肌醇代謝路徑之細菌基因體學比較

細菌對不同種類碳源利用的能力，通常可以用來作為區分菌種和描述細菌特性的依據。 Myo-inositol為一6碳的環狀碳水化合物在土壤中含量豐富，研究結果指出 Bacillus subtilis和一些微生物的生長，可以單純利用肌醇(Inositol)作為單一碳源。研究結果指出，在 B.subtilis菌中 iolABCDEFGHIJ及iolRS操縱子，分別參與肌醇(Inositol)的利用與調節。在 Sinorhizobiurn fredii '除了肌醇利用外，固氮作用也必需要 Myo-Inositol去氫嗨基園的參與。然而，多數其它微生物則不能利用肌醇來當能量來源。在本論文中，以方法來比較和分析不同的細菌種類的 iol相關基因群。在研究方法上，我們從NCBI和 KEGG資料庫可以取得十八種細菌的肌醇代謝路徑，以及參與肌醇代謝的代謝基因與基因體序列。先利用從 VectorNTI工其來建構與比較 iol相關基因體圈。接著從NCBI中的 Blast工具應用蒐尋同源基因。再使用 NCBI的 CDD工具來分析各個蛋白質的功能區域。我們同時也使用了 Multialin工具來作同源菌種的功能性區域序列比對，及 Seqlogo來畫出各個區域的胺基酸logo。最後由 ClustalX中 bootstrap的隨機設定來完成各個區域的演化樹分析及treeView工其來呈現演化樹圖。

關鍵字

肌醇；肌醇代謝路徑； ioL基因群；基因體學；演化樹；蛋白質序列比對

並列摘要

The capabilities to assimilate different kinds of carbon source are often used for bacterial isolation and characterization. Myo-inositol is abundant in soil. Bacillus subtiis and several microorganisms can grow on inositol as the sole carbon source. The io1ABCDEFGHIJ and iolRS operons are known to be involved in inositol utilization and regulation in B. subtilis,respectively .A functional myo-inositol dehydrogenase gene is required for efficient nitrogen fixation of Sinorhizobium meliloti. However, most other microbes cannot use inositol as a source of energy for growth. In this thesis, the lol genes were analyzed and compared between different bacterial species using comparative genomic approach. The metabolism pathway and genomic sequences of genes involved in inositol metabolic pathway of eighteen species of bacteria was retrieved from NCBI and KEGG database. Using tools in Vector NTI, the genomic maps were constructed and compared. The Blast tool in NCBI was applied for homologous genes search. The functional domain of each protein was analyzed using CDD tool in NCBI. Homologous domain sequences were aligned by Multialin tool and a logo of each domain was drawn by Seqlogo. Phylogenetic analysis of each domain was carried out using tools in ClustaiX with bootstrap randomization. The phylogenetic trees were visualized by treeView. Our results demonstrated that an intact iol operon was found only in a few species, and a major deletion, duplication and genomic rearrangement were observed in different genomes.

並列關鍵字

Inositol ； inositol metabolic pathway ； iol operon ； genomic rearrangement ； phylogenetic trees

參考文獻

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肌醇代謝路徑之細菌基因體學比較

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