Genome-wide analysis of auxin response factor gene family members in medicinal model plant Salvia miltiorrhiza.
Genome-wide analysis of auxin response factor gene family members in medicinal model plant Salvia miltiorrhiza.
复制标题
药用模式植物丹参生长素反应因子基因家族成员的全基因组分析
DOI：
10.1242/bio.017178
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发表时间：
2016-06-15
期刊：
影响因子：
2.4
通讯作者：
Chen S
中科院分区：
文献类型：
--
作者：
Xu Z;Ji A;Song J;Chen S
植物生长素反应因子（ARF）在植物发育过程中，通过与生长素反应元件（AREs）特异性结合，发挥转录激活因子或抑制因子的作用，调控生长素反应基因的表达。基于全基因组策略，利用药用模式植物丹参，25 S。对丹参ARF（SmARF）基因家族的Ia、IIa、IIb和III类4个成员的基因结构、保守结构域、系统发育关系和表达模式进行了分析。通过对SmARF在不同器官、根组织和茉莉酸甲酯或吲哚-3-乙酸处理条件下的系统发育树、microRNA靶标和表达模式的杂交分析，我们筛选了参与S.丹参。基于此分析，我们预测SmARF 25、SmARF 7、SmARF 16和SmARF 20分别参与花、叶、茎和根的发育。随着对miR 160和miR 167作用靶点的深入了解，S.丹参可能编码参与拟南芥ARF基因所描述的生物过程的产物。我们的研究结果为进一步了解S.丹参。总结：全基因组分析确定了25个ARF基因成员（7个转录激活因子和18个抑制因子）。丹参。详细分析了基因结构、功能结构域、miRNA靶点和表达模式。
ABSTRACT Auxin response factors (ARFs) can function as transcriptional activators or repressors to regulate the expression of auxin response genes by specifically binding to auxin response elements (AuxREs) during plant development. Based on a genome-wide strategy using the medicinal model plant Salvia miltiorrhiza, 25 S. miltiorrhiza ARF (SmARF) gene family members in four classes (class Ia, IIa, IIb and III) were comprehensively analyzed to identify characteristics including gene structures, conserved domains, phylogenetic relationships and expression patterns. In a hybrid analysis of the phylogenetic tree, microRNA targets, and expression patterns of SmARFs in different organs, root tissues, and methyl jasmonate or indole-3-acetic acid treatment conditions, we screened for candidate SmARFs involved in various developmental processes of S. miltiorrhiza. Based on this analysis, we predicted that SmARF25, SmARF7, SmARF16 and SmARF20 are involved in flower, leaf, stem and root development, respectively. With the further insight into the targets of miR160 and miR167, specific SmARF genes in S. miltiorrhiza might encode products that participate in biological processes as described for ARF genes in Arabidopsis. Our results provide a foundation for understanding the molecular basis and regulatory mechanisms of SmARFs in S. miltiorrhiza. Summary: Genome-wide analysis identified 25 ARF gene members (seven transcriptional activators and 18 repressors) in S. miltiorrhiza. The gene structures, functional domains, miRNA targets and expression patterns were analyzed in detail.