橡胶树PEPC基因家族鉴定及功能分析

Identification and functional analysis of PEPC gene family in Hevea brasiliensis

  • 摘要: 【目的】 对橡胶树全基因组中磷酸烯醇式丙酮酸羧化酶(PEPC)基因家族成员进行鉴定及功能分析,为深入探究PEPC基因家族在橡胶生物合成中的调控机制提供理论参考。【方法】 以拟南芥PEPC蛋白序列为探针,从橡胶树基因组中鉴定PEPC基因家族成员,并对其编码的蛋白进行理化性质、保守结构域、亚细胞定位分析,利用转录组数据对PEPC基因家族成员进行表达分析,通过酵母双杂交试验和双分子荧光互补试验验证HbPEPC3和HbSUS3蛋白互作。【结果】 从橡胶树基因组中鉴定得到6个PEPC基因家族成员,命名为HbPEPC1~HbPEPC6,编码的氨基酸数量为692~1066个,理论等电点为5.56~6.16,不稳定系数均大于40.00,属于不稳定蛋白,总平均亲/疏水性系数为-0.441~-0.351,均属于亲水性蛋白。橡胶树6个PEPC家族成员被分为2个亚族,其中HbPEPC1和HbPEPC5位于BPTC分支,属于细菌型PEPC,其他4个成员位于PTPC分支,属于植物型PEPC,在这2个分支中,橡胶树和木薯PEPC聚在一起,与橡胶树和木薯2种植物同属于大戟科巴豆亚科的分类学地位相符。从基因结构看,PEPC的基因结构与进化分类也一致,其中BTPC分支具有更多的内含子。6个PEPC基因家族成员分布在橡胶树的6条染色体上,其中PTPC分支的HbPEPC2HbPEPC3HbPEPC4HbPEPC6具有共线性,BTPC分支的HbPEPC1HbPEPC5具有共线性。HbPEPC3基因在树皮中表达量较高,在割胶过程中呈下调表达趋势;BTPC分支的HbPEPC5基因在叶片中表达量较高,在割胶过程中呈下调表达趋势,在乙烯处理下HbPEPCS基因也呈下调表达趋势。HbPEPC3和HbSUS3存在互作,且与拟南芥的AtPEPC4基因具有共线性,推测其具有类似的功能。【结论】 橡胶树的6个PEPC基因家族成员分别处于BTPC和PTPC 2个亚族,其中PTPC亚族成员HbPEPC3和模式植物的PtPEPC1AtPEPC4基因具有较好的局部共线性,并在树皮中高丰度表达,且HbPEPC3和HbSus3存在蛋白互作,推测HbPEPC3在橡胶生物合成,特别是碳源的补充方面具有重要功能。

     

    Abstract: 【Objective】 This study aimed to identify members of the phosphoenolpyruvate carboxylase (PEPC) gene family of whole genome in Hevea brasiliensis and analyze their functions, thereby providing reference for studying the regulation mechanism of PEPC gene family functions in rubber biosynthesis. 【Method】 PEPC gene family members were identified from Hevea brasiliensis genome using Arabidopsis thaliana PEPC protein sequences as probes, and their physicochemical properties,conserved domains, and subcellular localization of the encoded proteins were analyzed. Transcriptome data were used to perform PEPC gene expression analysis. Protein interactions between HbPEPC3 and HbSUS3 were validated using yeast two-hybrid and bimolecular fluorescence complementation assays. 【Result】 Six PEPC genes were identified from Hevea brasiliensis genome, which were named HbPEPC1-HbPEPC6, encoding 692-1066 amino acids, with the theoretical isoelectric point of 5.56-6.16,and the instability coefficients were all above 40.00, indicated that they were unstable proteins, and the grand average of hydrophilicity/hydrophobicity coefficients ranged from -0.441 to -0.351, all belonging to hydrophilic proteins. The six PEPC family members from Hevea brasiliensis were divided into two subfamilies. HbPEPC1 and HbPEPC5 were clustered in the BPTC clade, belonging to bacterial-type PEPCs, while the other four members were clustered in the PTPC clade, belonging to plant-type PEPCs. In these two clades, the PEPCs of Hevea brasiliensis and cassava were clustered together, which was consistent with the taxonomic status of Hevea brasiliensis and cassava, as both belonged to Crotonoideae of Euphorbiaceae. Analysis of gene structure revealed that the gene structure of PEPCs was consistent with their phylogenetic classification, with the BTPC clade containing more introns. The six PEPC gene family members were distributed on six Hevea brasiliensis chromosomes; collinearity was found between HbPEPC2 and HbPEPC3, between HbPEPC4 and HbPEPC6 in the PTPC clade,while collinearity was found between HbPEPC1 and HbPEPC5 in the BTPC clade. The HbPEPC3 exhibited a relatively high expression in the bark, with a down-regulated expression trend during the tapping process. The HbPEPC5 gene in the BTPC clade showed high expression in leaves and down-regulated trend during the tapping process, and the HbPEPC5 gene showed down-regulated trend under ethylene treatment. The HbPEPC3 had interaction with HbSUS3, and it was collinear with the AtPEPC4 gene in Arabidopsis thaliana, suggesting that it had similar functions. 【Conclusion】 Six PEPC gene family members in Hevea brasiliensis distribute in the two subfamilies, BTPC and PTPC. The PTPC subfamily member HbPEPC3 shares high local collinearity with PtPEPC1 and AtPEPC4 genes in model plants, and shows expression of high abundance in the bark. Protein interactions are found between HbPEPC3 and HbSus3, suggesting that HbPEPC3 plays an important role in rubber biosynthesis, particularly in carbon source supplementation.

     

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