摘要：microRNA 是一类长度在22nt 左右的非编码小RNA，通过转录后对靶基因的定向剪切，在植物的生长发育和抗病抗逆中都起到重要的调控作用。大豆作为一类重要的蛋白和油料资源，是一种重要的经济作物，因此，研究大豆microRNA对大豆生长发育及抗病抗逆机制研究具有重要意义。本研究收集各大数据库已报道的大量microRNA和降解组测序数据，以此为基础数据构建基于降解组验证的大豆microRNA调控网络数据库，对其基本表进行差、交、并的运算后，构建保守家族调控调控网络，具有组织特异性microRNA调控网络和家族互作网络，讨论和分析microRNA及其靶基因间相互关系的共性、在不同组织中的特性和其在大豆生长发育中作用。41909

毕业论文关键词：microRNA；大豆；降解组测序验证；调控网络；生物信息学；靶基因 

Construction and analysis of microRNA regulatory network database in soybean

Abstract： microRNAs, a group of 22 nt noncoding small RNAs, play an important role in plant growth and stress response by the cleavage of their target gene during the process of post-transportation. Soybean is considered as vital resource of protein and oil, so it is important to study the microRNA in soybean and the relations between them and their target genes. In this research, we make use of the existent sequencing data and annotation information of microRNAs from various databases to predict the potential cleavage relations. Then we verify these predicted interactions based on degradome libraries we in five different tissues we collected from NCBI. With the degradome-based MIR-TAR information, we construct microRNA regulatory networks and analyze the universal function and specific regulations in these tissues. With bioinformatics and abundant of annotations from various databases, such as miRBase, SoyFN, GENEVESTIGATOR, NCBI, we do the further study about the function of these target protein encoding genes and the pathway involved with microRNA in biological processes of soybean. This research is mainly completed online with abundant reported experiment and sequencing data from reported databases, we provide a new method to learn how to find valuable microRNAs with vital regulatory function in soybean.

Key words: microRNA；soybean；regulatory networks; degradome validation; bioinformatics; target genes

目  录

摘要1

关键词1

Abstract1

Key words1

引言1

1材料与方法4

1.1原始数据收集 4

1.2实验方法 4

1.2.1原始数据格式处理4

1.2.2大豆microRNA靶基因预测和降解组验 4

1.2.3大豆microRNA靶基因的调控网络建立和分析 4 

2结果与分析5

2.1大豆microRNA全局调控网络 5

2.2不同组织间microRNA及其调控关系分布 6

2．3不同microRNA家族的调控差异8

2.3.1保守大豆microRNA家族调控特点8

2.3.2特异大豆microRNA调控关系9

2．4大豆microRNA互作调控9

2.4.1家族内gma-microRNA互作9

2.4.2家族间gma-microRNA互作10 

3讨论与小结 11

3．1降解组验证方法优劣11

3．2基于网络分析发现microRNA组织特异性11

3．3大豆microRNA调控特点12

致谢12

参考文献12

附表1保守gma-microRNA家族基本信息表15

附表2 组织特异性gma-microRNA调控网络基本表 21

附表3  microRNA319和microRNA4996共调控网络基本表27

大豆microRNA调控网络数据库的构建与分析

随着测序技术和生物信息学分析的不断发展人们对大豆microRNA研究的也在不断丰富和完善，大量预测microRNA靶基因和microRNA序列注释信息的数据库出现，但大多对预测关系的真实性没有保证，本研究通过降解组验证的方法，在大豆中建立有可信的MIR-TAR调控关系数据库，提供直接可用的关系，并利用基础数据进行大豆全局MIR-TAR调控网络构建和分析，对大豆中microRNA的调控关系和方式进行讨论。