芸薹属作物TT8基因鉴定与生物信息学分析  

Identification and Bioinformatics Analysis of TT8 Gene in Brassica Crop

作　　者：陈镇 何晓莹[2] 任静 俎峰[2] 赵凯琴[2] 李根泽[2] 黄晓霞[1] 程小毛[1] Chen Zhen;He Xiaoying;Ren Jing;Zu Feng;Zhao Kaiqin;Li Genze;Huang Xiaoxia;Cheng Xiaomao(Research Center of National Forestry and Grassland Administrationfor on Engineering Technology of Landscape Architecture in Southwest China,College of Landscape Architecture and Horticulture,Southwest Forestry University,Kunming Yunnan 650233,China;Industrial Crops Research Institute,Yunnan Academy of Agricultural Sciences,Kunming Yunnan 650225,China)

机构地区：[1]西南林业大学园林园艺学院,国家林业与草原局西南风景园林工程技术研究中心,云南昆明650233 [2]云南省农业科学院经济作物研究所,云南昆明650225

出　　处：《西南林业大学学报（自然科学）》2022年第6期44-55,共12页Journal of Southwest Forestry University：Natural Sciences

基　　金：云南省重点研发计划项目(202102AE090002)资助;云南省农业基础研究联合专项(2018FG001-021)资助;云南省教育厅科学研究基金(2020Y0406)资助。

摘　　要：为探明芸薹属作物TT8基因的序列特征和基因组组成,以拟南芥TT8基因为种子序列,利用BLAST工具对芸薹属作物(白菜、甘蓝、甘蓝型油菜、芥菜、黑芥)TT8同源基因进行系统鉴定,对其核苷酸和氨基酸序列进行比较分析。结果表明:在芸薹属作物中共鉴定出7个AtTT8同源基因,其中甘蓝型油菜2个、白菜1个、甘蓝1个、芥菜2个、黑芥1个。芸薹属作物7个TT8基因的基本理化性质、亚细胞定位和蛋白三级结构等均无明显差异;氨基酸序列高度相似,均属bHLH超家族,其中甘蓝型油菜两个TT8同源拷贝分别同白菜与甘蓝聚为一类,亲缘关系紧密;sgRNA分析获得了4条在7个AtTT8同源基因中均高度保守存在的sgRNA位点,推测与TT8基因功能高度相关。最后,本研究还分析43份甘蓝型油菜种质材料的重测序数据,在甘蓝型油菜TT8两个同源基因中共检测到11个多态性位点,包括4个SNP和7个InDel,总频率分别为0.00109和0.00199,均位于5’UTR区。To explore the sequence characteristics and genome composition of the TT8 gene in Brassica crops,Arabidopsis thaliana TT8 gene was used as the seed sequence.BLAST alignment was adopted to systematically identify the Brassica(B.rapa,B.oleracea,B.napus,B.juncea,B.nigra)homologous gene,and the nucleotide and amino acid sequences were compared and analyzed.The results showed that 7 AtTT8 homologous genes were identified in Brassica,including 2 in B.napus,1 in B.rapa,1 in B.oleracea,2 in B.juncea,1 in B.nigra.There were no significant differences in basic physical and chemical properties,subcellular localization and protein tertiary structure of 7 TT8 genes in Brassica.The amino acid sequences are highly similar and belong to bHLH superfamily.The 2 TT8 homologous genes of B.napus are closely related to B.rapa and B.oleracea.Four sgRNA sites were highly conserved in the 7 AtTT8 homologous genes which were speculated to be highly correlated with the function of the TT8 gene.In this study,re-sequencing data derived from 43 B.napus germplasm accessions was used to analyze.A total of 11 polymorphic loci were detected in 2 homologous genes of TT8.This includes 4 SNP and 7 InDel,with a total frequency of 0.00109 and 0.00199,respectively.Both are located in the5’UTR region.

关 键 词：芸薹属 TT8基因 生物信息学 sgRNA 

分 类 号：Q7[生物学—分子生物学]