臺灣博碩士論文加值系統

插入序列 (insertion sequence, IS) 為原核生物 (prokaryote) 內構造最簡單而且含量豐富的一種轉位子 (transposable element, TE)。插入序列可藉由轉位 (transposition) 作用和促進鄰近基因表現的方式來增進宿主原核生物的適應度 (fitness)。
本研究結合基於基因結構、序列同源性 (sequence homology) 和序列組成 (sequence composition) 的方法，開發出改良的插入序列註解系統，「IS Hunter」，並且使用 IS Hunter 對食葉性飛鼠 (白面鼯鼠) 盲腸原核生物的多源基因體 (metagenome) 進行插入序列的註解，結果發現插入序列在飛鼠盲腸原核生物多源基因體中的分佈相當稀疏以及不同插入序列家族 (family) 的宿主原核生物數目會有所不同，而透過飛鼠盲腸原核生物種類的註解，則發現插入序列的分佈會受飛鼠盲腸原核生物種類的影響。接著與來自多樣環境的完整原核生物基因體的插入序列分佈進行比較後，則發現飛鼠盲腸原核生物多源基因體可能有其獨特的插入序列分佈。
另外，再透過鄰近基因功能以及必須基因 (essential gene) 和非必須基因的註解後，則發現飛鼠盲腸原核生物多源基因體中的插入序列分佈會受到鄰近基因功能以及必須和非必須基因等因素的影響，並且有兩項基因功能類別被顯著富集在插入序列附近，其分別為：(1) 複製、重組和修復；(2) 細胞週期控制、細胞分裂和染色體分配，而某些被顯著富集在插入序列附近的基因功能可能會增進飛鼠盲腸內特定種類宿主細菌的適應度，甚至會影響到宿主飛鼠的適應度。

誌謝 i
中文摘要 ii
英文摘要 iii
第一章 插入序列研究的文獻回顧 1
1.1 插入序列的基本特性介紹 1
1.2 插入序列的結構組成 2
1.3 插入序列的命名與分類 4
1.4 插入序列的轉位機制 6
1.5 插入序列的插入目標專一性 6
1.6 插入序列促進附近基因表現之機制 7
1.7 插入序列在原核生物中的分布 8
1.8 插入序列在原核生物中的存續和對原核生物適應度的影響 9
1.9 研究主題與研究方向 11
第二章 飛鼠盲腸原核生物的插入序列之分析 13
2.1 前言 13
2.2 材料方法 15
2.3 結果 27
2.4 討論 35
2.5 總結 44
參考文獻 45

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