Rao Guodong, Sui Jinkai, Zeng Yanfei, He Caiyun, Zhang Jianguo
State Key Laboratory of Tree Genetics and Breeding, Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China ; Collaborative Innovation Center of Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing 210037, China ; Key Laboratory of Tree Breeding and Cultivation, State Forestry Administration, Research Institute of Forestry, Chinese Academy of Forestry, Beijing 100091, China.
Collaborative Innovation Center of Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing 210037, China.
FEBS Open Bio. 2015 Feb 24;5:132-7. doi: 10.1016/j.fob.2015.02.002. eCollection 2015.
AP2/ERF genes encode transcriptional regulators with a variety of functions in plant growth and development and in response to biotic and abiotic stresses. To date, there are no detailed classification and expression profiles for AP2/ERF genes in Salix. In this study, a comprehensive computational analysis identified 173 AP2/ERF superfamily genes in willow (Salix arbutifolia), by using in silico cloning methods with the use of the AP2/ERF conserved domain amino acid sequence of Arabidopsis thaliana as a probe. Based on the results of phylogenetic analyses and the number of AP2/ERF domains, the AP2/ERF genes were classified into four groups: AP2, RAV, ERF and Soloist. The expression profile was analyzed using transcriptome data from different tissues. A comparative analysis of AP2/ERF superfamily genes among Salix, Populus and Arabidopsis was performed. The Salix DREB, AP2 and RAV groups had a similar number to those in Arabidopsis, and the size of the ERF subfamily in Salix was about 1.4-fold that of Arabidopsis. The Salix DREB subfamily was smaller compared to Populus, while the other families were similar in size to those in Populus. These results will be useful for future functional analyses of the ERF family genes.
AP2/ERF基因编码在植物生长发育以及应对生物和非生物胁迫过程中具有多种功能的转录调节因子。迄今为止，柳树中AP2/ERF基因尚无详细的分类和表达谱。在本研究中，通过使用以拟南芥AP2/ERF保守结构域氨基酸序列为探针的电子克隆方法，对柳树（细叶沼柳）进行全面的计算分析，鉴定出173个AP2/ERF超家族基因。基于系统发育分析结果和AP2/ERF结构域数量，AP2/ERF基因被分为四组：AP2、RAV、ERF和Soloist。利用来自不同组织的转录组数据分析表达谱。对柳树、杨树和拟南芥中的AP2/ERF超家族基因进行了比较分析。柳树的DREB、AP2和RAV组与拟南芥中的数量相似，柳树中ERF亚家族的大小约为拟南芥的1.4倍。与杨树相比，柳树的DREB亚家族较小，而其他家族的大小与杨树中的相似。这些结果将有助于未来对ERF家族基因的功能分析。
