Genome-wide identification and analysis of the GRF transcription factor family in Moso bamboo (Phyllostachys edulis)
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摘要: 利用生物信息学方法，于毛竹（Phyllostachys edulis（Carr.）Lehaie）全基因组中鉴定获得18个GRF转录因子，并对其理化特性、保守结构域、系统发育关系、miR396靶位点以及基因表达模式进行了分析。结果表明，18个PeGRF蛋白长度为170～551 aa，分子量为18.5～58.8 kD；这些PeGRF蛋白均具有QLQ和WRC结构域，部分PeGRF含有FFD和TQL保守结构域。对毛竹、拟南芥（Arabidopsis thaliana（L.）Heynh）和水稻（Oryza sativa L.）的系统进化分析结果显示，毛竹18个GRF可分为3个亚类，且单子叶植物毛竹和水稻的GRF转录因子亲缘关系更近。miR396靶位点预测分析结果发现，在13个PeGRF基因序列的编码区存在毛竹miR396结合位点；PeGRF基因表达模式分析结果显示，PeGRF主要在毛竹的竹笋中表达。Abstract: A total of 18 GRF transcription factors were identified from the Moso bamboo (Phyllostachys edulis (Carr.) Lehaie) genome by bioinformatics, with their physiological and chemical characteristics, conserved motifs, phylogenetic relationship, miR396 binding sites, and expression patterns also determined. Results showed that the length of the 18 GRF transcription factor proteins ranged from 170 to 551 aa and the molecular weights ranged from 18.5 to 58.8 kD. All 18 PeGRF proteins possessed two highly conserved regions (QLQ and WRC domains), with some PeGRF proteins also possessing FFD and TQL conserved domains. Phylogenetic analysis of the GRF transcription factors from Moso bamboo, Arabidopsis, and rice showed that the Moso bamboo GRF transcription factors were divided into three groups; furthermore, the GRF transcription factors exhibited strong homology, especially between Moso bamboo and rice. In addition, probable Moso bamboo miR396 binding sites were found in 13 PeGRF genes. Expression analysis showed that all PeGRF genes were expressed predominantly in actively growing and developing tissues, such as young bamboo shoots. This research provides a reference for further functional analysis of GRF transcription factors in Moso bamboo.
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Keywords:
- Moso bamboo (Phyllostachys edulis) /
- GRF /
- Gene family /
- Expression analysis
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