基于转录组的‘三月李’及其红肉突变体ARF基因家族鉴定及分析

Analysis of the ARF gene family of ‘Sanyueli’ plum(Prunus salicina Lindl.) and its red-fleshed mutant based on transcriptome

生长素反应因子(Auxin response factors,ARFs)是一类在植物生长发育过程中发挥着重要作用的转录调控因子.为鉴定ARF家族基因、了解成员特征及其在李果实成熟过程中表达模式,基于‘三月李’及其红肉突变体果实成熟过程的转录组数据,采用生物信息学分析方法进行PsARF家族基因鉴定,并对其蛋白质理化特性、亚细胞定位、系统进化树、蛋白质质保守结构域以及表达模式进行分析.共鉴定得到17个PsARF家族成员.生物信息学分析结果表明PsARF家族蛋白质长度在600-1157 aa之间,分子量(Mr)在66.24×10^3-129.31×10^3之间,等电点介于5.44-8.31之间,均为位于细胞核的不稳定亲水蛋白质.系统进化树分析表明PsARF家族成员可分为4组.PsARF蛋白质均具有典型的B3和Auxin_resp结构域,且多数具有Aux/IAA结构域.保守基序分析表明,PsARF家族蛋白质包含15个保守基序,但非每个蛋白质均含有保守基序.10个PsARF家族基因在‘三月李’及其红肉突变体果实成熟过程中差异表达,不同基因表达模式各不相同.其中,PsARF2和PsARF16在‘三月李’和红肉突变体中的表达模式相反;PsARF10在‘三月李’果肉中表达量显著高于红肉突变体果肉中的表达量.本研究表明PsARF家族成员可能在李果实成熟过程中具有不同的功能,结果可为深入研究PsARF家族基因在李果实成熟过程中的功能奠定基础.(图5表2参40).

Auxin response factors(ARFs)are an essential family of transcription factors that play vital roles in plant growth and development processes.Herein,we aimed to identify genes in the ARF family and investigate the characteristics of ARF members and their expression patterns during fruit ripening in plum.Bioinformatics methods were employed to identify the genes in the PsARF family based on the transcriptome data of‘Sanyueli’plum and its red-fleshed mutant during fruit ripening.Additionally,protein physical and chemical properties,subcellular localization,phylogenetic tree,protein conserved domains,and the expression pattern of the PsARF members were analyzed.As a result,we identified a total of 17 members in the PsARF family.Furthermore,through bioinformatics analysis,we found that the length of PsARF proteins ranged from 193 to 1157 aa,with variations from 66.24×10^3 to 129.31×10^3 for the predicted molecular weight and 5.44 to 8.31 for the isoelectric point.All proteins were predicted to be unstable,hydrophilic,and located in the nucleus.Moreover,phylogenetic analysis revealed that PsARFs can be divided into four different groups.All PsARF proteins contained the typical B3 and Auxin_resp domain while most contained the Aux/IAA domain.Conservative motif analysis revealed 15 conserved motifs in the PsARF family of proteins;however,some proteins did not contain all motifs.Ten PsARF genes were differentially expressed during fruit ripening in‘Sanyueli’plum and its red-fleshed mutant.The expression patterns of PsARF2 and PsARF16 in‘Sanyueli’plum opposed that of its red-fleshed mutant.The expression level of PsARF10 in the flesh of‘Sanyueli’plum was significantly higher than that in the red-fleshed mutant.These findings indicate that PsARF members may have different functions,thereby laying a foundation for further studies on the function of the PsARF family of genes during the ripening of plum fruits.