棉花基因组数据库中CPS KS基因的查找与分析

摘要

The study focused on the distribution of ent⁃copalyl diphosphate aynthase and ent⁃kaurene synthase (CPS&KS), the key enzymes for biosynthesis of GA, in cotton genome. The CPS&KS gene family has two conservative struc⁃ture domains, Terpene_synth and Terpene_synth_C, based on the analysis of their amino acid sequences from Arabidopsis thaliana, and the seed files in Pfam database are PF01397 and PF03936, respectively. By using Hmmsearch of HMMER, 72 sequences were harvested in the genome database from Gossypium raimondii. Five genes exhibiting homologies with 10 genes in subgenomes At and Dt of genome TM⁃1 of tetraploid cotton were identified. Based on the alignment of transcriptome database of an ultra⁃dwarf mutant with GA sensitivity before and after GA treatment, two KS genes were found up⁃regulated.%为了探究赤霉素合成关键酶CPS＆KS类基因在棉花中的分布情况，分析了已发表的拟南芥CPS＆KS基因编码的蛋白质氨基酸序列，发现该类基因存在2个保守结构域，Terpene＿synth和Terpene＿synth＿C，其在Pfam数据库中的种子文件分别为PF01397和PF03936。利用软件HMMER中的Hmmsearch程序在雷蒙德氏棉蛋白质数据库中调取72条序列，通过与拟南芥中的CPS＆KS基因序列进行比对，最终在雷蒙德氏棉基因组中筛选到5个CPS＆KS候选基因，这5个基因与四倍体棉花TM⁃1基因组At和Dt亚组的10个基因具有同源关系。通过对赤霉素敏感的棉花超矮杆突变体赤霉素处理前后转录组数据库分析比对，最终确定2个KS候选基因在转录组中表现为上调作用。