苔麩（Eragrostis tef）是埃塞俄比亞種植最廣泛的谷類(lèi)作物之一,具有重要農(nóng)業(yè)價(jià)值,同時(shí)也是一種在全球廣受歡迎的健康食品。埃塞俄比亞生物多樣性研究中心基因庫(kù)中已保存了從不同的農(nóng)業(yè)生態(tài)區(qū)域中收集的大量苔麩種質(zhì)資源,然而,目前對(duì)這些種質(zhì)資源的基礎(chǔ)生物學(xué)研究十分有限,其遺傳變異水平及地理分布模式、農(nóng)藝性狀的遺傳學(xué)基礎(chǔ)等仍不十分清楚。全基因組關(guān)聯(lián)研究和開(kāi)發(fā)高分辨率的分子標(biāo)記對(duì)于Eragrostis tef的居群遺傳學(xué)研究及分子育種等至關(guān)重要。本研究對(duì)來(lái)源于埃塞俄比亞生物多樣性研究中心基因庫(kù)中保存的苔麩種質(zhì)資源進(jìn)行了農(nóng)藝性狀表型的統(tǒng)計(jì)分析;基于葉綠體基因組測(cè)序開(kāi)發(fā)了分子遺傳標(biāo)記并進(jìn)行了代表種質(zhì)資源的遺傳變異及其地理分布模式分析;基于基因組重測(cè)序進(jìn)行了樣本的親緣關(guān)系及重要農(nóng)藝性狀全基因組關(guān)聯(lián)分析。相關(guān)的研究結(jié)果如下:（1）對(duì)32個(gè)E.tef樣品進(jìn)行了葉綠體全基因組測(cè)序及組裝,結(jié)果顯示,其葉綠體基因組的大小從134,349-134,437 bp,GC含量約38.3%�；蚪M注釋得到112個(gè)基因,其中包括77個(gè)蛋白質(zhì)編碼,31個(gè)tRNA和4個(gè)rRNA基因。葉綠體基因組比較分析表明,其種內(nèi)序列變... 

【文章來(lái)源】：中國(guó)科學(xué)院大學(xué)(中國(guó)科學(xué)院武漢植物園)湖北省

【文章頁(yè)數(shù)】：130 頁(yè)

【學(xué)位級(jí)別】：博士

【文章目錄】：
摘要
abstract
Chapter 1 Introduction and literature review
    1.1 Origin and taxonomy of tef
    1.2 Genetic diversity study and marker development in E.tef
    1.3 Phylogenetic studies in E.tef
    1.4 Association study and QTL mapping in E.tef
    1.5 Genome-wide association and its success story in crops
    1.6 Justification
    1.7 Research question
    1.8 Aim of the study
Chapter 2 Comparative analyses of32 complete plastomes of Tef
    2.1 Introduction
    2.2 Material and methods
        2.2.1 Plant sampling and DNA extraction
        2.2.2 Plastomes sequencing,assembly and annotation
        2.2.3 Screening variable regions and intraspecific comparison
        2.2.4 Phylogenetic analysis
        2.2.5 Analyses of signatures of selection
    2.3 Results
        2.3.1 Feature of sequenced E.tef plastomes
        2.3.2 Simple sequence repeats
        2.3.3 SNPs and InDels polymorphism among E.tef accessions
        2.3.4 IR region expansion and contraction
        2.3.5 Phylogenetic analysis
        2.3.6 Selection pressure
    2.4 Discussion
        2.4.1 Plastome variations in E.tef
        2.4.2 Phylogenetic analysis
    2.5 Conclusions
Chapter 3 Agro-morphological characterization and association analysis of major traits in tef[Eragrostis tef(Zucc.)Trotter]accessions
    3.1 Introduction
    3.2 Materials and methods
        3.2.1 Germplasm selection
        3.2.2 Field experiment
        3.2.3 Phenotype data analysis
    3.3 Results
        3.3.1 Cluster analysis
        3.3.2 Correlation of trait
        3.3.3 Principal component analysis(PCA)
    3.4 Discussion
    3.5 Conclusion
Chapter 4 Genome-Wide Association Study of Major Agro-morphology Traits of E.tef
    4.1 Introduction
    4.2 Material and methods
        4.2.1 GWAS Germplasm panel selection
        4.2.2 Whole-genome resequencing
        4.2.3 Variant calling
        4.2.4 GWAS analysis
    4.3 Results
        4.3.1 Whole-genome resequencing
        4.3.2 SNPs Distribution along E.tef Chromosome
        4.3.3 Genetic diversity and differentiation analysis
        4.3.4 Analysis of transitions bias
        4.3.5 Annotation of variants
        4.3.7 Genetic structure and phylogenetic analysis of accessions
        4.3.8 Genome-Wide Association Study(GWAS)
    4.4 Discussion
        4.4.1 SNPs and InDels
        4.4.2 Population structure and genetic variation assessment of E.tef
        4.4.3 GWAS
    4.5 Conclusion
Chapter 5 Conclusion
Chapter 6 References
Appendices
Acknowledgement
Student Profile and publications



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