Identification and characterization of long non-coding RNAs regulating flavonoid biosynthesis in Ginkgo biloba leaves
Identification and characterization of long non-coding RNAs regulating flavonoid biosynthesis in Ginkgo biloba leaves
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DOI：
10.1016/j.indcrop.2020.112980
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发表时间：
2020-12-15
影响因子：
5.9
通讯作者：
Wang, Li
中科院分区：
文献类型：
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作者：
Liu, Sian;Wang, Lu;Wang, Li
黄酮类化合物是银杏叶中主要的次生代谢产物。以往的研究主要集中在结构基因和转录因子调控类黄酮合成的分子机制上。目前，关于G. biloba.在此，我们对G.银杏叶中黄酮类化合物含量差异显著。共鉴定出2124条lncRNA，其中基因间lncRNA 1032条，反义lncRNA 1092条。富集分析显示，上调lncRNA的顺式调节的靶基因显着富集在类黄酮生物合成途径。其中28个差异表达的结构基因和14个关键转录因子可能受多种lncRNA调控。此外，我们发现lncRNA可能作为miRNAs的前体和内源性靶标模拟物间接调控蛋白质编码基因（PCgenes）。更重要的是，我们发现多个lncRNA可能作为miR 156 a、miR 172 a、miR 396 a、miR 828 a和miR 858 a的靶点，通过形成lncRNA（target）-miRNA-PC基因网络参与银杏黄酮的合成。综上所述，我们的结果表征了G.结果表明，lncRNA可能参与了银杏生物合成的调控。biloba flavonoids黄酮in several几ways方法.
Flavonoids are the main secondary metabolites in Ginkgo biloba leaves. Most previous studies focused on the molecular mechanisms of structural genes and transcription factors regulating flavonoid synthesis. Few reports have examined the long non-coding RNAs (lncRNAs) regulating flavonoid synthesis in G. biloba. Here, we per formed high-throughput sequencing of three stages of G. biloba leaves with significant differences in flavonoid contents. We identified 2124 lncRNAs, including 1032 intergenic lncRNAs and 1092 antisense lncRNAs. Enrichment analysis revealed that cis-regulated target genes of upregulated lncRNAs were significantly enriched in the flavonoid biosynthesis pathway. Among these, 28 differentially expressed structural genes in this pathway and 14 key transcription factors may be regulated by multiple lncRNAs. In addition, we found that lncRNAs may act as precursors and endogenous target mimics of miRNAs to indirectly regulate protein-coding genes (PCgenes). More importantly, we found that multiple lncRNAs may serve as the targets of miR156a, miR172a, miR396a, miR828a, and miR858a and participate in the synthesis of ginkgo flavonoids by forming lncRNA (target)-miRNA-PCgene networks. Taken together, our results characterize the differences in the structure and expression levels of G. biloba lncRNAs and protein-coding genes, and demonstrating that lncRNAs may participate in the regulation of biosynthesis of G. biloba flavonoids in several ways.