目录
摘要Ⅱ
关键词Ⅱ
AbstractⅢ
引言
引言
1 材料与方法1
1.1 二代测序数据1
1.2 miRNA靶基因获得1
1.3 降解组测序数据处理1
1.4 小RNA测序数据处理1
1.5 GO和KEGG富集分析1
2 结论与分析2
2.1水稻MTI图谱的构建2
2.2 组织保守的MTI4
2.3 MTI调节通路分析6
2.4 MiRNA表达和切割之间的关系7
3 讨论9
3.1 组织特异和组织保守的MTI的功能9
3.2复杂的MTIs10
3.3 miRNA表达、MTI切割、mRNA表达三者关系10
致谢12
参考文献13
附录A 数据来源16
图21 5种组织中的MTI2
图22 组织特异和保守的MTI网络图谱3
图23保守MTI分析5
图24 靶基因的生物学功能分析6
图25 miRNA的表达与切割水平的比较8
表21 组织特异MTI图谱信息4
表22 miR169家族成员序列信息6
基于降解组测序数据的水稻miRNA靶基因互作图谱构建
摘要
MicroRNAs (miRNAs)是一种在转录后水平调控基因表达的非编码小RNA。通常，研究学者们基于miRNA的表达水平来研究其功能，但是这种方法只考虑了miRNA的表达却没有考虑其切割的程度。本研究使用降解组测序数据来构建水稻miRNA靶基因互作关系(miRNAtarget interaction, MTI)图谱并且比较了miRNA表达水平和切割水平的关系。在水稻的5种组织中，我们一共检测到了2700对MTIs，其中包括144对根特异，332对种子特异，270对叶特异，152对穗特异，64对幼苗特异和92对保守的MTIs。借助Gene Ontology (GO)和 Kyoto Encyclopedia of Genes and Genom *51今日免费论文网|www.jxszl.com +Q: ￥351916072$ 
es (KEGG)功能分析，这些靶基因主要富集在碳利用、营养代谢和一些组织特异的功能上。此外，我们发现一些表达与切割不一致的miRNA，并且相比于组织间特异表达的miRNA数目，我们检测到更多组织间切割特异的miRNA。因此，应该将MTIs纳入miRNA功能研究分析中，相信miRNA靶基因互作图谱能够帮助我们更好的理解miRNA在植物生长发育中的作用。
关键字：miRNA;降解组;水稻;miRNA靶基因互作
A MICRORNATARGET INTERACTION LANDSCAPE MAP IN RICE
ABSTRACT
MicroRNAs (miRNAs) are small noncoding RNAs that play crucial roles in posttranscriptional regulation of gene expression. A miRNA is usually chosen for functional analysis based on its expression profiling. However, this strategy considers only the expression of miRNAs not their actual cleavage levels. We thus applied the degradome sequencing data to construct the global miRNAtarget interaction (MTI) map, and further compared whether the miRNA expression agree with miRNA cleavage level based on small RNA and degradome sequencing data. We detected 2700 MTI pairs in 5 rice tissues, of which 144 rootspecific, 332 seedspecific, 270 leafspecific, 152 paniclespecific, 64 seedlingspecific and 92 tissueconserved MTIs. With the Gene Ontology and Kyoto Encyclopedia of Genes and Genomes analysis, their targets were mainly enriched in carbon, nitrogen metabolism and some tissuespecific functions. Many miRNAs showed consistent performance in expression and cleavage, but we still found some miRNAs with lowexpression but highcleavage signatures, and ones with highexpression but low cleavage levels, suggesting the diverse MTI regulations in rice. Besides, the number of tissuespecific miRNAs detected from MTI level is far more than that from expression level. Thus, we should carefully consider the miRNA cleavage or MTI levels for the tissue or conditionspecific miRNAs and the MTI map may help to understand the biological impacts of miRNAs in plant growth and development.

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