School of Life Sciences, Sun Yat-sen University, Guangzhou, 510275, China.
Research Institute of Sun Yat-sen University in Shenzhen, Shenzhen, 518057, China.
Sci Rep. 2022 Feb 28;12(1):3272. doi: 10.1038/s41598-022-07198-0.
Mikania micrantha is a notorious invasive weed that has caused huge economic loss and negative ecological consequences in invaded areas. This species can adapt well to invasive environments with various stress factors. The identification of gene families and functional pathways related to environmental adaptability is lack in M. micrantha at the multi-organ full-length transcriptome level. In this study, we sequenced the transcriptomes of five M. micrantha organs using PacBio single-molecule real-time sequencing and Illumina RNA sequencing technologies. Based on the transcriptome data, full-length transcripts were captured and gene expression patterns among the five organs were analyzed. KEGG enrichment analysis of genes with higher expression indicated their special roles in environmental stress response and adversity adaptation in the various five organs. The gene families and pathways related to biotic and abiotic factors, including terpene synthases, glutathione S-transferases, antioxidant defense system, and terpenoid biosynthesis pathway, were characterized. The expression levels of most differentially expressed genes in the antioxidant defense system and terpenoid biosynthesis pathway were higher in root, stem, and leaf than in the other two organs, suggesting that root, stem, and leaf have strong ability to respond to adverse stresses and form the important organs of terpenoid synthesis and accumulation. Additionally, a large number of transcription factors and alternative splicing events were predicted. This study provides a comprehensive transcriptome resource for M. micrantha, and our findings facilitate further research on the adaptive evolution and functional genomics of this species.
微甘菊是一种臭名昭著的入侵杂草，在入侵地区造成了巨大的经济损失和负面的生态后果。该物种可以很好地适应具有各种胁迫因素的入侵环境。在微甘菊多器官全长转录组水平上，缺乏与环境适应性相关的基因家族和功能途径的鉴定。在这项研究中，我们使用 PacBio 单分子实时测序和 Illumina RNA 测序技术对五个微甘菊器官的转录组进行了测序。基于转录组数据，捕获了全长转录本，并分析了五个器官之间的基因表达模式。KEGG 富集分析表明，表达较高的基因在各种五个器官中的环境胁迫响应和逆境适应中具有特殊作用。鉴定出与生物和非生物因素相关的基因家族和途径，包括萜烯合酶、谷胱甘肽 S-转移酶、抗氧化防御系统和萜类生物合成途径。抗氧化防御系统和萜类生物合成途径中大多数差异表达基因的表达水平在根、茎和叶中高于其他两个器官，这表明根、茎和叶具有较强的应对逆境的能力，并形成了萜类合成和积累的重要器官。此外，还预测了大量的转录因子和可变剪接事件。本研究为微甘菊提供了一个全面的转录组资源，我们的研究结果有助于进一步研究该物种的适应性进化和功能基因组学。
