Genome-wide identification and bioinformatics analysis of the WD40 transcription factor family and candidate gene screening for anthocyanin biosynthesis in Rhododendron simsii
文献类型： 外文期刊
作者： Wang, Cheng 1 ; Tang, Yafang 1 ; Li, Yan 2 ; Hu, Chao 1 ; Li, Jingyi 1 ; Lyu, Ang 3 ;
作者机构： 1.Hubei Engn Univ, Coll Life Sci & Technol, Key Lab Qual Control Characterist Fruits & Vegetab, Xiaogan 432000, Peoples R China
2.Weihai Vocat Coll, Dept Biol & Chem Engn, Weihai 264200, Peoples R China
3.Hubei Acad Agr Sci, Inst Qual Stand & Testing Technol Agroprod, Wuhan 430064, Peoples R China
关键词： Rhododendron simsii; WD40; Duplication analysis; Anthocyanin biosynthesis; Candidate genes
期刊名称：BMC GENOMICS （ 影响因子：4.4； 五年影响因子：4.7 ）
ISSN： 1471-2164
年卷期： 2023 年 24 卷 1 期
页码：
收录情况： SCI
摘要： WD40 transcription factors (TFs) constitute a large gene family in eukaryotes, playing diverse roles in cellular processes. However, their functions in the major ornamental plant, Rhododendron simsii, remain poorly understood. In this study, we identified 258 WD40 proteins in the R. simsii genome, which exhibited an uneven distribution across chromosomes. Based on domain compositions and phylogenetic analysis, we classified these 258 RsWD40 proteins into 42 subfamilies and 47 clusters. Comparative genomic analysis suggested that the expansion of the WD40 gene family predates the divergence of green algae and higher plants, indicating an ancient origin. Furthermore, by analyzing the duplication patterns of RsWD40 genes, we found that transposed duplication played a major role in their expansion. Notably, the majority of RsWD40 gene duplication pairs underwent purifying selection during evolution. Synteny analysis identified significant orthologous gene pairs between R. simsii and Arabidopsis thaliana, Oryza sativa, Vitis vinifera, and Malus domestica. We also investigated potential candidate genes involved in anthocyanin biosynthesis during different flower development stages in R. simsii using RNA-seq data. Specifically, we identified 10 candidate genes during the bud stage and 7 candidate genes during the full bloom stage. GO enrichment analysis of these candidate genes revealed the potential involvement of the ubiquitination process in anthocyanin biosynthesis. Overall, our findings provide a valuable foundation for further investigation and functional analysis of WD40 genes, as well as research on the molecular mechanisms underlying anthocyanin biosynthesis in Rhododendron species.
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