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当前位置: 首页 > 文章 > 基于RNA-seq的福建柏R2R3-MYB转录因子鉴定和分析 福建农林大学学报(自然科学版) 2021 (3) 348-355
Position: Home > Articles > 基于RNA-seq的福建柏R2R3-MYB转录因子鉴定和分析 Journal of Fujian Agriculture and Forestry University(Natural Science Edition) 2021 (3) 348-355

基于RNA-seq的福建柏R2R3-MYB转录因子鉴定和分析

关键词：
福建柏;RNA-seq;MYB;鉴定和分析;生物信息学;
摘  要：
基于福建柏鳞叶、树皮和根3个部位的RNA-seq（转录组测序技术）数据,对福建柏R2R3-MYB转录因子进行挖掘和分析.结果显示,共鉴定出71个R2R3-MYB转录因子;71个R2R3-MYB的氨基酸数100～858个,相对分子质量11 618.52～96 926.56,均预测为亲水性不稳定蛋白;亚细胞定位预测结果显示均定位在细胞核中;GO功能注释分类共注释到364个GO terms,其中聚类在分子功能、生物学过程和细胞组分分别为150、82和132个;序列对比和保守基序分析显示71个R2R3-MYB均含有R2(-W-(X19)-W-(X19)-W-)、R3(-（F）-(X18)-W-(X18)-W-)保守基序.系统进化树分析表明,除S12、S16、S18和S20亚家族外,其他均有福建柏R2R3-MYB转录因子聚为一类.FPKM表达模式分析表明福建柏R2R3-MYB的表达具有明显的组织特异性,RT-qPCR结果验证了部分R2R3-MYB基因的组织特异性.
作  者：
ZHOU Chengcheng;XIE Dejin;YANG Deming;HE Tianyou;CHEN Lingyan;ZHENG Yushan;College of Landscape Architecture, Fujian Agriculture and Forestry University;College of Forestry,Fujian Agriculture and Forestry University;
关键词：
Fokienia hodginsii;;transcriptome database;;R2R3-MYB;;identification and analysis;;bioinformatics
摘  要：
R2 R3-MYB transcription factors of Fokienia hodginsii were mined based on the RNA-seq data of leaf, bark and root. The results identified 71 R2 R3-MYB transcription factors. They encoded 100-858 amino acids, with relative molecular weights ranging between 11 618.52 and 96 926.56, which were predicted to be hydrophilic unstable proteins. Subcellular localization analysis indicated that they were located in the nucleus. GO functional annotation and classification showed that 364 GO terms were annotated, including 150 responsible for molecular functions, 82 related to biological processes and 132 related to cell components. Sequence comparison and conserved motif analysis showed the R2 R3-MYB F.hodginsii contained conserved motifs of R2(-W-(X_(19))-W-(X_(19))-W-) and R3(-(F)-(X_(18))-W-(X_(18))-W-). Phylogenetic tree analysis showed that apart from subfamilies of S12, S16, S18 and S20, the R2 R3-MYB transcription factors of F.hodginsii were clustered with the R2 R3-MYB of Arabidopsis thaliana in other subfamilies, among which S5 was the most clustered. The analysis of FPKM expression pattern demonstrated that the expression of R2 R3-MYB in F.hodginsii had obvious tissue specificity, which was in accordance with the tissue-specific expression of some R2 R3-MYB genes by RT-qPCR.

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