請用此 Handle URI 來引用此文件：
http://tdr.lib.ntu.edu.tw/jspui/handle/123456789/48641完整後設資料紀錄
| DC 欄位 | 值 | 語言 |
|---|---|---|
| dc.contributor.advisor | 劉啟德(Chi-Te Liu) | |
| dc.contributor.author | Min-Hua Peng 彭敏華 | en |
| dc.contributor.author | 彭敏華 | zh_TW |
| dc.date.accessioned | 2021-06-15T07:06:05Z | - |
| dc.date.available | 2016-09-19 | |
| dc.date.copyright | 2011-09-19 | |
| dc.date.issued | 2011 | |
| dc.date.submitted | 2011-08-18 | |
| dc.identifier.citation | Altschul, S. F., Thomas, L. M., Alejandro, A. S., Jinghui, Z., Webb, M. &David, J. L. (1997). Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 25: 3389–3402.
Austin, S. &Abeles, A. (1983). Partition of unit-copy miniplasmids to daughter cells. II. The partition region of miniplasmid P1 encodes an essential protein and a centromere-like site at which it acts. J Mol Biol 169: 373-387. Austin, S. &Wierzbicki, A. (1983). Two mini-F-encoded proteins are essential for equipartition. Plasmid 10: 73-81. Autret, S., Nair, R. &Errington, J. (2001). Genetic analysis of the chromosome segregation protein Spo0J of Bacillus subtilis: evidence for separate domains involved in DNA binding and interactions with Soj protein. Mol Microbiol 41: 743-755. Bartosik, A. A., Lasocki, K., Mierzejewska, J., Thomas, C. M. &Jagura-Burdzy, G. (2004). ParB of Pseudomonas aeruginosa: interactions with its partner ParA and its target parS and specific effects on bacterial growth. J Bacteriol 186: 6983-6998. Becker, M., Ladha, J. K., Watanabe, I. &Ottow, J. C. G. (1988). Seeding Vs Vegetative Propagations of the Stem-Nodulating Green Manure Sesbania-Rostrata. Biology and Fertility of Soils 6: 279-281. Beringer, J. E. (1974). R factor transfer in Rhizobium leguminosarum. J Gen Microbiol 84: 188-198. Bignell, C. &Thomas, C. M. (2001). The bacterial ParA-ParB partitioning proteins. J Biotechnol 91: 1-34. Bouet, J. Y. &Funnell, B. E. (1999). P1 ParA interacts with the P1 partition complex at parS and an ATP-ADP switch controls ParA activities. Embo Journal 18: 1415-1424. Bradford, M. M. (1976). A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal Biochem 72: 248-254. Capoen, W., Goormachtig, S. &Holsters, M. (2010). Water-tolerant legume nodulation. J Exp Bot 61: 1251-1255. Charpentier, M. &Oldroyd, G. (2010). How close are we to nitrogen-fixing cereals? Curr Opin Plant Biol 13: 556-564. Davey, M. J. &Funnell, B. E. (1994). The P1 plasmid partition protein ParA. A role for ATP in site-specific DNA binding. J Biol Chem 269(47): 29908-29913. Davey, M. J. &Funnell, B. E. (1997). Modulation of the P1 plasmid partition protein ParA by ATP, ADP, and P1 ParB. J Biol Chem 272: 15286-15292. Davis, M. A., Martin, K. A. &Austin, S. J. (1992). Biochemical activities of the parA partition protein of the P1 plasmid. Mol Microbiol 6: 1141-1147. Dreyfus, B., Garcia, J. L. &Gillis, M. (1988). Characterization of Azorhizobium Caulinodans Gen-Nov, Sp-Nov, a Stem-Nodulating Nitrogen-Fixing Bacterium Isolated from Sesbania Rostrata. International Journal of Systematic Bacteriology 38: 89-98. Dreyfus, B. L. &Dommergues, Y. R. (1981). Nitrogen-Fixing Nodules Induced by Rhizobium on the Stem of the Tropical Legume Sesbania Rostrata. Fems Microbiology Letters 10: 313-317. Ebersbach, G. &Gerdes, K. (2005). Plasmid segregation mechanisms. Annu Rev Genet 39: 453-479. Figge, R. M., Easter, J. &Gober, J. W. (2003). Productive interaction between the chromosome partitioning proteins, ParA and ParB, is required for the progression of the cell cycle in Caulobacter crescentus. Mol Microbiol 47: 1225-1237. Fisher, D. K. &Higgins, T. J. (1994). A sensitive, high-volume, colorimetric assay for protein phosphatases. Pharm Res 11: 759-763. Fung, E., Bouet, J. Y. &Funnell, B. E. (2001). Probing the ATP-binding site of P1 ParA: partition and repression have different requirements for ATP binding and hydrolysis. EMBO J 20: 4901-4911. Gerdes, K., Moller-Jensen, J. &Bugge Jensen, R. (2000). Plasmid and chromosome partitioning: surprises from phylogeny. Mol Microbiol 37: 455-466. Gibson, K. E., Kobayashi, H. &Walker, G. C. (2008). Molecular Determinants of a Symbiotic Chronic Infection. Annual Review of Genetics 42: 413-441. Glazebrook, J., Ichige, A. &Walker, G. C. (1993). A Rhizobium meliloti homolog of the Escherichia coli peptide-antibiotic transport protein SbmA is essential for bacteroid development. Genes Dev 7: 1485-1497. Goormachtig, S., Capoen, W. &Holsters, M. (2004a). Rhizobium infection: lessons from the versatile nodulation behaviour of water-tolerant legumes. Trends Plant Sci 9: 518-522. Goormachtig, S., Capoen, W., James, E. K. &Holsters, M. (2004b). Switch from intracellular to intercellular invasion during water stress-tolerant legume nodulation. Proc Natl Acad Sci U S A 101: 6303-6308. Gordon, G. S. &Wright, A. (2000). DNA segregation in bacteria. Annu Rev Microbiol 54: 681-708. Hames, B. D. &Rickwood, D. (1990). Gel Electrophoresis of Proteins: A Practical Approach 2nd Edition. Oxford University Press. Hester, C. M. &Lutkenhaus, J. (2007). Soj (ParA) DNA binding is mediated by conserved arginines and is essential for plasmid segregation. Proc Natl Acad Sci U S A 104: 20326-20331. Hiraga, S. (1992). Chromosome and Plasmid Partition in Escherichia-Coli. Annual Review of Biochemistry 61: 283-306. Ichige, A. &Walker, G. C. (1997). Genetic analysis of the Rhizobium meliloti bacA gene: functional interchangeability with the Escherichia coli sbmA gene and phenotypes of mutants. J Bacteriol 179: 209-216. Ireton, K., Gunther, N. W. &Grossman, A. D. (1994). Spo0j is required for normal chromosome segregation as well as the initiation of sporulation in Bacillus Subtilis. Journal of Bacteriology 176: 5320-5329. Karunakaran, R., Haag, A. F., East, A. K., Ramachandran, V. K., Prell, J., James, E. K., Scocchi, M., Ferguson, G. P. &Poole, P. S. (2010). BacA is essential for bacteroid development in nodules of galegoid, but not phaseoloid, legumes. J Bacteriol 192: 2920-2928. Koonin, E. V. (1993). A superfamily of ATPases with diverse functions containing either classical or deviant ATP-binding motif. J Mol Biol 229: 1165–1174. Krusell, L., Krause, K., Ott, T., Desbrosses, G., Kramer, U., Sato, S., Nakamura, Y., Tabata, S., James, E. K., Sandal, N., Stougaard, J., Kawaguchi, M., Miyamoto, A., Suganuma, N. &Udvardi, M. K. (2005). The sulfate transporter SST1 is crucial for symbiotic nitrogen fixation in Lotus japonicus root nodules. Plant Cell 17: 1625-1636. Lee, K. B., De Backer, P., Aono, T., Liu, C. T., Suzuki, S., Suzuki, T., Kaneko, T., Yamada, M., Tabata, S., Kupfer, D. M., Najar, F. Z., Wiley, G. B., Roe, B., Binnewies, T. T., Ussery, D. W., D'Haeze, W., Herder, J. D., Gevers, D., Vereecke, D., Holsters, M. &Oyaizu, H. (2008). The genome of the versatile nitrogen fixer Azorhizobium caulinodans ORS571. BMC Genomics 9: 271. Lee, M. J., Liu, C. H., Wang, S. Y., Huang, C. T. &Huang, H. (2006). Characterization of the Soj/Spo0J chromosome segregation proteins and identification of putative parS sequences in Helicobacter pylori. Biochem Biophys Res Commun 342: 744-750. Leonard, T. A., Butler, P. J. &Lowe, J. (2005a). Bacterial chromosome segregation: structure and DNA binding of the Soj dimer-a conserved biological switch. EMBO J 24: 270-282. Leonard, T. A., Moller-Jensen, J. &Lowe, J. (2005b). Towards understanding the molecular basis of bacterial DNA segregation. Philosophical Transactions of the Royal Society B-Biological Sciences 360: 523-535. Lin, D. C. &Grossman, A. D. (1998). Identification and characterization of a bacterial chromosome partitioning site. Cell 92: 675-685. Liu, C. T., Lee, K. B., Wang, Y. S., Peng, M. H., Lee, K. T., Suzuki, S., Suzuki, T. &Oyaizu, H. (2011). Involvement of the Azorhizobial Chromosome Partition Gene (parA) in the Onset of Bacteroid Differentiation during Sesbania rostrata Stem Nodule Development. Appl Environ Microbiol 77: 4371-4382. Marlow, V. L., Haag, A. F., Kobayashi, H., Fletcher, V., Scocchi, M., Walker, G. C. &Ferguson, G. P. (2009). Essential role for the BacA protein in the uptake of a truncated eukaryotic peptide in Sinorhizobium meliloti. J Bacteriol 191: 1519-1527. Masson-Boivin, C., Giraud, E., Perret, X. &Batut, J. (2009). Establishing nitrogen-fixing symbiosis with legumes: how many rhizobium recipes? Trends Microbiol 17: 458-466. Maunoury, N., Redondo-Nieto, M., Bourcy, M., Van de Velde, W., Alunni, B., Laporte, P., Durand, P., Agier, N., Marisa, L., Vaubert, D., Delacroix, H., Duc, G., Ratet, P., Aggerbeck, L., Kondorosi, E. &Mergaert, P. (2010). Differentiation of symbiotic cells and endosymbionts in Medicago truncatula nodulation are coupled to two transcriptome-switches. PLoS One 5: e9519. Mohl, D. A. &Gober, J. W. (1997). Cell cycle-dependent polar localization of chromosome partitioning proteins in Caulobacter crescentus. Cell 88: 675-684. Moller-Jensen, J., Jensen, R. B. &Gerdes, K. (2000). Plasmid and chromosome segregation in prokaryotes. Trends Microbiol 8(7): 313-320. Mori, H., Mori, Y., Ichinose, C., Niki, H., Ogura, T., Kato, A. &Hiraga, S. (1989). Purification and characterization of SopA and SopB proteins essential for F plasmid partitioning. J Biol Chem 264: 15535-15541. Murray, H., Ferreira, H. &Errington, J. (2006). The bacterial chromosome segregation protein Spo0J spreads along DNA from parS nucleation sites. Mol Microbiol 61: 1352-1361. Ndoye, I., Dreyfus, B. &Becker, M. (1996). Sesbania rostrata as green manure for lowland rice in Casamance (Senegal). Tropical Agriculture 73: 234-237. Ogura, T. &Hiraga, S. (1983). Partition mechanism of F plasmid: two plasmid gene-encoded products and a cis-acting region are involved in partition. Cell 32: 351-360. Ogura, Y., Ogasawara, N., Harry, E. J. &Moriya, S. (2003). Increasing the ratio of Soj to Spo0J promotes replication initiation in Bacillus subtilis. J Bacteriol 185: 6316-6324. Oke, V. &Long, S. R. (1999). Bacterial genes induced within the nodule during the Rhizobium-legume symbiosis. Mol Microbiol 32: 837-849. Oldroyd, G. E. &Downie, J. A. (2008). Coordinating nodule morphogenesis with rhizobial infection in legumes. Annu Rev Plant Biol 59: 519-546. Pratto, F., Cicek, A., Weihofen, W. A., Lurz, R., Saenger, W. &Alonso, J. C. (2008). Streptococcus pyogenes pSM19035 requires dynamic assembly of ATP-bound ParA and ParB on parS DNA during plasmid segregation. Nucleic Acids Research 36: 3676-3689. Pratto, F., Suzuki, Y., Takeyasu, K. &Alonso, J. C. (2009). Single-molecule analysis of proteinxDNA complexes formed during partition of newly replicated plasmid molecules in Streptococcus pyogenes. J Biol Chem 284: 30298-30306. Prell, J. &Poole, P. (2006). Metabolic changes of rhizobia in legume nodules. Trends Microbiol 14(4): 161-168. Ptacin, J. L., Lee, S. F., Garner, E. C., Toro, E., Eckart, M., Comolli, L. R., Moerner, W. E. &Shapiro, L. (2010). A spindle-like apparatus guides bacterial chromosome segregation. Nat Cell Biol 12: 791-798. Quisel, J. D. &Grossman, A. D. (2000). Control of sporulation gene expression in Bacillus subtilis by the chromosome partitioning proteins Soj (ParA) and Spo0J (ParB). J Bacteriol 182: 3446-3451. Quisel, J. D., Lin, D. C. &Grossman, A. D. (1999). Control of development by altered localization of a transcription factor in B. subtilis. Mol Cell 4: 665-672. Rodionov, O., Lobocka, M. &Yarmolinsky, M. (1999). Silencing of genes flanking the P1 plasmid centromere. Science 283: 546-549. Sambrook &Russell (2001). Molecular Cloning: A Laboratory Manual. Cold Spring Harbor Laboratory Press. Scholefield, G., Whiting, R., Errington, J. &Murray, H. (2011). Spo0J regulates the oligomeric state of Soj to trigger its switch from an activator to an inhibitor of DNA replication initiation. Mol Microbiol 79: 1089-1100. Schumacher, M. A. (2008). Structural biology of plasmid partition: uncovering the molecular mechanisms of DNA segregation. Biochem J 412: 1-18. Shahjalal, M. &Topps, J. H. (2000). Feeding Sesbania leaves as a sole feed on growth and nutrient utilization in goats. Asian-Australasian Journal of Animal Sciences 13: 487-489. Shih, Y. L. &Rothfield, L. (2006). The bacterial cytoskeleton. Microbiol Mol Biol Rev 70: 729-754. Soberon, N. E., Lioy, V. S., Pratto, F., Volante, A. &Alonso, J. C. (2011). Molecular anatomy of the Streptococcus pyogenes pSM19035 partition and segrosome complexes. Nucleic Acids Research 39: 2624-2637. Suzuki, S., Aono, T., Lee, K. B., Suzuki, T., Liu, C. T., Miwa, H., Wakao, S., Iki, T. &Oyaizu, H. (2007). Rhizobial factors required for stem nodule maturation and maintenance in Sesbania rostrata-Azorhizobium caulinodans ORS571 symbiosis. Appl Environ Microbiol 73: 6650-6659. Tan, X. J., Cheng, Y., Li, Y. X., Li, Y. G. &Zhou, J. C. (2009). BacA is indispensable for successful Mesorhizobium-Astragalus symbiosis. Appl Microbiol Biotechnol 84: 519-526. Theophilus, B. D. &Thomas, C. M. (1987). Nucleotide sequence of the transcriptional repressor gene korB which plays a key role in regulation of the copy number of broad host range plasmid RK2. Nucleic Acids Research 15: 7443-7450. Towbin H, Staehelin T &J, G. (1979). Electrophoretic transfer of proteins from polyacrylamide gels to nitrocellulose sheets: procedure and some applications. Proceedings of the National Academy of Sciences USA 76: 4350–4354. Wikipedia (2011).Root nodule. Yamaichi, Y. &Niki, H. (2000). Active segregation by the Bacillus subtilis partitioning system in Escherichia coli. Proc Natl Acad Sci U S A 97: 14656-14661. | |
| dc.identifier.uri | http://tdr.lib.ntu.edu.tw/jspui/handle/123456789/48641 | - |
| dc.description.abstract | 根瘤菌會與豆科植物共生形成根瘤， 而整個結瘤過程牽涉到植物與微生物間複雜的訊息交換。初期的根瘤形成與後期表達固氮作用的訊息傳導因子已經被陸續發現。相較於此，中期的根瘤成熟階段，也就是根瘤菌在植物細胞內經由分化作用形成類菌體（bacteroid）到表達共生固氮前所牽涉的分子訊息傳達機制，至今依然不明。我們先前的研究發現，Azorhizobium caulinodans ORS571 根瘤菌的染色體分配系統（ParA 與 ParB 蛋白）除了參與染色體分配以外，也在類菌體分化過程中扮演著負調控者的角色。本研究利用 Azorhizobium 根瘤菌的 ParA 與 ParB 重組蛋白探討染色體分配系統與類菌體形成關連基因間的交互作用。 ParA 蛋白屬於 Walker type ATPase，當添加 ParB 時會促進 ParA 的ATP 水解活性。ParB 蛋白因具有 H-T-H DNA binding domain，可與 centromere-like 的 parS 基因結合，而添加 ParA 會增進上述結合能力。在 in vitro co-immunoprecipitation 實驗發現， ParA 與 ParB 彼此間有交互作用。 根據 EMSA (Electrophoretic mobility shift assay) 分析的結果， ParB 不僅會和一個與類菌體形成有直接關連的基因 (bacA) 結合，也會與 par 操作組的啟動子結合。此外，本研究也發現 ParA/ ParB 的莫耳數比例會影響
ParB 對於 bacA 基因的結合能力。綜合本研究與先前研究的結果推論，A. caulinodans 根瘤菌的類菌體分化調控，是透過 ParA 與 ParB 之間的交互作用，進而影響類菌體形成相關基因的轉錄活性。 | zh_TW |
| dc.description.abstract | The nodulation process of legume-rhizobium symbiosis is highly complex, involving a succession of interactions between the host plants and the microsymbionts. However, little is known about the molecular basis of events in nodule maturation process, i.e. after the bacteria are released from infection threads into the nodules and differentiating into bacteroid before nitrogen fixation begins. Our precious experimental evidence has demonstrated that the azorhizobial chromosome partition system (ParABS) not only played crucial roles in the partitioning of chromosome, but also negatively regulated the bacteroid formation process in nodulation. In this study, the functions of the azorhizobial recombinant ParA and ParB proteins, and the interactions between the par system and bacteroid differentiation related genes have been analyzed. ParA have been regarded as a Walker-type ATPase, and its ATP hydrolysis activity was enhanced in the presence of ParB protein. The ParB contains a helix-turn-helix (HTH) motif which is responsible for interaction with DNA. In the electrophoretic mobility shift assay (EMSA), ParB bound to a centromere-like parS DNA fragment of A. caulinodans, and this binding was stimulated by the increasing amounts of ParA protein. Interactions between ParA and ParB were confirmed by in vitro immunoprecipitation assay. In the electrophoretic mobility shift assay (EMSA), a bacteroid differentiation associative gene (bacA) or the promoter region of par operon was allowed to bind the ParB protein. and the ratio of ParB to ParA seems to be the key factor to regulate this binding. A mechanism for regulation of bacteroid differentiation of A. caulinodans was proposed. Interactions between azorhizobial ParA and ParB proteins may function as a checkpoint, which couples the chromosome partitioning to the onset of bacteroid formation. | en |
| dc.description.provenance | Made available in DSpace on 2021-06-15T07:06:05Z (GMT). No. of bitstreams: 1 ntu-100-R98b47108-1.pdf: 9248749 bytes, checksum: a9fc95efbad99acade700c6e36392c1e (MD5) Previous issue date: 2011 | en |
| dc.description.tableofcontents | Contents
中文摘要............................................................................. I Abstract ............................................................................ III Chapter 1 Introduction ..................................................... 1 1.1 A. caulinodans ORS571-S. rostrata symbiotic system .......................... 2 1.2 Development of S. rostrata stem-nodule ................................................ 3 1.3 Bacterial chromosome partitioning ....................................................... 8 1.4 ParA / ParB orthologs in B. subtilis ..................................................... 12 1.5 Research background ............................................................................ 13 Chapter 2 Materials and methods .................................. 16 2.1 Bacteria strain and culture condition .................................................. 16 2.2 Genomic DNA extraction ...................................................................... 18 2.3 Construction of expression plasmids ................................................... 19 2.4 Transformation ...................................................................................... 25 2.5 Protein expression ................................................................................. 28 2.6 Bacteria lysis .......................................................................................... 29 2.7 Protein purification ............................................................................... 30 2.8 Protein quantitation by Bradford method .......................................... 32 2.9 Sodium dodecyl sulfate polyacrylamide gel electrophoresis(SDS-PAGE) ........................................................................................... 33 2.10 Western blotting .................................................................................... 36 2.11 Malachite green ATPase activity assay ................................................ 39 2.12 Electrophoretic mobility shift assay (EMSA) ..................................... 41 2.13 Co-immunoprecipitation (Co-IP) assay............................................... 46 Chapter 3 Results and Discussion ................................. 49 3.1 Putative chromosome partition genes (parA and parB) of A. caulinodans ORS571 ............................................................................. 49 3.2 Cloning, protein expression and purification ..................................... 53 3.3 Antibody detection of A. caulinodans ParA and ParB ....................... 60 3.4 ATPase activity of ParA ........................................................................ 63 3.5 DNA binding ability of ParB to parS ................................................... 66 3.6 in vitro co-immunoprecipitation of ParA and ParB ........................... 69 3.7 ParA: ParB ratio is important for binding of ParB with bacA ......... 71 3.8 ParA: ParB ratio is important for ParB binding with promoter region of par operon .............................................................................. 75 3.9 Conclusions ............................................................................................ 78 References ........................................................................ 80 Appendix I ....................................................................... 86 | |
| dc.language.iso | en | |
| dc.subject | 染色體分配蛋白 | zh_TW |
| dc.subject | 類菌體分化 | zh_TW |
| dc.subject | Azorhizobium caulinodans ORS571根瘤菌 | zh_TW |
| dc.subject | Azorhizobium caulinodans ORS571 | en |
| dc.subject | Bacteroid differentiation | en |
| dc.subject | ParB | en |
| dc.subject | ParA | en |
| dc.title | 根瘤菌 Azorhizobium caulinodans ORS571的染色體分配蛋白質ParA 與 ParB之功能探討 | zh_TW |
| dc.title | Functional characterization of the ParA and ParB chromosome partition proteins in Azorhizobium calinodans ORS571 | en |
| dc.type | Thesis | |
| dc.date.schoolyear | 99-2 | |
| dc.description.degree | 碩士 | |
| dc.contributor.coadvisor | 李昆達(Kung-Ta Lee) | |
| dc.contributor.oralexamcommittee | 劉?睿(Je-Ruei Liu),劉俊民(Chung-Ming Liou),許元勳(Yuan-Hsun Hsu) | |
| dc.subject.keyword | 類菌體分化,Azorhizobium caulinodans ORS571根瘤菌,染色體分配蛋白, | zh_TW |
| dc.subject.keyword | Bacteroid differentiation,Azorhizobium caulinodans ORS571,ParA,ParB, | en |
| dc.relation.page | 98 | |
| dc.rights.note | 有償授權 | |
| dc.date.accepted | 2011-08-19 | |
| dc.contributor.author-college | 生命科學院 | zh_TW |
| dc.contributor.author-dept | 生化科技學系 | zh_TW |
| 顯示於系所單位： | 生化科技學系 | |
文件中的檔案：
| 檔案 | 大小 | 格式 | |
|---|---|---|---|
| ntu-100-1.pdf 未授權公開取用 | 9.03 MB | Adobe PDF |
系統中的文件，除了特別指名其著作權條款之外，均受到著作權保護，並且保留所有的權利。