番茄type Ⅱ型MADS-box基因家族生物信息学分析

Bioinformatics Analysis of the type Ⅱ MADS-box Gene Family in Tomato

typeⅡ型MADS-box基因家族在控制植物开花和花器官形成方面起着非常重要作用。近几年对MADS-box基因家族的研究颇多,但在番茄中的相关研究鲜有报道。本研究利用生物信息学的手段,对番茄typeⅡ型MADS-box基因家族蛋白序列进行分析,预测其结构域、蛋白的二级结构、三级结构、分子量、等电点、保守基序和染色体位置等特征,并用MEGA 5.05与拟南芥蛋白进行比对分析并构建系统进化树。结果表明,番茄typeⅡ型MADS-box基因家族有32个成员,分为MIKCC(30)组和MIKC*(2)组,MIKCC组可进一步分为SEP (6)、AGL6 (1)、AP1-FUL (5)、FLC (1)、SOC1 (3)、AGL17 (3)、SVP (2)、BS (1)、AG (3)、AGL12 (1)、AP3-PI (4)等11个亚族。typeⅡ型MADS-box家族基因在染色体上的分布不均匀,大多数聚集在2号染色体上,在第9号和10号染色体上没有分布。蛋白大小在177~279 aa,分子量和等电点分别介于20 703.9~30 846.96和5.98~9.79之间;基序预测有20个保守基序,α-螺旋和无规则卷曲是主要的二级结构。基因结构显示内含子在5~9之间。通过进化树可以看出大部分基因参与调控花器官的特异性。这为深入研究番茄typeⅡ型MADS-box基因提供参考依据。

The typeⅡ MADS-box gene family plays a very important role in controlling plant flowering and floral organ formation. There have been many studies on the MADS-box gene in recent years, but there have been few reports on the family in tomato. This study used bioinformatics to analyze the tomato typeⅡ MADS-box gene family protein sequence, predicting its domain, protein secondary structure, tertiary structure, molecular weight,isoelectric point, conserved motif and chromosomal location, etc. and MEGA 5.05 was used to compare and analyze Arabidopsis proteins and construct a phylogenetic tree. The results showed that the tomato typeⅡ MADS-box gene has 32 members, which are divided into MIKCC(30) group and MIKC*(2) group. MIKCCgroup can be further divided into SEP(6), AGL6(1), and AP1-FUL(5), 11 subfamilies such as FLC(1), SOC1(3), AGL17(3),SVP(2), BS(1), AG(3), AGL12(1), AP3-PI(4). The typeⅡ MADS-box family genes are unevenly distributed on chromosomes, most of which are clustered on chromosome 2 and are not distributed on chromosomes 9 and 10.The protein size ranged from 177~279 aa, and the molecular weight and isoelectric point were between 20 703.9~30846.96 and 5.98~9.79 respectively. The motif was predicted to have 20 conserved motifs, and α-helix and random coil were the main secondary structures. The gene structure showed that the intron is between 5~9. Through the phylogenetic tree, it can be seen that most genes are involved in regulating the specificity of floral organs. This provides a reference for further study of the tomato typeⅡ MADS-box gene.