芸薹属AC基因组中SUC基因家族的鉴定与进化分析  

Genome-wide identification and phylogenetic analysis of SUC gene family in B. rapa,B. oleracea and B. napus

作　　者：袁午舟[1] 周荣芳[1] 童超波[1] 程晓晖[1] 黄军艳[1] 于景印[1] 董彩华[1] 刘胜毅[1] 

机构地区：[1]中国农业科学院油料作物研究所,农业部油料作物生物学与遗传育种重点实验室,湖北武汉430062

出　　处：《中国油料作物学报》2014年第3期289-299,共11页Chinese Journal of Oil Crop Sciences

基　　金：国家973计划(2011CB109300);国家863计划(2013AA102602);湖北农业科技创新中心

摘　　要：为分析芸薹属AC基因组中SUC基因(负责蔗糖和质子同向转运的蛋白基因)家族的扩张与丢失,基于已公布的白菜和尚未公布的甘蓝及甘蓝型油菜基因组数据对SUC基因进行全基因组鉴定,并分析基因结构域特征、生化特征、进化关系和表达特性。依据HMMER程序构建的SUC基因家族的HMM(隐马尔科夫)模型,在白菜、甘蓝、甘蓝型油菜中,各检索出12、11和24个SUC候选基因;通过用SUC家族特征进行筛选,最终各保留了12、4和7个SUC基因;通过对SUC基因在拟南芥、白菜、甘蓝和甘蓝型油菜中的系统发育分析,SUC基因家族在芸薹属物种中分成了3个亚类。利用MCscan对这4个物种基因组的共线性分析,结果表明SUC基因家族成员在芸薹属物种基因组加倍后以及白菜和甘蓝杂交形成油菜以后发生了不同程度的丢失。同时,序列生化特性预测结果表明SUC蛋白是属于偏碱性的疏水性蛋白且结构稳定;表达谱分析显示,所有SUC基因基本上在所有的组织中都有不同程度的表达;启动子分析表明,SUC基因的启动子区富含LTRE、ABRE、MYC、MYB和W-box等逆境应答相关顺式作用元件,因而该基因可能也与抗逆性相关。To understand the sucrose transporter （SUC） gene family expansion and lost in Brassicaeea plants, a genomewide search was carried out to identify SUC genes in B. rapa, B. oleracea and B. napus. Gene structure, domain feature, and phylogenetic relationship were also performed. Based on the gene family characteristics, 12 SUC genes in B. rapa, 4 in B. oleracea, and 7 in B. napus were identified. Syntenic relationship analysis indicated that these 3 species experienced different gene loss resulting in different gene retention rates. Protein sequence feature showed that they had alkaline amino acids for hydrophobic and stable protein structure. Observation of tran- scriptomic data indicated that all SUC genes were expressed in the examined tissues of root, stem, leaf, flower, si- lique and callus. In conserved motifs of promoter regions, a large number of stress - responsive cis - acting elements were found, such as LTRE, ABRE, MYC, MYB and W - box, which indicated that SUC genes might be involved in stress -responsive pathways.

关 键 词：白菜 甘蓝 甘蓝型油菜 全基因组 SUC基因家族 分类 进化分析 

分 类 号：Q754[生物学—分子生物学] S565.4[农业科学—作物学]