RNA Riboswitch搜尋系統之設計與實作;RiboCatcher: A design and implementation of RNA Riboswitch searching system

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Title:	RNA Riboswitch搜尋系統之設計與實作;RiboCatcher: A design and implementation of RNA Riboswitch searching system
Authors:	葉記達;Chi-ta Yeh
Contributors:	系統生物與生物資訊研究所
Keywords:	基因調控;核糖核酸;riboswitch;RNA;riboswitch;gene regulatory;RNA
Date:	2008-07-03
Issue Date:	2009-09-22 10:22:32 (UTC+8)
Publisher:	國立中央大學圖書館
Abstract:	Riboswitch是一種近年來發現，對於基因調控相當重要的調控因子，其對於基因表現有其特殊功用和調控方法。由近年來的研究中，我們可以得知各種Riboswitch都有其特殊結構與其特定位置供該riboswitch相應偵測之代謝分子結合。在各Riboswitch中，位於代謝分子與riboswitch之結合位置或者其它位於Riboswitch上有其特殊功能之位置的序列都有一個特性，就是生物演化的過程中，它們比Riboswitch上其它位置的序列擁有更高的保留性。 Riboswitch的核糖核酸二級結構，在演化上是保留性高，而且有其功能性存在的。在Riboswitch中，核糖核酸的二級幹狀結構上面對股上相對兩位置上之核甘，若其中之一突變造成二級幹狀結構的瓦解，會使得Riboswitch失去其與代謝分子的結合能力，因而失去其調控基因的能力。但若對其中之另外一股上的核甘做相對應的突變，使該位置Riboswitch的幹狀二級結構回復，則能夠使得Riboswitch重新得到與代謝分子結合和調控基因的能力，且該能力與其在自然界中存在的未經突變Riboswitch相當。而發生在代謝分子結合點或擁有功能性的位置之單點突變，則大大的降低了Riboswitch的調控能力。因此，我們發現了對於Riboswitch這種調控因子而言，結構與序列保留度擁有同等的重要性。有鑑於此，我們運用了對於Riboswitch這種調控因子在結構與序列上保留度高的特徵來做為發展Riboswitch預測工具的主要方法。利用此兩種特徵，我們開發了一個針對Riboswitch的搜尋工具與網站以作為研究Riboswitch之用。 Riboswitches are recently revealed that are important functional and regulatory elements of gene expression. From recent researches, we know that each riboswitch has its unique structure and ligand binding site. Binding sites or other functional sites are more conserved than other non-conserved stem region. Structure conservation is important and compensatory mutation of stems exhibit transcript activity similar to the wild type in the biological experiments while single point mutation destroy the stem structure of riboswitch and show higher amount of transcript activity than wild type. Mutations of ligand binding site region or functional sites decrease regulating ability of riboswitch. Accordingly, we found that the structure and the sequence conservation are both important in search progress. As described above, we used the conservation of structures and sequences as characteristics to build our riboswitch prediction system. By using these two characteristics, we developed a riboswitch search tool and a web server for researching of riboswitches.
Appears in Collections:	[Institute of Systems Biology and Bioinformatics] Electronic Thesis & Dissertation

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