Transcriptome Analysis of Secondary Metabolism Pathway, Transcription Factors, and Transporters in Response to Methyl Jasmonate in Lycoris aurea.
Transcriptome Analysis of Secondary Metabolism Pathway, Transcription Factors, and Transporters in Response to Methyl Jasmonate in Lycoris aurea.
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DOI：
10.3389/fpls.2016.01971
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发表时间：
2016
影响因子：
5.6
通讯作者：
Wang R
中科院分区：
文献类型：
--
作者：
Wang R;Xu S;Wang N;Xia B;Jiang Y;Wang R
黄花石蒜是石蒜科植物石蒜的一种药用植物，因其具有广泛的石蒜科生物碱药理活性而被广泛应用于中药中。尽管石蒜属植物在药用和经济上具有重要意义，但对该物种的次生机制研究相对不足。在这项研究中，我们试图描述L。以茉莉酸甲酯（MeJA）处理的金花茶幼苗为研究对象，探讨植物次生代谢途径的分子调控机制。通过使用短读段测序技术（Illumina），对从对照（Con）和100 μM MeJA处理的（MJ 100）样品制备的两个测序cDNA文库进行测序。在Con和MJ 100文库中分别获得总共26，809，842和25，874，478个干净读段，并组装成59，643个单基因。其中，41,585个（69.72%）unigenes通过基本局部比对搜索工具与公共序列数据库的相似性搜索进行了注释。这些包括55个基因本体（GO）术语，128个京都基因和基因组百科全书（KEGG）途径，以及25个直系亲属组（COG）家族。此外，4，175个差异表达基因（DEG;错误发现率≤ 0.001，|log 2比率|≥ 1），其中2，291个上调，1，884个下调，发现在MeJA处理下受到显著影响。随后，对参与次生代谢物生物合成途径的关键酶、转录因子和转运蛋白编码的DEG也进行了分析和总结。同时，我们使用定量实时PCR（qRT-PCR）证实了编码转运蛋白和转录因子的单基因表达水平的改变。通过转录组测序，未来的遗传学和基因组学研究与L。可以改善尿素。此外，富集与次生代谢产物生物合成相关的基因也将增强L.金黄色。
Lycoris aurea, a medicinal species of the Amaryllidaceae family, is used in the practice of traditional Chinese medicine (TCM) because of its broad pharmacological activities of Amaryllidaceae alkaloids. Despite the officinal and economic importance of Lycoris species, the secondary mechanism for this species is relatively deficient. In this study, we attempted to characterize the transcriptome profiling of L. aurea seedlings with the methyl jasmonate (MeJA) treatment to uncover the molecular mechanisms regulating plant secondary metabolite pathway. By using short reads sequencing technology (Illumina), two sequencing cDNA libraries prepared from control (Con) and 100 μM MeJA-treated (MJ100) samples were sequenced. A total of 26,809,842 and 25,874,478 clean reads in the Con and MJ100 libraries, respectively, were obtained and assembled into 59,643 unigenes. Among them, 41,585 (69.72%) unigenes were annotated by basic local alignment search tool similarity searches against public sequence databases. These included 55 Gene Ontology (GO) terms, 128 Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways, and 25 Clusters of Orthologous Groups (COG) families. Additionally, 4,175 differentially expressed genes (DEGs; false discovery rate ≤ 0.001 and |log2 Ratio| ≥ 1) with 2,291 up-regulated and 1,884 down-regulated, were found to be affected significantly under MeJA treatment. Subsequently, the DEGs encoding key enzymes involving in the secondary metabolite biosynthetic pathways, transcription factors, and transporter proteins were also analyzed and summarized. Meanwhile, we confirmed the altered expression levels of the unigenes that encode transporters and transcription factors using quantitative real-time PCR (qRT-PCR). With this transcriptome sequencing, future genetic and genomics studies related to the molecular mechanisms associated with the chemical composition of L. aurea may be improved. Additionally, the genes involved in the enrichment of secondary metabolite biosynthesis-related pathways could enhance the potential applications of L. aurea.
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DOI：
10.1093/bioinformatics/btr490
发表时间：
2011-11-15
期刊：
Bioinformatics (Oxford, England)
影响因子：
--
作者：
Howe EA;Sinha R;Schlauch D;Quackenbush J
通讯作者：
Quackenbush J
影响因子：
4.6
作者：
Devi K;Mishra SK;Sahu J;Panda D;Modi MK;Sen P
通讯作者：
Sen P
影响因子：
11.6
作者：
Dombrecht, Bruno;Xue, Gang Ping;Kazan, Kemal
通讯作者：
Kazan, Kemal
影响因子：
2.2
作者：
BERENBAUM, M
通讯作者：
BERENBAUM, M
影响因子：
3.8
作者：
Eichhorn, J;Takada, T;Zenk, MH
通讯作者：
Zenk, MH