Department of Bioinformatics, College of Life Sciences, Zhejiang University, Hangzhou, 310058, PR China.
Genomics. 2011 Aug;98(2):128-36. doi: 10.1016/j.ygeno.2011.05.002. Epub 2011 May 15.
A substantial number of transcription factor families have been investigated from all kingdoms of life, but a particular class of plant-specific TIFY transcription factors, characterized by a highly conserved TIFY domain, lacks a systemic analysis of its origin and evolutionary relationships among different plant species. After exhaustive genome-wide searches against 14 genomes, TIFY transcription factors were identified and classified into four subfamilies TIFY, PPD, JAZ and ZML according to their different domain architectures. Results show that the TIFY domain of the ZML subfamily possesses a core "TLS[F/Y]XG" motif rather than the "TIFYXG" motif that is dominant in the other three subfamilies. A comprehensive survey of the TIFY family allowed us to discover a new group within the JAZ subfamily and to identify several novel conserved motifs via phylogenetic analysis. Evolutional analysis indicates that whole genome duplication and tandem duplication contributed to the expansion of the TIFY family in plants.
大量的转录因子家族已经从所有生命领域中被研究过，但是一类特殊的植物特异性 TIFY 转录因子，其特征是具有高度保守的 TIFY 结构域，其起源和不同植物物种之间的进化关系尚未得到系统分析。经过对 14 个基因组的广泛全基因组搜索，鉴定出 TIFY 转录因子，并根据不同的结构域结构将其分为四个亚家族：TIFY、PPD、JAZ 和 ZML。结果表明，ZML 亚家族的 TIFY 结构域具有核心“TLS[F/Y]XG”基序，而不是其他三个亚家族中占主导地位的“TIFYXG”基序。对 TIFY 家族的全面调查使我们能够在 JAZ 亚家族中发现一个新的亚家族，并通过系统发育分析鉴定出几个新的保守基序。进化分析表明，全基因组复制和串联复制导致了植物中 TIFY 家族的扩张。
