苹果SnRK2基因家族的鉴定和生物信息学分析

SnRK2是植物特有的一类Ser/Thr类蛋白激酶，在植物逆境生理过程中扮演了重要的角色。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。结果表明，苹果SnRK2家族为亲水性蛋白，二级结构主要以α-螺旋和不规则卷曲为主；在系谱发生上与拟南芥、水稻、玉米所有的SnRK2蛋白一起分成了3个亚族；motif和C末端序列分析显示，苹果SnRK2蛋白激酶家族具有较高的保守性；EST表达分析显示，16个MdSnRK2在不同组织中呈不均匀分布，具有组织特异性。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。

Identification and Bioinformatics Analysis of the SnRK2 Gene Family in Apple (Malus×domestica Borkh.)

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.