Background

Euphorbia jolkini, a medicinal herb that grows on the warm beaches in Japan and South Korea, is known to be used for traditional medicines to treat a variety of ailments, including bruises, stiffness, indigestion, toothache, and diabetes.

Objective

It is to analyze the whole transcriptome and identify the genes related to the phenylpropanoid biosynthesis in the medicinally important herb E jolkini.

Methods

Paired-end Illumina HiSeq™ 2500 sequencing technology was employed for cDNA library construction and Illumina sequencing. Public databases like TAIR (The Arabidopsis Information Resource), Swissprot and KEGG (Kyoto Encyclopedia of Genes and Genomes) were used for annotations of unigenes obtained.

Results

The transcriptome of E. jolkini generated 139,215 assembled transcripts with an average length of 868 bp and an N50 value of 1460 bp that were further clustered using CD-HIT into 93,801 unigenes with an average length of 847 bp (N50-1410 bp). Sixty-three percent of the coding sequences (CDS) were annotated from the longest open reading frame (ORF). A remarkable percentage of unigenes were annotated against various databases. The differentially expressed gene analysis revealed that the expression of genes related to the terpenoid backbone biosynthesis pathway was higher in the flowers, whereas that of genes related to the phenylpropanoid biosynthesis pathway was both up- and downregulated in flowers and leaves. A search of against the transcription factor domain found 1023 transcription factors (TFs) that were from 54 TF families.

Conclusion

Assembled sequences of the E. jolkini transcriptome are made available for the first time in this study E. jolkini and lay a foundation for the investigation of secondary metabolite biosynthesis.

中文翻译：

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从头开始组装和表征药用植物大戟大戟的转录组。

背景

大戟乔尔基尼（Euphorbia jolkini）是一种生长在日本和韩国温暖海滩上的草药，众所周知，它被用作传统药物来治疗各种疾病，包括跌打，僵硬，消化不良，牙痛和糖尿病。

目的

它的目的是分析整个转录组，并鉴定与重要草药E jolkini中的苯丙烷生物合成相关的基因。

方法

配对末端的Illumina HiSeq™2500测序技术用于cDNA文库构建和Illumina测序。诸如TAIR（拟南芥信息资源），Swissprot和KEGG（基因与基因组京都百科全书）之类的公共数据库用于注释获得的单基因。

结果

E. jolkini的转录组生成139,215个组装的转录本，平均长度为868 bp，N50值为1460 bp，使用CD-HIT将其进一步聚类为93,801个单基因，平均长度为847 bp（N50-1410 bp）。从最长的开放阅读框（ORF）注释了63％的编码序列（CDS）。针对各种数据库的单基因注释比例很高。差异表达基因分析表明，与萜类骨架生物合成途径相关的基因在花中的表达较高，而与苯丙烷类生物合成途径相关的基因在花和叶中的表达均被上调和下调。对转录因子结构域的搜索发现来自54个TF家族的1023个转录因子（TF）。

结论

的组装序列E. jolkini转录都在这项研究首次提供E. jolkini，并为次生代谢产物生物合成的研究奠定了基础。