在本研究中均利用基質輔助雷射脫附游離飛行時間質譜儀 (Matrix-Assisted Laser Desorption Ionization/Time of Flight Mass Spectrometry; MALDI-TOF/MS) 分別快速分析與區分不同致癌性的胃幽門螺旋桿菌株，以及對白化與健康的珊瑚進行影像質譜之分析。
一、 以MALDI-TOF/MS區分不同致癌性的胃幽門螺旋桿菌株
幽門螺旋桿菌 (Helicobacter pylori, Hp) 為葛蘭氏陰性的螺旋桿菌。研究幽門螺旋桿菌之重要性在於其會造成許多消化道疾病，包含胃炎 (chronic gastritis)、十二指腸潰瘍 (duodenal ulcers、胃潰瘍 (gastric ulcers)，甚至可能進一步引發胃癌 (gastric cancer) 等癌症。本研究先以幽門螺旋桿菌標準菌株 (ATCC 49503) 建立最適化的實驗參數，包含菌量、樣品溶液、基質溶劑以及點樣方法等，以達到可快速分析樣品並擁有良好的圖譜再現性的目的。接著以此最適化參數分析三個幽門螺旋桿菌標準菌株 (Hp strain ATCC 51932, 49503與43504) 以及臨床之胃幽門螺旋桿菌株 (Chou, G951與G926)，並將所得到的 MALDI-TOF/MS 質譜圖結合 PCA 統計軟體來快速區別不同致癌程度之幽門螺旋桿菌株。結果顯示對宿主細胞的損傷較高的標準菌株 ATCC 49503 (cag PAI+, vacA s1/m1) 與 ATCC 43504 (cag PAI+, vacA s1/m1)，與會誘導產生較嚴重胃炎的臨床菌株 G926 在 PCA 中之落點相似，表示其有相似之蛋白質表現，這與此三株菌株都是較易引發胃癌的菌株之結果完全相符，表示藉由本研究之方法可以快速地區分菌種之相似程度，可在短時間內反映出菌種之不同毒性程度，未來可做為門診投藥治療之參考。
二、 以影像質譜法研究因環境變化導致珊瑚白化的程度
基質輔助雷射脫附游離結合影像質譜法 (Matrix-Assisted Laser Desorption/Ionization Imaging Mass Spectrometry, MALDI-IMS) 是影像與質譜技術的融合，可以影像的方式呈現各成份在組織中之分佈情況與含量多寡，能表現出組織特定部位的特異性。本研究均以肉質組織較多之束型真葉珊瑚 (Euphyilla glabrescens, Eg) 為觀察對象。首先分析白化與健康珊瑚之脂質影像質譜，並探討兩者間之不同脂質訊號，可以發現健康的珊瑚可得到明顯的共生藻訊號，而白化珊瑚則是呈現有一群健康珊瑚所沒有的脂質訊號。接著，以藍光來照射半白化的 Eg 觸手，在照射不同天數 (1天、4天、8天) 之後，再以影像質譜的方式來呈現結果，可以發現當光線處理的時間超過四天以上時，珊瑚及其共生藻脂質強度明顯大於只處理一天之結果，且白化珊瑚中所特有的訊號會漸漸消失。最後，將所有觀察到的脂質訊號進行整理，再以二次質譜法進行碎裂，得到其碎裂圖譜並鑑定其身份，以期了解健康珊瑚、白化珊瑚與共生藻三者之間脂質之關係。

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摘要........................................................................................................... I
目錄..........................................................................................................III
圖目錄.....................................................................................................VI
表目錄...................................................................................................XIII

第一章 以MALDI-TOF/MS區分不同致癌性的胃幽門螺旋桿菌株
壹、 緒論..............................................................................................1
一、 前言..............................................................................................1
二、 基質輔助雷射脫附游離質譜法（MALDI）.............................6
三、 幽門螺旋桿菌 (Helicobacter pylori)........................................11
四、 主成分分析 (Principal Component Analysis) ..........................13
五、 論文目標....................................................................................19
貳、 實驗............................................................................................20
一、 儀器設備....................................................................................20
二、 化學試劑......................................................................................21
三、 幽門螺旋桿菌............................................................................21
四、 實驗方法......................................................................................24
參、 結果與討論...................................................................................27
一、 實驗最佳化參數探討..................................................................27
二、 以最佳化條件分析幽門螺旋桿菌株..........................................37
三、 以統計軟體PCA分析幽門螺旋桿菌株圖譜.............................39
肆、 結論...............................................................................................48
伍、 參考資料.......................................................................................49

第二章 以影像質譜法研究因環境變化導致珊瑚白化的程度
壹、 緒論............................................................................................56
一、 前言............................................................................................56
二、 影像質譜結合基質輔助雷射脫附游離法................................58
三、 珊瑚............................................................................................66
四、 論文目標....................................................................................71
貳、 實驗............................................................................................72
一、 儀器設備....................................................................................72
二、 化學試劑....................................................................................73
三、 珊瑚組織.....................................................................................73
四、 實驗方法.....................................................................................75
參、 結果與討論.................................................................................77
一、 選擇適當的MALDI基質..........................................................77
二、 健康與白化珊瑚之影像質譜......................................................79
三、 照光恢復珊瑚之影像質譜..........................................................86
四、 質譜訊號探討.............................................................................91
五、 脂質鑑定....................................................................................103
肆、 結論..............................................................................................105
伍、 參考資料.....................................................................................107

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