阿維菌素和噻蟲嗪兩種農(nóng)藥對(duì)水稻轉(zhuǎn)錄組的影響
發(fā)布時(shí)間：2021-06-17 04:28
農(nóng)業(yè)害蟲（Insect Pests,IPs）是制約作物增產(chǎn)的重要因子之一。作物保護(hù)旨在防止和避免農(nóng)業(yè)害蟲造成的損失。長(zhǎng)期以來,育種家和植�？茖W(xué)家一直奮斗于尋求更好的方法應(yīng)對(duì)農(nóng)業(yè)害蟲危害,并創(chuàng)制了大量技術(shù)、方法,各種技術(shù)均對(duì)病蟲害防治有著重要貢獻(xiàn),但不同技術(shù)也同時(shí)伴隨著各種局限。目前,農(nóng)藥是控制農(nóng)業(yè)害蟲危害最有效和最簡(jiǎn)單的方法。殺蟲劑在高效控制農(nóng)業(yè)害蟲的同時(shí),通常伴隨著嚴(yán)重環(huán)境污染和生態(tài)破壞。目前,雖然已有大量工作報(bào)道殺蟲劑對(duì)植物和動(dòng)物的直接危害,但是其是否直接影響植物生理、代謝過程鮮有研究。在本研究中,我們?cè)跔I養(yǎng)階段給水稻噴了 2次種不同類型商業(yè)殺蟲劑阿維菌素（Abamectin,ABM）和噻蟲嗪（Thiamethoxam,TXM）。隨后,利用高通量測(cè)序技術(shù)對(duì)各樣本基因表達(dá)水平進(jìn)行檢測(cè)。在ABM處理下,共鑒定到470個(gè)基因發(fā)生差異表達(dá)（DEG）,GO富集分析發(fā)現(xiàn)這些基因主要參與多個(gè)重要生物學(xué)過程,包括環(huán)境應(yīng)激響應(yīng)、信號(hào)傳遞和蛋白代謝等。與ABM相比,TXM對(duì)植物內(nèi)源性代謝過程的影響略大。在TXM處理的水稻中,我們檢測(cè)到670個(gè)DEGs。其中,504個(gè)基因?yàn)門XM特異誘導(dǎo)差異表達(dá)基因,這...
【文章來源】：浙江大學(xué)浙江省 211工程院校 985工程院校 教育部直屬院校
【文章頁數(shù)】：137 頁
【學(xué)位級(jí)別】：博士
【文章目錄】：
Acknowledgement
DEDICATED
List of Abbreviations
Abstract
中文摘要
Chapter 1 General Introduction
1.1 Crop production is at risk
1.2 Next generation techniques and GMOs
1.3 Insect Pest Management
1.4 Chemical control methods of IPs
1.5 Significance of rice
1.6 RNA-seq as a DEGs measuring tool
1.7 Objectives of the study
Chapter 2 Literature review
2.1 Importance of rice as a monocot
2.2 Factors affecting rice production
2.3 Effects of crop protection on yield level
2.4 Strategies of IPs control
2.5 Methods of pest control
2.5.1 Biological control
2.5.2 Mechanical control
2.5.3 Cultural methods of IPs control
2.5.4 Microbial control:
2.5.5 Transgenic control method of IPs
2.6 Pests and diseases of Rice
2.7 Insects
2.8 Nematode
2.9 Diseases
2.10 Integrated pest management (IPM)in rice
2.10.1 Plants resistance to IPs
2.11 R-genes
2.12 Pesticides use
2.12.1 Chemical control methods
2.12.2 Thiamethoxam (TXM) (C_8H_(10)CIN_5O_3S)
2.13 Cons and Pros of Chemical control method:
2.14 Auxin
2.14.1 Regulatory roles of auxin
2.15 Salicylic acid
2.15.1 Regulatory roles of SA in plants
2.16 Regulation of gene expression
2.16.1 Transcriptional regulation
2.16.2 Regulation at post-transcription
2.17 Alternative splicing
2.17.1 Mechanism of splicing and AS regulatory elements
2.17.2 Significance
2.18 Long non-coding RNAs (IncRNAs)
2.18.1 LncRNAS mediated gene expression
2.18.2 Saturation
2.19 Transposable elements
2.19.1 Classification of TEs
Chapter 3 Identification of DEGs and DE AS
3.1 Materials and Methods
3.1.1 Plant materials
3.1.2 RNA extraction and Illumina sequencing
3.1.3 Analysis of RNA-seq data
3.1.4 Differential gene expression analysis
3.1.5 AS events and gene detection
3.1.6 Differential AS gene detection and AS function
3.1.7 Synthesis of cDNA and validation of DEGs by RT-qPCR
3.2 Results
3.2.0 Identification of DEGs under ABM treated rice
3.2.1 An overview of ABM-induced DEGs through MapMan analysis
3.2.2 Identification of DEGs under TXM applied rice
3.2.2.1 An overview of TXM-induced DEGs through MapMan analysis
3.2.3 Identification and characterization of the Co-expressed DEGs by two pesticides
3.2.4 Identification of FT genes in RNA-seq data set
3.2.4.1 Expression patterns of FT genes in RNA-seq data
3.2.5 Identification of alternative splicing (AS) events in pesticides applied rice
Chapter 4 Characterization of DELs and DE TEs
4.1 Materials and Methods
4.1.1 Plant materials
4.1.2 RNA extraction and Illumina sequencing
4.1.3 LncRNA conservation analysis
4.1.4 Detection of differentially expressed IncRNAs
4.1.5 Prediction of miRNA,IncRNA and coding genes network
4.1.6 Differentially expressed Transposable elements
4.2 Results
4.2.1 Characterization of IncRNAs in rice under pesticides treatments
4.2.2 Transposable elements (TEs) are involved in the alteration of GE in the locale
Chapter 5 Discussion
5.1 Alternative splicing as a source of GE in pesticides treated rice
5.2 Differentially expressed IncRNAs (DELs) are the means to regulate gene expression
5.3 Transposons might be involved in gene expression regulation
Chapter 6 Conclusion
Chapter 7 Future perspectives
References
Appendix
List of publications
本文編號(hào)：3234470
【文章來源】：浙江大學(xué)浙江省 211工程院校 985工程院校 教育部直屬院校
【文章頁數(shù)】：137 頁
【學(xué)位級(jí)別】：博士
【文章目錄】：
Acknowledgement
DEDICATED
List of Abbreviations
Abstract
中文摘要
Chapter 1 General Introduction
1.1 Crop production is at risk
1.2 Next generation techniques and GMOs
1.3 Insect Pest Management
1.4 Chemical control methods of IPs
1.5 Significance of rice
1.6 RNA-seq as a DEGs measuring tool
1.7 Objectives of the study
Chapter 2 Literature review
2.1 Importance of rice as a monocot
2.2 Factors affecting rice production
2.3 Effects of crop protection on yield level
2.4 Strategies of IPs control
2.5 Methods of pest control
2.5.1 Biological control
2.5.2 Mechanical control
2.5.3 Cultural methods of IPs control
2.5.4 Microbial control:
2.5.5 Transgenic control method of IPs
2.6 Pests and diseases of Rice
2.7 Insects
2.8 Nematode
2.9 Diseases
2.10 Integrated pest management (IPM)in rice
2.10.1 Plants resistance to IPs
2.11 R-genes
2.12 Pesticides use
2.12.1 Chemical control methods
2.12.2 Thiamethoxam (TXM) (C_8H_(10)CIN_5O_3S)
2.13 Cons and Pros of Chemical control method:
2.14 Auxin
2.14.1 Regulatory roles of auxin
2.15 Salicylic acid
2.15.1 Regulatory roles of SA in plants
2.16 Regulation of gene expression
2.16.1 Transcriptional regulation
2.16.2 Regulation at post-transcription
2.17 Alternative splicing
2.17.1 Mechanism of splicing and AS regulatory elements
2.17.2 Significance
2.18 Long non-coding RNAs (IncRNAs)
2.18.1 LncRNAS mediated gene expression
2.18.2 Saturation
2.19 Transposable elements
2.19.1 Classification of TEs
Chapter 3 Identification of DEGs and DE AS
3.1 Materials and Methods
3.1.1 Plant materials
3.1.2 RNA extraction and Illumina sequencing
3.1.3 Analysis of RNA-seq data
3.1.4 Differential gene expression analysis
3.1.5 AS events and gene detection
3.1.6 Differential AS gene detection and AS function
3.1.7 Synthesis of cDNA and validation of DEGs by RT-qPCR
3.2 Results
3.2.0 Identification of DEGs under ABM treated rice
3.2.1 An overview of ABM-induced DEGs through MapMan analysis
3.2.2 Identification of DEGs under TXM applied rice
3.2.2.1 An overview of TXM-induced DEGs through MapMan analysis
3.2.3 Identification and characterization of the Co-expressed DEGs by two pesticides
3.2.4 Identification of FT genes in RNA-seq data set
3.2.4.1 Expression patterns of FT genes in RNA-seq data
3.2.5 Identification of alternative splicing (AS) events in pesticides applied rice
Chapter 4 Characterization of DELs and DE TEs
4.1 Materials and Methods
4.1.1 Plant materials
4.1.2 RNA extraction and Illumina sequencing
4.1.3 LncRNA conservation analysis
4.1.4 Detection of differentially expressed IncRNAs
4.1.5 Prediction of miRNA,IncRNA and coding genes network
4.1.6 Differentially expressed Transposable elements
4.2 Results
4.2.1 Characterization of IncRNAs in rice under pesticides treatments
4.2.2 Transposable elements (TEs) are involved in the alteration of GE in the locale
Chapter 5 Discussion
5.1 Alternative splicing as a source of GE in pesticides treated rice
5.2 Differentially expressed IncRNAs (DELs) are the means to regulate gene expression
5.3 Transposons might be involved in gene expression regulation
Chapter 6 Conclusion
Chapter 7 Future perspectives
References
Appendix
List of publications
本文編號(hào)：3234470
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