棉花WOX转录因子家族基因的全基因组鉴定与分析

Genome-wide Identification and Analysis of WOX Family Genes in Gossypium hirsutum L.

为了挖掘可用于棉花花器官或纤维发育研究的候选基因,基于已发布的陆地棉全基因组数据,利用生物信息学的分析方法鉴定了陆地棉WOX(WUSCHEL-related homeobox,WOX)转录因子基因家族,并从染色体分布、基因及蛋白理化性质、蛋白结构、多重序列比对、系统进化树和基因表达模式等方面对该基因家族的特征进行了比较分析。结果表明,鉴定到37个陆地棉WOX转录因子家族基因,命名为GhWOX1~GhWOX37。亚基因组定位结果显示,37个陆地棉WOX转录因子家族基因分布在除了A04、A06、A09、D04、D06和D09号亚基因组以外的20个亚基因组,A亚组比D亚组多1个GhWOX转录因子家族基因。多重序列比对分析棉花WOX转录因子家族成员均具有高度保守的同源异型结构域;系统进化树分析发现棉花WOX转录因子家族可以分为3个亚家族(Ⅰ类、Ⅱ类和Ⅲ类),各亚类分别含有23,7,7个GhWOX转录因子家族基因成员。对NCBI中陆地棉的EST数据库比对分析,有11个GhWOX转录因子家族成员没有可匹配的EST序列,其他26个GhWOX转录因子家族成员在棉花的根、茎、叶、花、胚珠、纤维和种子等组织和器官中广泛表达。为深入研究棉花和其他植物中WOX家族的鉴定和功能研究奠定了基础。

The purpose of this study was to find the relevant candidate genes for development of fiber or floral organ in cotton.Based on the available genome data of cotton,the WOX gene family was identified by bioinformatics analysis.The chromosome distribution,gene and protein structures,phylogenetic relationship and gene expression patterns of this family were comprehensively compared.The results showed that a total of 37 WOX genes in cotton genome were found and then designated as GhWOX1-GhWOX37,which were distributed in 20 subgenomes except for A04,A06,A09,D04,D06 and D09.A subgenome had one more GhWOX gene than D subgenme.The multiple sequence analysis of GhWOX gene family presented the highly conserved homeodomain.Phylogenetic tree analysis showed that 37 WOX genes could be divided into Ⅰ,Ⅱ and Ⅲ subfamily and the subfamily respectively contained 23,7 and 7 WOX family genes in cotton.A Blast search on the NCBI EST database showed that 11 GhWOX genes had no matching EST sequence,and other 26 GhWOX genes were expressed in various tissues of root,stem,leaf,flower,ovule,fiber and seed.The results would be helpful for further analysis of WOX family proteins in other plants.