017 | en |
dc.description.tableofcontents | 口試委員會審定書 i
中文摘要 ii Abstract iii Table of Contents iv Chapter 1: Introduction 1 1.1 RNA world 1 1.2 Ribosome 1 1.3 Catalase 2 1.4 Ribozyme and metal ions 2 1.5 Research motivation and goals 3 Chapter 2: Method 4 2.1 Bacterial culture 4 2.2 In vitro Transcription 4 2.3 Urea Gel 5 2.4 Chelation beads of divalent cations 6 2.5 Detection of generation of bubbles 6 Chapter 3: Results 8 3.1 Test the 23S ribosomal RNA with catalytic decomposition of hydrogen peroxide in the presence of different divalent or trivalent metal ions 8 3.1.1 Iron(III) and Mn(II): catalase-like reactivity test with the 23S ribosomal RNA 8 3.1.2 Iron(II): catalase-like reactivity test with the 23S ribosomal RNA in an anoxic condition 9 3.2 23S ribosomal RNA with iron(II) decomposes hydrogen peroxide into oxygen in an oxic condition 13 Chapter 4: Discussion 15 4.1 The catalase-like reactivity of the 23S rRNA with Fe(III), Mn(II), or mix 15 4.1.1 The 23S rRNA plus Fe(III) settings 15 4.1.2 The 23S rRNA with Mn(II) settings 15 4.2 The 23S rRNA plus Fe(II) settings in an acidic, oxic conditions 16 4.2.1 Acidic conditions affect the reactivity 16 4.2.2 Anoxic/oxic conditions affect the reactivity 16 4.3 False positive outcomes in the control settings 17 4.4 Future works 18 Chapter 5: Reference 19 | |
dc.language.iso | en | |
dc.title | 23S核糖體核糖核酸在二價鐵離子當作輔因子之下催化過氧化氫分解為氧氣 | zh_TW |
dc.title | The 23S rRNA with iron(II) as a cofactor catalyzes the decomposition of hydrogen peroxide into oxygen gas | en |
dc.type | Thesis | |
dc.date.schoolyear | 105-1 | |
dc.description.degree | 碩士 | |
dc.contributor.oralexamcommittee | 冀宏源,張震東 | |
dc.subject.keyword | 核糖體,23S核糖體核糖核酸,過氧化氫?,二價鐵離子,演化,氧化壓力, | zh_TW |
dc.subject.keyword | ribosome,23S rRNA,catalase,Fe(II),evolution,oxidative stress, | en |
dc.relation.page | 20 | |
dc.identifier.doi | 10.6342/NTU201700156 | |
dc.rights.note | 未授權 | |
dc.date.accepted | 2017-01-19 | |
dc.contributor.author-college | 生命科學院 | zh_TW |
dc.contributor.author-dept | 生化科學研究所 | zh_TW |
顯示於系所單位: | 生化科學研究所 |
文件中的檔案:
檔案 | 大小 | 格式 | |
---|---|---|---|
ntu-106-R03b46017-1.pdf 目前未授權公開取用 | 1.66 MB | Adobe PDF |
系統中的文件,除了特別指名其著作權條款之外,均受到著作權保護,並且保留所有的權利。