基于转录组测序的白鼠尾草2-ODD基因家族鉴定与表达分析

Transcriptome-wide identification and expression analysis of 2-ODD gene family in Salvia apiana Jepson

酮戊二酸(2OG)/Fe(Ⅱ)依赖双加氧酶(2-ODD)在植物初生和次生代谢过程中发挥着重要作用。本研究基于高通量测序技术平台Illumina NovaSeq 6000进行了白鼠尾草(Salvia apiana Jepson)转录组测序,对测序结果进行de novo拼接后,共获得38534个独立基因(unigenes)。将获得的独立基因进行基因功能注释,有29982个独立基因获得功能注释。通过生物信息学方法在白鼠尾草转录组数据中进行2-ODD基因家族鉴定,并对鉴定得到的基因序列进行序列特征分析,包括序列的同源性、理化特征、信号肽、跨膜结构域、亚细胞定位、二级结构和三级结构预测等,另对它们的进化关系及表达模式进行分析。结果显示,从白鼠尾草转录组中共鉴定得到39个具有完整序列结构的2-ODD家族基因,这些基因编码蛋白质的平均长度为320个氨基酸,分子质量约为36.00 kDa,多为亲水性蛋白。系统进化分析将白鼠尾草2-ODD基因分为多个亚家族,这些基因在白鼠尾草不同部位均有表达,多数基因在根中的表达量明显高于叶中的表达量。本研究可为白鼠尾草2-ODD基因的深入研究奠定基础。

2-Oxoglutarate/Fe(Ⅱ)-dependent dioxygenases(2-ODD) play an important role in plant primary and secondary metabolism.Based on the high-throughput sequencing platform Illumina NovaSeq 6000,the transcriptome of Salvia apiana Jepson was sequenced,and the obtained reads were de novo assembled.A total of 38 534 unigenes were obtained from the transcriptome.The assembled unigenes were annotated and 29 982 unigenes were given functional annotations.The 2-ODD genes were identified from the assembled S.apiana transcriptome database by bioinformatics methods,and the genes were analyzed,including the homology of the sequences,physicochemical characteristics,signal peptides,transmembrane domains,subcellular localization,secondary structure and tertiary structure,etc.The evolutionary relationships and the expression patterns of the identified 2-ODD genes were also analyzed.39 full-length 2-ODD genes were identified from the transcriptome of S.apiana.The average length of these 2-ODD encoding proteins was 320 amino acids,the molecular weight was about 36.00 kDa,and most of them were hydrophilic proteins.Phylogenetic analysis divided these 2-ODD genes into several subfamilies.Gene expression analysis indicated that the 2-ODD genes were expressed in different parts of S.apiana,and the expression level of most genes was much higher in roots than that in leaves.This study can lay a foundation for further study of 2-ODD genes in S.apiana.