Department of Biotechnology, College of Agriculture, Isfahan University of Technology, Isfahan 84156-83111, Iran.
Department of Horticultural Science, College of Agriculture and Natural Resources, University of Tehran, Karaj 31587-11167, Iran.
Genes (Basel). 2019 Aug 16;10(8):620. doi: 10.3390/genes10080620.
Among the family, the genus is an economically important genera due to its medicinal and aromatic properties. Most molecular research has focused on the determining the phylogenetic relationships between different species, but no published work has focused on the evolution of the transcriptome across the genus to elucidate genes involved in terpenoid biosynthesis. Hence, in this study, the transcriptomes of five different species were generated and analyzed to mine putative genes involved in thymol and carvacrol biosynthesis. High-throughput sequencing produced ~43 million high-quality reads per sample, which were assembled de novo using several tools, then further subjected to a quality evaluation. The best assembly for each species was used as queries to search within the UniProt, KEGG (Kyoto Encyclopedia of Genes and Genomes), COG (Clusters of Orthologous Groups) and TF (Transcription Factors) databases. Mining the transcriptomes resulted in the identification of 592 single-copy orthogroups used for phylogenetic analysis. The data showed strongly support a close genetic relationship between and Additionally, this study dates the speciation events between 1.5-2.1 and 9-10.2 MYA according to different methodologies. Our study provides a global overview of genes related to the terpenoid pathway in , and can help establish an understanding of the relationship that exists among species.
在该科属的家族中，因其药用和芳香特性，属是一个具有重要经济价值的属。大多数分子研究都集中在确定不同物种之间的系统发育关系上，但尚未有研究专注于跨属转录组的进化，以阐明参与萜类生物合成的基因。因此，在这项研究中，生成和分析了五个不同物种的转录组，以挖掘参与百里香酚和香芹酚生物合成的假定基因。每个样本的高通量测序产生了约 4300 万个高质量的读数，这些读数使用多个工具从头组装，然后进一步进行质量评估。每个物种的最佳组装被用作查询，在 UniProt、KEGG（京都基因与基因组百科全书）、COG（直系同源群簇）和 TF（转录因子）数据库中进行搜索。对转录组进行挖掘，确定了 592 个用于系统发育分析的单拷贝直系同源物。数据强烈支持 和 之间存在密切的遗传关系。此外，根据不同的方法，本研究将物种形成事件追溯到 1.5-2.1 和 9-10.2 MYA。本研究提供了 属萜类化合物途径相关基因的全面概述，并有助于建立对 属种间关系的理解。
