橡胶草AP2/EREBP转录因子家族鉴定及表达模式分析

Identification and expression pattern analysis of AP2/EREBP transcription factor family in Taraxacum kok-saghyz Rodin

  • 摘要: 【目的】 鉴定橡胶草AP2/EREBP转录因子家族成员并进行表达分析,为深入探究其对天然橡胶的转录调控机制提供理论参考。【方法】 对橡胶草AP2/EREBP转录因子家族成员进行鉴定,并利用生物信息学方法对其进行亚家族分类、启动子顺式作用元件分析及蛋白保守基序、保守结构域分析,并用茉莉酸甲酯(MeJA)处理橡胶草根组织,获取该家族成员在不同处理时间下的表达差异数据,对表达差异显著(P<0.05)的3个基因进行组织表达特性分析。【结果】 共鉴定出228个AP2/EREBP家族成员,其中AP2亚家族成员31个、RAV亚家族成员1个、ERF亚家族成员92个、DREB亚家族成员91个、其他亚家族成员13个,基于各亚家族成员在基因组中OriID的大小分别将其命名为TkAP21~TkAP231TkRAV1TkERF1~TkERF92TkDREB1~TkDREB91TkAP2EREBP1~TkAP2EREBP13。亚细胞定位预测结果显示,228个家族成员中有129个成员只定位在细胞核,14个成员只定位在细胞质,其余成员在细胞核和细胞质中均有定位。228个家族成员均不具有跨膜结构和信号肽,其保守结构域、保守基序特点与进化关系基本吻合,具有大量的生长发育和胁迫应答相关的启动子顺式作用元件。选取3个MeJA处理后表达差异显著的家族成员进行表达分析,结果发现TkDREB62TkERF84基因在叶中的相对表达量极显著(P<0.01、P<0.001)或显著(P<0.05)高于其他组织;TkERF91基因在根和叶中的相对表达量极显著高于花和花梗中的相对表达量(P<0.001);TkERF91基因在叶、花梗和根中的相对表达量均极显著高于TkDREB62TkERF84基因(P<0.001)。【结论】 橡胶草具有228个AP2/EREBP转录因子家族成员,其中DREB和ERF亚家族占据主导地位。基于结构域的亚家族分类结果和基于蛋白序列差异构建的系统发育树基本吻合,该家族成员在各亚家族内部表现出启动子顺式元件、蛋白质保守结构域以及保守基序上的相对一致性,但在不同亚家族之间存在差异;不同家族基因在组织表达和MeJA诱导后的表达水平上存在差异。

     

    Abstract: 【Objective】 This study aimed to identify the members of AP2/EREBP transcription factor family of Taraxacum kok-saghyz Rodin and analyze their expression, so as to lay a theoretical basis for studying its transcriptional regulation mechanism of natural rubber. 【Method】 Members of AP2/EREBP transcription factor family of Taraxacum kok-saghyz Rodin were identified. The subfamily classification, promoter cis-acting element analysis, protein conserved motif analysis, and conserved structural domain analysis of the AP2/EREBP family of Taraxacum kok-saghyz Rodin were conducted using bioinformatics methods. Methyl jasminate (MeJA) was used to treat root tissues of Taraxacum kok-saghyz Rodin to collect data of differential expression of the family members at different treatment times. Three genes with significantly differential expressions (P<0.05) were selected for tissue-specific expression analysis. 【Result】 A total of 228 members of the AP2/EREBP transcription factor family were identified, including 31 members in the AP2 subfamily, 1 member in RAV subfamily, 92 members in ERF subfamily, 91 members in DREB subfamily, and 13 members in other subfamilies. According to their genomic OriID sizes, the genes were named TkAP21-TkAP231TkRAV1TkERF1-TkERF92TkDREB1-TkDREB91, and TkAP2EREBP1-TkAP2EREBP13, respectively. The results of subcellular localization prediction revealed that among the 228 family members, 129 members were localized only in the nucleus, 14 members were loca-lized only in the cytoplasm, and the remaining members were localized in both the nucleus and cytoplasm. The 228 members did not possess transmembrane structures or signal peptides, and their the characteristics of conserved structural domains and conserved motifs were basically consistent with its evolutionary relationships, implying that they contained a large number of promoter cis-acting elements associated with growth, development, and stress responses. Three family members with significantly differential expressions after MeJA treatments were selected for expression analysis: the expressions of the TkDREB62 and TkERF84 genes in leaves were extremely significant (P<0.01, P<0.001) or significant (P<0.05) higher than those in other tissues; the expression of the TkERF91 gene in leaves and roots were extremely significantly higher than those in flowers and peduncles (P<0.001); the expression of the TkERF91 gene in leaves, peduncles, and roots was extremely significantly higher than those of the TkDREB62 and TkERF84 genes (P<0.001). 【Conclusion】 Taraxacum kok-saghyz Rodin possesses 228 members in the AP2/EREBP transcription factor family, with the DREB and ERF as its predominant subfamilies. The domain-based subfamily classification is consistent with the phylogenetic tree based on protein sequence differences: the family members in each subfamilies share consistency in their promoter cis-elements, protein conserved domains, and conserved motifs, while exhibiting difference across subfamilies; significant differences are found in the characteristics of gene tissue-specific expression and expression level after MeJA induction.

     

/

返回文章
返回