Open AccessGenome‐wide analysis of the AP2/ERF gene family in Salix arbutifolia
Author(s) -
Rao Guodong,
Sui Jinkai,
Zeng Yanfei,
He Caiyun,
Zhang Jianguo
Publication year - 2015
Publication title -
febs open bio
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.718
H-Index - 31
ISSN - 2211-5463
DOI - 10.1016/j.fob.2015.02.002
Subject(s) - arabidopsis , subfamily , biology , arabidopsis thaliana , gene , in silico , gene family , genetics , phylogenetic tree , genome , transcriptome , cloning (programming) , computational biology , gene expression , mutant , computer science , programming language
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.