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研究生: 米瑞緹
Meethonganantamas Jiratorn
論文名稱: 調控植物缺磷逆境下膜脂質重塑之轉錄因子的功能性分析
Identification of Transcription Factors Regulating Phosphate Starvation Responses focusing on Membrane Lipid Remodeling in Plants
指導教授: 葉顓銘
Yeh, Chuan-Ming
蔡文杰
Tsai, Wen-Chieh
學位類別: 碩士
Master
系所名稱: 生物科學與科技學院 - 熱帶植物與微生物科學研究所
Institute of Tropical Plant Sciences and Microbiology
論文出版年: 2022
畢業學年度: 110
語文別: 英文
論文頁數: 78
中文關鍵詞: 轉錄因子植物缺磷胁迫下拟南芥水稻膜質重塑之
外文關鍵詞: Transcription factors, Phosphate starvation in plants, Arabidopsis, Rice, Membrane lipid remodeling
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  • Phosphate (Pi) is an essential macronutrient for plant and its availability is a major factor limiting plant development and productivity. Plant responds to low availability of Pi by networks of developmental and metabolic adaptation which then sustain plant growth and survival. One of the plants responding mechanisms to low external Pi is to alter phospholipids of cell membrane and release Pi as an internal Pi source. Many studies revealed that hundreds of genes are either induced or repressed as plant is responding to Pi starvation, some of which include the genes involved in membrane lipid remodeling. But the molecular mechanism that regulates these genes expression during phosphate starvation remains poorly understood. This study aims to identify transcription factors (TFs) which are involved in membrane lipid remodeling in response to Pi starvation. Yeast one-hybrid (Y1H) screening was performed with the promoter of genes involved in membrane lipid remodeling using Arabidopsis transcription factor-only cDNA library. We isolated 13 transcription factors that interact with the promoter of NON-SPECIFIC PHOSPHOLIPASE C4 (NPC4), and six of them also appeared to interact with SULFOQUINOVOSYLDIACYLGLYCEROL 2 (SQD2) promoter. The 13 TFs were individually investigated using bioinformatics tools and gene expression analysis, resulting in a NAC family TF, NAC038, the most promising candidates out of the 13 TFs, being preferentially studied further. Furthermore, both NAC038 and the TF which is evolutionary closely related to NAC038, NAC058, were up-regulated under Pi-deficiency in both Arabidopsis and rice, and were also found co-expressing with NPC4. Later, luciferase reporter assay will be utilized to confirm the interaction of the TFs to the NPC4 promoter in Arabidopsis. To ascertain these chosen TFs regulatory function over downstream genes, gene expression is being analyzed in the nac038 and nac058 mutants, overexpression and CRES-T (Chimeric REpressor gene Silencing Technology) transgenic lines. From NPC4 expression analysis using nac038 mutant and 35SNAC038:VP16 transgenic lines, NAC038 was suggested to be a negative regulator of NPC4 and work to suppress NPC4 especially under Pi deficiency.

    Contents Acknowledgement…………………………………………………………………………………...I Abstract……………………………………………………………………………………………...II Contents…………………………………………………………………………………………….IV Lists of Figures……………………………………………………………………………………....V Lists of Tables…………………………………………………………………………………….....V Lists of Supplementary Figures……………………………………………………………….........VI Lists of Supplementary Tables……………………………………………………………………...VI Lists of Supplementary data……………………………………………………………………..…VI Abbreviations...................................................................................................................................VII 1. Introduction 1.1 Phosphorus crisis…………………………………………………………………………….......1 1.2 Plant phosphate starvation responses………………………………………………………..…...2 1.3 Membrane lipid remodeling upon Pi starvation…………………………………………….....…4 1.4 High efficiency yeast one-hybrid screening………………………………………………….......6 1.5 Chimeric Repressor gene Silencing Technology (CRES-T) transgenic plants..............................7 2. Aim of study…………………………………………………………………………………..…...9 3. Materials and methods 3.1Plant materials and handling…………………………………………………………………….10 3.2 DNA extraction, purification and ligation……………………………………………………....11 3.3 Polymerase chain reaction (PCR)………………………………………………………………12 3.4 Bacteria strain and handling…………………………………………………………………….13 3.5 Cloning………………………………………………………………………………………….14 3.6 Yeast strain and handling……………………………………………………………………….14 3.7 Yeast one-hybrid (Y1H) screening……………………………………………………………...15 3.8 RNA extraction and reverse transcription………………………………………………………16 3.9 Real-time quantitative polymerase chain reaction (qRT-PCR)………………...……………….17 3.10 Phylogenetic tree construction…………………………………………………………….…..17 3.11 Gene expression analysis……………………………………………………………………...18 4. Results 4.1 Yeast one-hybrid screening for transcription factors interacting with NPC4 promoter……..…19 4.2 Arabidopsis NAC038 and NAC058 and their rice orthologs are up-regulated……………..….20 upon Pi starvation. 4.3 Expression analysis of NPC4 in the nac038 mutants and 35S:NAC038:VP16………………..23 transgenic plants for characterization of NAC038 4.4 Yeast one-hybrid screening for transcription factors interacting with MGD3 and..…………...24 SQD2 promoters 5. Discussion 5.1 TFs isolated from Y1H screening using NPC4 promoter as bait……………………………....26 5.2 NAC038 and NAC058 potentially affect membrane lipid remodeling upon Pi starvation……..27 5.3 TFs isolated from Y1H screening using MGD3 and SQD2 promoters as bait…………………29 5.4 The NPC4 promoter and SQD2 promoter were bound by 6 common TFs in yeast……… …...29 6. Conclusion and perspectives……………………………………………………………………..31 7. Reference………………………………………………………………………………………...33 Lists of Figures Figure 1. Promoters cloned for Y1H experiment……………………………………………...…...40 Figure 2. Phylogenetic tree of NAC proteins of Arabidopsis and rice………………………......…41 Figure 3. The level of expression of NPC4, NAC038 and NAC058……………………………......42 in developmental tissues of Arabidopsis Figure 4. The level of expression of NPC4, NAC038 and NAC058……………………………......43 in Arabidopsis under abiotic stresses Figure 5. Quantitative real-time PCR analysis of gene expressions of NPC4, NAC038…………...44 and NAC058 in Arabidopsis thaliana under Pi deficiency Figure 6. Quantitative real-time PCR analysis of gene expressions of NPC4, NAC038…………...45 and NAC058 in Oryza sativa under Pi deficiency Figure 7. NPC4 expression in Arabidopsis nac038 mutant and 35S:NAC038:VP16 lines…...……47 Lists of Tables Table 1. Y1H results using MGD3 promoter as bait………………………………………………..48 Table 2. Analysis of thirteen TFs isolated from Y1H screening…………………………………....50 using NPC4 promoter as bait Table 3. Y1H results using MGD3 promoter as bait………………………………………………..51 Table 4. Analysis of Forty-three TFs isolated from Y1H screening………………………………..55 using MGD3 promoter as bait Table 5. Y1H results using SQD2 promoter as bait………………………………………………...57 Table 6. Analysis of twenty-eight TFs isolated from Y1H screening………………..……………..60 using SQD2 promoter as bait Table 7. Six TFs interacting with both NPC4 and SQD2 promoters in Y1H screening……………62 Lists of Supplementary Figures Supplementary Figure 1. Diagram representing pathways of membrane lipid remodeling……......63 Supplementary Figure 2. 3-AT concentration test for Y1H screening………………………….......64 Supplementary Figure 3. Gene expression eFP Browser maps of Arabidopsis…………………….66 Supplementary Figure 4. Transcription factor binding motifs (TFBMs)…………………………...67 of NAC038 and NAC058 Lists of Supplementary Tables Supplementary Table 1. Lists of primers for cloning………………………………………...……..68 Supplementary Table 2. Lists of NAC proteins in phylogenetic trees……………………………...69 Supplementary Table 3. Lists of primers for qRT-PCR…………………………………………….70 Supplementary Table 4. T-DNA insertion mutants of Arabidopsis thaliana……………………….71 used in this work Supplementary Table 5. Primers for genotyping T-DNA insertion mutants………………………..71 Lists of Supplementary Data Supplementary Data 1. Sequence of NPC4 (AT3G03530) promoter for Y1H screening………….72 Supplementary Data 2. Sequence of MGD3 (AT2G11810) promoter for Y1H screening…………73 Supplementary Data 3. Sequence of SQD2 (AT5G01220) promoter for Y1H screening……….…74

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