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中国农学通报

中国农学通报 ›› 2013, Vol. 29 ›› Issue (13): 120-127.doi: 10.11924/j.issn.1000-6850.2012-3447

所属专题： 生物技术； 园艺

• 林学 园艺 园林 • 上一篇    下一篇

苹果SnRK2基因家族的鉴定和生物信息学分析

陈娜娜 刘金义 蔡斌 王刚 王敏 程宗明   

  • 收稿日期:2012-10-23 修回日期:2012-11-08 出版日期:2013-05-05 发布日期:2013-05-05
  • 基金资助:
    江苏高校优势学科建设工程资助项目

Identification and bioinformatics analysis of the SnRK2 gene family in apple(Malus×domestica Borkh.)

  • Received:2012-10-23 Revised:2012-11-08 Online:2013-05-05 Published:2013-05-05

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摘要： SnRK2（蔗糖非发酵1型相关蛋白激酶2）是植物特有的一类Ser/Thr 类蛋白激酶，参与植物体内多种信号途径的转导，在植物逆境生理过程中扮演了重要的角色。本文利用隐马可夫模型搜索和系统建树的方法，在苹果基因组中鉴定出了16个SnRK2基因家族成员，然后从系统发生、理化性质、二级结构、motif、C末端序列和EST等方面对其进行了预测和分析，并分析了苹果与拟南芥、水稻、玉米等的SnRK2基因家族之间的关系。结果表明，苹果中鉴定的基因与拟南芥、水稻、玉米所有的SnRK2蛋白一起分成了3个亚族。系统发生、motif和C末端序列分析表明，苹果SnRK2蛋白激酶家族具有较高的保守性。本研究为苹果SnRK2基因家族生物学功能的研究奠定了生物信息基础。

关键词: 土壤种子库, 土壤种子库

Abstract: SnRK2 (sucrose non-fermenting 1-related protein kinases 2) is a class of Ser/Thr protein kinase, which is unique to plants, involving in many signaling transductions and playing important roles in regulating environmental stress reponses. In this article, we employed the method of HMMER and phylogenetic tree, identified 16 SnRK2 members in apple genome, then we predicted and analyzed the evolutionary relationship, physical and chemical characteristics, secondary structures, motif, C-terminus sequences and EST, we also analyzed the relationship of apple SnRK2 gene family with those in Arabidopsis, rice, and maize. The result showed that the genes identified in apple, Arabidopsis, rice and maize are classified to three subfamilies, and analysis of phylogenetic tree, motif and C-terminus sequences showed that apple SnRK2 protein kinases are highly conserved comparing with those in other species. This research provides a bioinformatics foundation for the functions of the SnRK2 gene family in apple.