| 32种果树microRNA的生物信息学预测与分析 |
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| 引用本文： | 宋长年,贾启东,王晨,李飞,章镇,房经贵.32种果树microRNA的生物信息学预测与分析[J].园艺学报,2010,37(6):869-879. |
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| 作者姓名： | 宋长年 贾启东 王晨 李飞 章镇 房经贵 |
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| 作者单位： | 1. 南京农业大学园艺学院,南京,210095
2. 南京农业大学植物保护学院,南京,210095 |
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| 基金项目： | 教育部科学技术研究重点项目 |
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| 摘 要： | 通过生物信息学预测miRNA的方法,采用基于生物信息学的基因搜索和同源搜索的方法成功地从NCBI数据库中登录的32种果树的EST中寻找miRNAs。从32种果树的774400条ESTs中找到了110条miRNA前体序列,编码116条成熟体序列。利用miRbase数据库进一步分析,结果表明116个miRNAs属于45个miRNA家族,其中有7个保守的miRNA家族中的miRNA个数在5以上,20个miRNA家族的miRNA个数在2～4,有18个miRNA家族的miRNA数量为1个。在柑橘、苹果、香蕉、猕猴桃和桃等果树中分别发现28、16、13、11和10个miRNAs。果树中miRNA的序列比较发现,相同家族的miRNA的序列存在一定水平的差异,其中碱基的变化包括相似频率的颠换与转换。
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| 关 键 词： | microRNA 生物信息学预测 果树 EST |
Computational Identification and Analysis of the Putative microRNAs in 32 Fruit Crops |
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| SONG Chang-nian,JIA Qi-dong,WANG Chen,LI Fei,ZHANG Zhen,FANG Jing-gui.Computational Identification and Analysis of the Putative microRNAs in 32 Fruit Crops[J].Acta Horticulturae Sinica,2010,37(6):869-879. |
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| Authors: | SONG Chang-nian JIA Qi-dong WANG Chen LI Fei ZHANG Zhen FANG Jing-gui |
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| Institution: | （1College of Horticulture，Nanjing Agricultural University，Nanjing 210095，China；2College of Plant Protection，Nanjing Agricultural University，Nanjing 210095，China） |
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| Abstract: | Here we present a study of bioinformatics identification of microRNA precursors in fruit crops by blasting ESTs of 32 fruit crops in NCBI using bioinformatics-based gene search and homology search method to look for miRNAs in fruit crops. A total of 110 miRNA precursors，encoding 116 unique miRNA sequences，were identified in these fruit crops. Further analysis through the miRbase database showed the 116 miRNAs belonged to 45 miRNA families，of which 7 were predicted with miRNA number more than 5，20 between 2–4，and the other 18 with only 1 miRNA. miRNAs were identified in Citrus，apple，bananas，kiwifruit and peach，and the numbers of miRNAs found in them were 28，16，13，11，and 10，respectively. The results of the alignment of 6 miRNA families showed the nucleotide sequences of the miRNAs in same family were variable，and the variation between the nucleotides of same locus could be of transversion and transition. |
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| Keywords: | microRNA EST |
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