李崇奇;周鹏;蔡望伟;

• 1:海南医学院生物化学与分子生物学教研室
• 2:海南大学农学院
• 3:中国热带农业科学院热带生物技术研究所分析测试中心

摘要(Abstract)：

[目的]识别桉树miRNA基因和寻找与桉树木质形成相关的miRNA,为进一步开展桉树遗传品质改良工作奠定理论基础。[方法]将mirBase数据库中所有植物的3 228条miRNA序列提交到psRobot网站进行茎环结构预测,应用blast-2.2.27+软件与rfam数据库和pfam数据库比对后去除非miRNA序列,并应用bioedit软件分析miRNA序列及前体序列的碱基组成特点。[结果]共计预测到26条miRNA前体序列和19条不同的成熟miRNA序列,并发现桉树miRNA序列在碱基偏倚现象,5’端第1碱基尿嘧啶出现的频率高达52.6%,而在第19碱基胞嘧啶出现频率为61.1%。靶基因预测发现3个与木质形成相关的miRNA。[结论]应用生物信息学方法首次在桉树中预测到了19条成熟miRNA序列,并识别到了3个与木质形成相关的miRNA。

关键词(KeyWords)： 桉树;miRNA;EST

Abstract:

Keywords:

基金项目(Foundation): 海南省研究生创新科研课题(Hyb2012-2)

作者(Author): 李崇奇;周鹏;蔡望伟;

Email:

DOI: 10.13989/j.cnki.0517-6611.2014.15.099

参考文献(References)：

• [1]陈少雄,陈小菲.我国桉树经营的技术问题与思考[J].桉树科技,2013,30(3):52-59.
• [2]时彧,罗杰.桉树对矿山环境的改善[J].安徽农业科学,2014,42(2):483-486.
• [3]LACOMBE E,HAWKINS S,VAN DOORSSELAERE J,et al.Cinnamoyl CoA reductase,the first committed enzyme of the lignin branch biosynthetic pathway:cloning,expression and phylogenetic relationships[J].Plant J,1997,11(3):429-441.
• [4]PAUX E,TAMASLOUKHT M,LADOUCE N S,et al.Identification of genes preferentially expressed during wood formation in Eucalyptus[J].Plant Mol Biol,2004,55(2):263-280.
• [5]RANIK M,MYBURG A A.Six new cellulose synthase genes from Eucalyptus are associated with primary and secondary cell wall biosynthesis[J].Tree Physiol,2006,26(5):545-556.
• [6]RENGEL D,SAN CLEMENTE H,SERVANT F,et al.A new genomic resource dedicated to wood formation in Eucalyptus[J].BMC Plant Biol,2009,27;9:36.
• [7]HENDRE P S,KAMALAKANNAN R,VARGHESE M.High-throughput and parallel SNP discovery in selected candidate genes in Eucalyptus camaldulensis using Illumina NGS platform[J].Plant Biotechnol J,2012,10(6):646-656.
• [8]MIZRACHI E,HEFER C A,RANIK M,et al.De novo assembled expressed gene catalog of a fast-growing Eucalyptus tree produced by Illumina mRNA-Seq[J].BMC Genomics,2010,11:681.
• [9]LEWIS B P,BURGE C B,BARTEL D P.Conserved seed pairing,often flanked by adenosines,indicates that thousands of human genes are microRNA targets[J].Cell,2005,120(1):15-20.
• [10]MILEV I,YAHUBYAN G,MINKOV I,et al.miRTour:Plant miRNA and target prediction tool[J].Bioinformation,2011,6(6):248-249.
• [11]WU H J,MA Y K,CHEN T,et al.PsRobot:a web-based plant small RNA meta-analysis toolbox[J].Nucleic Acids Research,2012,40(W1):22-28.
• [12]ZHANG B H,PAN X P,WANG Q L,et al.Identification and characterization of new plant microRNAs using EST analysis[J].Cell Res,2005,15(5):336-360.
• [13]ZHANG B,PAN X,CANNON C,et al.Conservation and divergence of plant microRNA genes[J].Plant J,2006,46(2):243-259.
• [14]潘玉欣,刘恒蔚.花生miRNA与其靶基因的生物信息学预测[J].中国油料作物学报,2010,32(2):290-294.
• [15]郭强,项安玲,杨清,等.利用EST及生物信息学方法挖掘马铃薯中miRNA及其靶基因[J].科学通报,2007,52(14):1656-1664.
• [16]ZHANG B,PAN X,STELLWAG E J.Identification of soybean microRNAs and their targets[J].Planta,2008,229(1):161-182.
• [17]NEUTELINGS G,FNART S,LUCAU-DANILA A,et al.Identification and characterization of miRNAs and their potential targets in flax[J].J Plant Physiol,2012,169(17):1754-1766.
• [18]THIEME C J,SCHUDOMA C,MAY P,et al.Give It AGO:The Search for miRNA-Argonaute Sorting Signals in Arabidopsis thaliana Indicates a Relevance of Sequence Positions Other than the 5'-Position Alone[J].Front Plant Sci,2012,3:272.
• [19]DEMURA T,FUKUDA H.Transcriptional regulation in wood formation[J].Trends Plant Sci,2007,12(2):64-70.
• [20]石海燕,张玉星.木质素生物合成途径中关键酶基因的分子特征[J].中国农学通报,2011,27(5):288-291.
• [21]GOICOECHEA M,LACOMBE E,LEGAY S,et al.EgMYB2,a new transcriptional activator from Eucalyptus xylem,regulates secondary cell wall formation and lignin biosynthesis[J].The Plant Journal,2005,43(4):553.