龙眼SKP1-like家族成员鉴定及体胚发生早期表达分析

Genome-wide Identification of the SKP1-like Family and Analysis of Their Expression During Early Somatic Embryogenesis in Longan

为研究S-phase kinase-associated protein 1-like(SKP1-like)在龙眼中的分子特性以及其在体胚发生早期的表达模式,基于模式植物拟南芥SKP1-like的氨基酸序列,在龙眼基因组数据库中进行SKP1-like成员的鉴定。同时,通过生物信息学方法对其蛋白理化性质、系统进化特征、染色体定位、共线性与选择压力、基因结构、保守基序、蛋白结构、蛋白互作网络、启动子顺式元件进行分析,并结合龙眼转录组数据分析其在体胚发生早期的表达模式。研究结果表明:龙眼SKP1-like家族基因共有14个成员,分别将其命名为DlSKP1-1~DlSKP1-14。龙眼SKP1-like(DlSKP1)家族基因编码蛋白质的氨基酸数、分子量以及等电点分别为75~399 aa、8.29~45.34 kD、4.44~5.76,均不含信号肽,可能主要定位于叶绿体中。DlSKP1家族存在1对串联重复基因以及4对片段重复基因。蛋白互作结果提示,DlSKP1家族成员可能与多种蛋白(尤其F-Box家族蛋白)存在互作关系。启动子顺式作用元件的结果表明,DlSKP1家族成员启动子含有较多脱落酸(Abscisic acid,ABA)与茉莉酸甲酯(Methyl jasmonate,MeJA)响应元件。此外,DlSKP1成员在龙眼体胚发生早期存在5种不同的表达模式,其中3个成员(DlSKP1-6、DlSKP1-8、DlSKP1-13)在各阶段的表达量较其他成员较高。研究结果显示,DlSKP1家族成员可能与F-Box蛋白存在互作作用,并且可能参与ABA、MeJA的调控过程,还可能在龙眼体胚的形态建成中发挥重要作用。

Based on the amino acid sequence of Arabidopsis SKP1-like,the SKP1-like members were identified in the longan genome database to explore the molecular characteristics and its expression patterns during early somatic embryogenesis in Dimocarpus longan. In the meanwhile,bioinformatics methods were used to analyse the physical and chemical properties of its protein,system evolution characteristics,chromosome positioning,collinearity and selective pressure,gene structure,conserved motifs,protein structure,protein interaction network,promoter cis-elements. The results showed that there were 14 SKP1-like family members in longan,which were named as Dl SKP1-1–Dl SKP1-14. The number of amino acids,molecular weight and isoelectric point of proteins encoded by the family genes were 75 to 399 aa,8.29 to 45.34 kD,and 4.44 to 5.76,respectively. They did not contain signal peptides and might be mainly located in chloroplast. There were one pair of tandem repeat genes and four pairs of fragment repeat genes in the DlSKP1 family. The protein interaction prediction results suggested that DlSKP1 family members might interact with multiple proteins(especially F-Box family proteins). The results of the promoter cis-acting elements showed that the promoters of DlSKP1 family members contained more abscisic acid(ABA)and methyl jasmonate(MeJA)response elements. In addition,longan DlSKP1 members had five different expression patterns during early somatic embryogenesis,among which three members(DlSKP1-6,Dl SKP1-8,Dl SKP1-13)had higher expression levels than other members at each stage. The results of the study indicated that DlSKP1 family members might interact with the F-Box proteins,participate in the regulation of ABA and MeJA,and also play an important role in the morphogenesis of longan somatic embryos.