Genome-Wide Identification, Evolution, and Expression Analysis of the TCP Gene Family in Rose (Rosa chinensis Jacq.)
Genome-Wide Identification, Evolution, and Expression Analysis of the TCP Gene Family in Rose (Rosa chinensis Jacq.)
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DOI：
10.3390/horticulturae8100961
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发表时间：
2022-10-01
期刊：
影响因子：
3.1
通讯作者：
Liu, Jinyi
中科院分区：
文献类型：
--
作者：
Hou, Yi;Fan, Chunguo;Liu, Jinyi
玫瑰不仅具有很高的观赏价值和经济价值，而且在世界范围内具有重要的文化意义。作为植物特有的转录因子基因家族，TCP（TEOSINTE BRANCHED 1、CYCLOIDEA、PROLIFERATING CELL FACTOR LAND 2）基因已被证明参与植物生物过程的各个方面，如叶形态发生和衰老、侧枝、花发育、应激反应和激素信号传导。目前，许多植物中的TCP基因已被鉴定和分析，但在月季中尚无系统分析。在这里，我们从中华白杨基因组中鉴定出 16 个 RcTCP 基因，这些基因不均匀地分布在所有 7 条染色体中的 5 条中。系统发育和结构分析表明，RcTCP家族可分为I类（即PCF）和II类，II类基因可进一步分为CIN和CyC/TB1亚类。研究表明，不同类别的 TCP 基因经历了不同的进化过程，同一分支中的基因具有相似的基序、基因结构和保守结构域。启动子分析表明，RcTCPs具有许多顺式作用元件，主要与植物生长发育、植物激素和非生物/生物胁迫反应相关。此外，基于公共RNA-seq数据集分析了RcTCPs在营养生长和生殖生长以及干旱胁迫处理下的表达水平，结果表明RcTCPs表现出严重的组织特异性表达，大部分在花、叶和茎中表达，在花和芽分化的不同阶段表达量较高，特别是在花瓣形成和配子体发育过程中。 PCF类的7个RcTCP基因在干旱胁迫下的高诱导作用表明它们在对抗干旱胁迫的生物过程中发挥着重要作用。我们的结果为中华草中 TCP 基因的进化和功能表征提供了有价值的信息。
Roses have not only high ornamental and economic values but also cultural importance worldwide. As a plant-specific transcription factor gene family, the TCP (TEOSINTE BRANCHED 1, CYCLOIDEA, PROLIFERATING CELL FACTOR LAND 2) genes have been indicated to be involved in various aspects of plant biological processes, such as leaf morphogenesis and senescence, lateral branching, flower development, stress response and hormone signaling. Currently, TCP genes have been identified and analyzed in many plants, yet there is no systematic analysis in Rosa chinensis. Here, we identified 16 RcTCP genes from R. chinensis genome, which were unevenly distributed in five out of all seven chromosomes. Phylogenetic and structural analyses showed that RcTCP family could be classified into two classes, I (namely PCF) and II, and class II genes can be further divided into CIN and CyC/TB1 subclasses. The different classes of TCP genes were showed to have undergone different evolutionary processes, and genes in the same branch shared similar motifs, gene structures and conserved structural domains. Promoter analysis showed that RcTCPs had many cis-acting elements that are mainly associated with plant growth and development, plant hormones and abiotic/biotic stress responses. Furthermore, the expression levels of RcTCPs under vegetative and reproductive growth and drought stress treatments were analyzed based on public RNA-seq dataset, and it was shown that RcTCPs exhibited serious tissue-specific expression, with most of them dominantly expressed in flowers, leaves and stems, with high levels of expression at different stages of flower and bud differentiation, particularly during petal formation and gametophyte development. The high inducement of seven RcTCP genes from PCF class in drought stress indicated their important roles in biological processes against drought stress. Our results provide valuable information for the evolution and functional characterization of TCP genes in R. chinensis.