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完整後設資料紀錄
DC 欄位 | 值 | 語言 |
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dc.contributor.advisor | 李佳音(Chia-Yin Lee) | |
dc.contributor.author | Ting-Wei Chang | en |
dc.contributor.author | 張庭瑋 | zh_TW |
dc.date.accessioned | 2021-06-08T02:21:27Z | - |
dc.date.copyright | 2015-08-31 | |
dc.date.issued | 2015 | |
dc.date.submitted | 2015-08-20 | |
dc.identifier.citation | Acosta, N., Pukatzki, S., and Raivio, T.L. (2015). The Cpx system regulates virulence gene expression in Vibrio cholerae. Infection and Immunity 83, 2396-2408.
Batchelor, E., Walthers, D., Kenney, L.J., and Goulian, M. (2005). The Escherichia coli CpxA-CpxR envelope stress response system regulates expression of the porins ompF and ompC. Journal of Bacteriology 187, 5723-5731. Bullock, W. (1987). XL-1 Blue: a high efficiency plasmid transforming recA Escherichia coli strain with beta-galactosidase selection. BioTechniques 5, 376-379. Cao, J., Woodhall, M.R., Alvarez, J., Cartron, M.L., and Andrews, S.C. (2007). EfeUOB (YcdNOB) is a tripartite, acid‐induced and CpxAR‐regulated, low‐pH Fe2+ transporter that is cryptic in Escherichia coli K‐12 but functional in E. coli O157: H7. Molecular Microbiology 65, 857-875. Choi, J.Y., Duraisingh, M.T., Marti, M., Ben Mamoun, C., and Voelker, D.R. (2015). From protease to decarboxylase: the molecular metamorphosis of phosphatidylserine decarboxylase. The Journal of Biological Chemistry 290, 10972-10980. Danese, P.N., and Silhavy, T.J. (1997). The sigma (E) and the Cpx signal transduction systems control the synthesis of periplasmic protein-folding enzymes in Escherichia coli. Genes Development 11, 1183-1193. Danese, P.N., and Silhavy, T.J. (1998). CpxP, a stress-combative member of the Cpx regulon. Journal of Bacteriology 180, 831-839. Dartigalongue, C., and Raina, S. (1998). A new heat-shock gene, ppiD, encodes a peptidyl-prolyl isomerase required for folding of outer membrane proteins in Escherichia coli. Embo j 17, 3968-3980. De Wulf, P., Kwon, O., and Lin, E. (1999). The CpxRA Signal Transduction System of Escherichia coli: Growth-Related Autoactivation and Control of Unanticipated Target Operons. Journal of Bacteriology 181, 6772-6778. De Wulf, P., McGuire, A.M., Liu, X., and Lin, E.C. (2002). Genome-wide profiling of promoter recognition by the two-component response regulator CpxR-P in Escherichia coli. The Journal of Biological Chemistry 277, 26652-26661. Diervo, A.J., and Reynolds, J.W. (1975). Phospholipid composition and cardiolipin synthesis in fermentative and nonfermentative marine bacteria. Journal of Bacteriology 123, 294-301. Dorel, C., Vidal, O., Prigent-Combaret, C., Vallet, I., and Lejeune, P. (1999). Involvement of the Cpx signal transduction pathway of E. coli in biofilm formation. FEMS Microbiology Letters 178, 169-175. Dowhan, W. (2013). A retrospective: use of Escherichia coli as a vehicle to study phospholipid synthesis and function. Biochimica et Biophysica Acta 1831, 471-494. Dowhan, W., and Li, Q.X. (1992). Phosphatidylserine decarboxylase from Escherichia coli. Methods in Enzymology 209, 348-359. Gerdes, S.Y., Scholle, M.D., Campbell, J.W., Balazsi, G., Ravasz, E., Daugherty, M.D., Somera, A.L., Kyrpides, N.C., Anderson, I., Gelfand, M.S., et al. (2003). Experimental determination and system level analysis of essential genes in Escherichia coli MG1655. Journal of Bacteriology 185, 5673-5684. Heath, R.J., Jackowski, S., and Rock, C.O. (2002). Fatty acid and phospholipid metabolism in prokaryotes. Biochemistry of Lipids, Lipoproteins and Membranes 36, 55-92. Hernday, A.D., Braaten, B.A., Broitman-Maduro, G., Engelberts, P., and Low, D.A. (2004). Regulation of the pap epigenetic switch by CpxAR: phosphorylated CpxR inhibits transition to the phase ON state by competition with Lrp. Molecular Cell 16, 537-547. Higa, N., Toma, C., Koizumi, Y., Nakasone, N., Nohara, T., Masumoto, J., Kodama, T., Iida, T., and Suzuki, T. (2013). Vibrio parahaemolyticus effector proteins suppress inflammasome activation by interfering with host autophagy signaling. PLoS Pathogens 9, e1003142. Hirakawa, H., Inazumi, Y., Masaki, T., Hirata, T., and Yamaguchi, A. (2005). Indole induces the expression of multidrug exporter genes in Escherichia coli. Molecular Microbiology 55, 1113-1126. Hung, D.L., Raivio, T.L., Jones, C.H., Silhavy, T.J., and Hultgren, S.J. (2001). Cpx signaling pathway monitors biogenesis and affects assembly and expression of P pili. The EMBO Journal 20, 1508-1518. Jones, J.L. (2014). VIBRIO | Introduction, Including Vibrio parahaemolyticus, Vibrio vulnificus, and Other Vibrio Species. In Encyclopedia of Food Microbiology (Second Edition), C.A.B.L. Tortorello, ed. (Oxford: Academic Press), pp. 691-698. Jubelin, G., Vianney, A., Beloin, C., Ghigo, J.-M., Lazzaroni, J.-C., Lejeune, P., and Dorel, C. (2005). CpxR/OmpR interplay regulates curli gene expression in response to osmolarity in Escherichia coli. Journal of Bacteriology 187, 2038-2049. Keller, R., Arioz, C., Hansmeier, N., Stenberg-Bruzell, F., Burstedt, M., Vikstrom, D., Kelly, A., Wieslander, A., Daley, D.O., and Hunke, S. (2015). The Escherichia coli Envelope Stress Sensor CpxA Responds to Changes in Lipid Bilayer Properties. Biochemistry 54, 3670-3676. Kelley, L.A., Mezulis, S., Yates, C.M., Wass, M.N., and Sternberg, M.J.E. (2015). The Phyre2 web portal for protein modeling, prediction and analysis. Nature Protocols 10, 845-858. Keseler, I.M., Mackie, A., Peralta-Gil, M., Santos-Zavaleta, A., Gama-Castro, S., Bonavides-Martinez, C., Fulcher, C., Huerta, A.M., Kothari, A., Krummenacker, M., et al. (2013). EcoCyc: fusing model organism databases with systems biology. Nucleic Acids Research 41, D605-612. Lee, C. Y., Cheng, M. F., Yu, M. S., Pan, M. J. (2002). Purification and characterization of a putative virulence factor, serine protease, from Vibrio parahaemolyticus. FEMS Microbiology Letters, 209(1), 31-37. Livak, K.J., and Schmittgen, T.D. (2001). Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method. Methods (San Diego, Calif) 25, 402-408. Lopez, C.S., Alice, A.F., Heras, H., Rivas, E.A., and Sanchez-Rivas, C. (2006). Role of anionic phospholipids in the adaptation of Bacillus subtilis to high salinity. Microbiology uk 152, 605-616. Lynch, A.S., and Lin, E. (1996). Transcriptional control mediated by the ArcA two-component response regulator protein of Escherichia coli: characterization of DNA binding at target promoters. Journal of Bacteriology 178, 6238-6249. Macritchie, D.M., Ward, J.D., Nevesinjac, A.Z., and Raivio, T.L. (2008). Activation of the Cpx envelope stress response down-regulates expression of several locus of enterocyte effacement-encoded genes in enteropathogenic Escherichia coli. Infection and Immunity 76, 1465-1475. Martinez-Hackert, E., and Stock, A.M. (1997). The DNA-binding domain of OmpR: crystal structures of a winged helix transcription factor. Structure (London, England : 1993) 5, 109-124. Martinez-Urtaza, J., Simental, L., Velasco, D., DePaola, A., Ishibashi, M., Nakaguchi, Y., Nishibuchi, M., Carrera-Flores, D., Rey-Alvarez, C., and Pousa, A. (2005). Pandemic Vibrio parahaemolyticus O3:K6, Europe. Emerging Infectious Diseases 11, 1319-1320. Mileykovskaya, E., and Dowhan, W. (1997). The Cpx two-component signal transduction pathway is activated in Escherichia coli mutant strains lacking phosphatidylethanolamine. Journal of Bacteriology 179, 1029-1034. Moser, R., Aktas, M., Fritz, C., and Narberhaus, F. (2014). Discovery of a bifunctional cardiolipin/phosphatidylethanolamine synthase in bacteria. Molecular Microbiology 92, 959-972. Nakayama, S.-i., and Watanabe, H. (1995). Involvement of cpxA, a sensor of a two-component regulatory system, in the pH-dependent regulation of expression of Shigella sonnei virF gene. Journal of Bacteriology 177, 5062-5069. Narayanan, A., Kumar, S., Evrard, A.N., Paul, L.N., and Yernool, D.A. (2014). Asymmetric hetero-domain interface stabilizes a response regulator-DNA complex. Nature Communications 5, 3282. Nevesinjac, A.Z., and Raivio, T.L. (2005). The Cpx envelope stress response affects expression of the type IV bundle-forming pili of enteropathogenic Escherichia coli. Journal of Bacteriology 187, 672-686. Nomura, T., Hamashima, H., and Okamoto, K. (2000). Carboxy terminal region of haemolysin of Aeromonas sobria triggers dimerization. Microbial Pathogenesis 28, 25-36. Ogasawara, H., Teramoto, J., Hirao, K., Yamamoto, K., Ishihama, A., and Utsumi, R. (2004). Negative regulation of DNA repair gene (ung) expression by the CpxR/CpxA two-component system in Escherichia coli K-12 and induction of mutations by increased expression of CpxR. Journal of Bacteriology 186, 8317-8325. Ottaviani, D., Leoni, F., Rocchegiani, E., Canonico, C., Potenziani, S., Santarelli, S., Masini, L., Scuota, S., and Carraturo, A. (2010). Vibrio parahaemolyticus-associated gastroenteritis in Italy: persistent occurrence of O3:K6 pandemic clone and emergence of O1:KUT serotype. Diagnostic Microbiology and Infectious Disease 66, 452-455. Pfeffer, C., and Oliver, J. (2003). A comparison of thiosulphate‐citrate‐bile salts‐sucrose (TCBS) agar and thiosulphate‐chloride‐iodide (TCI) agar for the isolation of Vibrio species from estuarine environments. Letters in Applied Microbiology 36, 150-151. Philippe, N., Alcaraz, J.P., Coursange, E., Geiselmann, J., and Schneider, D. (2004). Improvement of pCVD442, a suicide plasmid for gene allele exchange in bacteria. Plasmid 51, 246-255. Pogliano, J., Lynch, A.S., Belin, D., Lin, E., and Beckwith, J. (1997). Regulation of Escherichia coli cell envelope proteins involved in protein folding and degradation by the Cpx two-component system. Genes Development 11, 1169-1182. Pratt, L.A., and Silhavy, T.J. (1994). OmpR mutants specifically defective for transcriptional activation. Journal of Molecular Biology 243, 579-594. Price, N.L., and Raivio, T.L. (2009). Characterization of the Cpx regulon in Escherichia coli strain MC4100. Journal of Bacteriology 191, 1798-1815. Prigent-Combaret, C., Brombacher, E., Vidal, O., Ambert, A., Lejeune, P., Landini, P., and Dorel, C. (2001). Complex regulatory network controls initial adhesion and biofilm formation in Escherichia coli via regulation of the csgD gene. Journal of Bacteriology 183, 7213-7223. Raffa, R.G., and Raivio, T.L. (2002). A third envelope stress signal transduction pathway in Escherichia coli. Molecular Microbiology 45, 1599-1611. Raivio, T.L., Popkin, D.L., and Silhavy, T.J. (1999). The Cpx envelope stress response is controlled by amplification and feedback inhibition. Journal of Bacteriology 181, 5263-5272. Raivio, T.L., and Silhavy, T.J. (1997). Transduction of envelope stress in Escherichia coli by the Cpx two-component system. Journal of Bacteriology 179, 7724-7733. Raivio, T.L., and Silhavy, T.J. (2001). Periplasmic stress and ECF sigma factors. Annual Reviews in Microbiology 55, 591-624. Reese, M.G. (2001). Application of a time-delay neural network to promoter annotation in the Drosophila melanogaster genome. Computers Chemistry 26, 51-56. Rhodius, V.A., Suh, W.C., Nonaka, G., West, J., and Gross, C.A. (2006). Conserved and variable functions of the sigmaE stress response in related genomes. PLoS Biology 4, e2. Rock, C.O. (2008). Chapter 3 - Fatty acid and phospholipid metabolism in prokaryotes. In Biochemistry of Lipids, Lipoproteins and Membranes (Fifth Edition), Vance, J. E., and Vance, D. E., eds, 59-96. San Diego: Elsevier. Saier Jr, M.H. (2009). Cell Membrane, Prokaryotic. In Encyclopedia of Microbiology (Third Edition), Schaechter, M., ed, 341-356. Oxford: Academic Press. Sakazaki, R. (2003). VIBRIOS | Vibrio parahaemolyticus. In Encyclopedia of Food Sciences and Nutrition (Second Edition), Caballero, B., ed, 5988-5992. Oxford: Academic Press. Schafer, A., Kalinowski, J., Simon, R., Seep-Feldhaus, A.H., and Puhler, A. (1990). High-frequency conjugal plasmid transfer from gram-negative Escherichia coli to various gram-positive coryneform bacteria. Journal of Bacteriology 172, 1663-1666. Schuiki, I., and Daum, G. (2009). Phosphatidylserine decarboxylases, key enzymes of lipid metabolism. International Union of Biochemistry and Molecular Biology life 61, 151-162. Solovyev, V., and Salamov, A. (2011) Automatic annotation of microbial genomes and metagenomic sequences. In Metagenomics and its Applications in Agriculture, Biomedicine and Environmental Studies, Li, R.W., ed, 61-78. New york: Nova Science Publishers. Taylor, D.L., Bina, X.R., Slamti, L., Waldor, M.K., and Bina, J.E. (2014). Reciprocal regulation of resistance-nodulation-division efflux systems and the Cpx two-component system in Vibrio cholerae. Infection and Immunity 82, 2980-2991. Thanikkal, E.J., Mangu, J.C., and Francis, M.S. (2012). Interactions of the CpxA sensor kinase and cognate CpxR response regulator from Yersinia pseudotuberculosis. BMC Research Notes 5, 536. Tschauner, K., Hornschemeyer, P., Muller, V.S., and Hunke, S. (2014). Dynamic interaction between the CpxA sensor kinase and the periplasmic accessory protein CpxP mediates signal recognition in E. coli. PloS One 9, e107383. Vance, J.E., and Steenbergen, R. (2005). Metabolism and functions of phosphatidylserine. Progress in Lipid Research 44, 207-234. Voelker, D.R. (1997). Phosphatidylserine decarboxylase. Biochimica et Biophysica Acta 1348, 236-244. Winn, W.C., and Koneman, E.W. (2006). Color Atlas and Textbook of Diagnostic Microbiology (Sixth Edition). Philadelphia: J.B. Lippincott Company. Wu, Y., Wen, J., Ma, Y., Ma, X., and Chen, Y. (2014). Epidemiology of foodborne disease outbreaks caused by Vibrio parahaemolyticus, China, 2003–2008. Food Control 46, 197-202. Yamamoto, K., and Ishihama, A. (2006). Characterization of copper-inducible promoters regulated by CpxA/CpxR in Escherichia coli. Bioscience, Biotechnology, and Biochemistry 70, 1688-1695. Zhang, Y.M., and Rock, C.O. (2008). Membrane lipid homeostasis in bacteria. Nature Reviews Microbiology 6, 222-233. | |
dc.identifier.uri | http://tdr.lib.ntu.edu.tw/jspui/handle/123456789/19825 | - |
dc.description.abstract | 磷脂醯絲胺酸脫羧酶(Psd)參與磷脂質代謝及內膜磷脂質比例的改變,會影響蛋白質正確折曡及Cpx膜壓力反應。Psd是磷脂醯乙醇胺(PE)生合成途徑最終端的重要酵素,將磷脂醯絲胺酸(PS)進行脫羧反應後形成PE。本研究以腸炎弧菌Vibrio parahaemolyticus no.93作為實驗菌株,建構腸炎弧菌cpxR刪除突變株及補償株,探討psd基因在腸炎弧菌中是否受CpxR調控。本研究發現腸炎弧菌psd啟動子區域具有與轉錄調控子CpxR保守性結合位相似之核苷酸序列。由即時定量聚合酶連鎖反應分析顯示,psd基因在cpxR刪除突變株的表現量高於野生株,而 cpxR補償株具有回補作用,證實psd基因受到CpxR負向調控。經由以psd啟動子觀察報導基因luxA及luxB的螢光表現發現,實驗菌株進入穩定生長期後,cpxR刪除突變株的螢光表現量高於野生株,推論腸炎弧菌CpxR透過與psd啟動子的作用以進行調控。此外,CpxR對於cpxP基因也具有抑制的現象。在野生株及cpxR刪除突變株之移動能力實驗發現,野生株的游走及泳動能力皆優於cpxR刪除突變株,顯示腸炎弧菌的游走及泳動能力受到CpxR正向影響。然而,腸炎弧菌之移動能力在cpxR補償株中並無回補現象,推測其移動能力可能也受其他因素影響。在psd過表現株的移動能力實驗中發現,psd過表現對腸炎弧菌的游走能力具有抑制的現象。本研究結果證實腸炎弧菌psd基因受CpxR負向調控,亦確認其啟動子位於轉譯起始點至上游第118個核苷酸間之區域。 | zh_TW |
dc.description.abstract | Phosphatidylserine decarboxylases (Psd) is involved in phospholipid metabolism and alterations in the ratio of inner membrane phospholipids, which have been shown to affect both protein folding and the Cpx envelope stress response. Psd catalyzes the formation of phosphatidylethanolamine (PE) by decarboxylation of phosphatidylserine (PS). In this study, we construct V. parahaemolyticus cpxR-deletion mutant to investigate the relation between CpxR and psd. The promoter region of V. parahaemolyticus psd contains a conserved sequence, wich is similar with the conserved CpxR-binding site. The RLU/OD600 in cpxR-deletion mutant was higher than in wild type at the stationary phase. By qRT-PCR analysis, the transcript level of psd in cpxR-deletion mutant was higher than wild type, suggesting that CpxR may negatively regulate psd expression. The CpxR also negatively regulate cpxP expression. The swimming and swarming ability of wild type was better than cpxR-deletion mutant, suggesting that the swimming and swarming ability of V. parahaemolyticus is positively affected by CpxR. Conclude the results, V. parahaemolyticus psd is negatively regulated by CpxR, and the promoter of psd gene is located at upstream region. | en |
dc.description.provenance | Made available in DSpace on 2021-06-08T02:21:27Z (GMT). No. of bitstreams: 1 ntu-104-R02623023-1.pdf: 1682332 bytes, checksum: 18e9341f81a9e2980510012307e14d21 (MD5) Previous issue date: 2015 | en |
dc.description.tableofcontents | 中文摘要 i 英文摘要 ii 目錄 iii 表次 vii 圖次 viii 附錄圖次 x 縮寫表 xi 壹、前言 1 一、腸炎弧菌 (Vibrio parahaemolyticus) 1 1. 概論 1 2. 性狀 1 3. 腸炎弧菌引起之疾病 2 4. 腸炎弧菌對免疫系統之影響 3 二、細胞膜 3 1. 細胞膜脂質 3 2. 細胞膜磷脂質性質 4 3. 磷脂質生合成 5 4. 細胞膜磷脂質平衡 6 5. 細菌對磷脂質的修飾 7 三、磷脂醯絲胺酸合成酶與磷脂醯絲胺酸脫羧酶 8 1. 磷脂醯絲胺酸合成酶(phosphatidylserine synthase) 8 2. 磷脂醯絲胺酸脫羧酶(phosphatidylserine decarboxylase) 9 3. 磷脂醯絲胺酸脫羧酶在真核生物中的研究 10 4. 磷脂醯乙醇胺(phosphatidylethanolamine, PE) 11 四、Cpx雙組成系統(two-component system) 11 1. Cpx雙組成系統的組成與功能 11 2. Cpx雙組成系統的作用 13 3. Cpx雙組成系統在霍亂弧菌中的調控作用 13 五、研究源起與目的 14 貳、實驗材料與方法 15 I. 實驗材料 15 一、實驗菌株、引子與質體 15 二、培養基 15 三、藥品與試劑 15 四、溶液與緩衝溶液 16 五、儀器設備 18 六、實驗使用套組 19 II. 實驗方法 20 一、DNA技術 20 二、RNA技術 26 三、建構腸炎弧菌ΔcpxR突變株 29 四、建構腸炎弧菌cpxR補償株 31 五、建構腸炎弧菌psd過表現株 32 六、南方墨點法 33 七、生長曲線測定 36 八、LuxAB螢光活性分析 36 九、移動能力測試 38 十、生物資訊分析 38 十一、統計分析 39 參、實驗結果 40 一、腸炎弧菌no.93 Psd基因親緣關係 40 二、預測腸炎弧菌no.93之psd啟動子 41 三、大腸桿菌及腸炎弧菌no.93 之CpxR蛋白質結構預測 41 四、腸炎弧菌及大腸桿菌之必需基因預測 42 五、建構腸炎弧菌no.93之ΔcpxR突變株 43 六、南方墨點法證實ΔcpxR突變株 44 七、腸炎弧菌no.93野生株與ΔcpxR突變株生長速率 45 八、以qRT-PCR分析cpxR、psd及cpxP基因之表現時間點 45 九、以qRT-PCR分析psd、cpxP及cpxA在腸炎弧菌野生株與ΔcpxR突變株之基因表現 46 十、以qRT-PCR分析psd及cpxP基因在野生株、ΔcpxR突變株及cpxR補償株之表現量 46 十一、以LuxAB螢光活性分析psd啟動子 47 十二、以LuxAB螢光活性分析psd啟動子在腸炎弧菌野生株及ΔcpxR突變株受調控之情形 48 十三、腸炎弧菌野生株及ΔcpxR突變株之移動能力測試 49 十四、腸炎弧菌野生株、ΔcpxR突變株及cpxR補償株之移動能力測試 49 十五、腸炎弧菌野生株及psd過表現株之移動能力測試 50 肆、討論 51 一、CpxR對目標基因的調控機制 51 二、大腸桿菌及腸炎弧菌Cpx雙組成系統對psd及cpxP之調控 51 三、psd基因在腸炎弧菌與大腸桿菌受相反調控作用 53 四、Cpx雙組成系統的作用方式影響基因調控之觀察 54 五、腸炎弧菌ΔcpxR突變株之移動能力下降 54 伍、結論 56 陸、未來展望 57 柒、參考文獻 58 | |
dc.language.iso | zh-TW | |
dc.title | 腸炎弧菌磷脂醯絲胺酸脫羧酶之調控 | zh_TW |
dc.title | The regulation of phosphatidylserine decarboxylase in Vibrio parahaemolyticus | en |
dc.type | Thesis | |
dc.date.schoolyear | 103-2 | |
dc.description.degree | 碩士 | |
dc.contributor.oralexamcommittee | 賴信志(Hsin-Chih Lai),郭志鴻(Chih-Horng Kuo) | |
dc.subject.keyword | 腸炎弧菌,磷脂醯絲胺酸脫羧?, | zh_TW |
dc.subject.keyword | vibrio parahaemolyticus,phosphatidylserine decarboxylase, | en |
dc.relation.page | 109 | |
dc.rights.note | 未授權 | |
dc.date.accepted | 2015-08-20 | |
dc.contributor.author-college | 生物資源暨農學院 | zh_TW |
dc.contributor.author-dept | 農業化學研究所 | zh_TW |
顯示於系所單位: | 農業化學系 |
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