Integrated transcriptomic and metabolomic data reveal the flavonoid biosynthesis metabolic pathway in Perilla frutescens (L.) leaves

Jiang, Tao; Guo, Kunyuan; Liu, Lingdi; Tian, Wei; Xie, Xiaoliang; Wen, Saiqun; Wen, Chunxiu

doi:10.1038/s41598-020-73274-y

Cited by 48 publications

(44 citation statements)

References 52 publications

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“…Subsequently, 4-Coumaric-CoA is converted to naringenin catalyzed by CHS and CHI. While naringenin is the key metabolite in flavonoid synthesis (Figure 6), catalyzed by different enzymes, the naringenin produces three branches, one branch produces flavonoid (eriodictyol, apigenin, and luteolin), the second branch produces flavonols (dihydrokaempferol, kaempferol, dihydroquercetin, and quercetin), and the third branch produces isoflavones, which is in agreement with the previous findings (Gao et al, 2020;Jiang et al, 2020). here have been reports that naringenin possesses a broad range of biological activities, such as anti-oxidant, hepatoprotective, anti-inflammatory, and anticarcinogenic effects (Raso et al, 2001), and the pharmacological potential of flavonoids in D. huoshanense needs to be further explored.…”

Section: Discussionsupporting

confidence: 92%

Integration of Transcriptome and Metabolome Provides New Insights to Flavonoids Biosynthesis in Dendrobium huoshanense

et al. 2022

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Dendrobium huoshanense is both a traditional herbal medicine and a plant of high ornamental and medicinal value. We used transcriptomics and metabolomics to investigate the effects of growth year on the secondary metabolites of D. huoshanense stems obtained from four different years of cultivation. In this study, a total of 428 differentially accumulated metabolites (DAMs) and 1802 differentially expressed genes (DEGs) were identified. The KEGG enrichment analysis of DEGs and DAMs revealed significant differences in “Flavonoid biosynthesis”, “Phenylpropanoid biosynthesis” and “Flavone and flavonol biosynthesis”. We summarize the biosynthesis pathway of flavonoids in D. huoshanense, providing new insights into the biosynthesis and regulation mechanisms of flavonoids in D. huoshanense. Additionally, we identified two candidate genes, FLS (LOC110107557) and F3’H (LOC110095936), which are highly involved in flavonoid biosynthesis pathway, by WGCNA analysis. The aim of this study is to investigate the effects of growth year on secondarily metabolites in the plant and provide a theoretical basis for determining a reasonable harvesting period for D. huoshanense.

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Section: Discussionsupporting

confidence: 92%

Integration of Transcriptome and Metabolome Provides New Insights to Flavonoids Biosynthesis in Dendrobium huoshanense

et al. 2022

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“…These results suggest that AM symbiosis may improve the biosynthesis of flavonols and flavanols and suppress the accumulation of anthocyanidins. Furthermore, TF-encoding gene analysis showed that the transcription factor families involved in flavonoid biosynthesis, including the MYB, bHLH, and NAC families 44 – 46 , were responsive to mycorrhizal symbiosis, and most TFs of these three families were upregulated in the AMF treatment group. Taken together, the biosynthesis of flavonoids was strongly affected by AMF colonization, which may be the most direct factor underlying the enhancement of resistance to gypsy moth larvae in P. alba × P. berolinensis seedlings under the AM fungus treatment.…”

Section: Discussionmentioning

confidence: 99%

Defense responses of arbuscular mycorrhizal fungus-colonized poplar seedlings against gypsy moth larvae: a multiomics study

Jiang¹,

Tan²,

Wu³

et al. 2021

Hortic Res

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Arbuscular mycorrhizal (AM) fungi may help protect plants against herbivores; however, their use for the pest control of woody plants requires further study. Here, we investigated the effect of Glomus mosseae colonization on the interactions between gypsy moth larvae and Populus alba × P. berolinensis seedlings and deciphered the regulatory mechanisms underlying the mycorrhizal-induced resistance in the leaves of mycorrhizal poplar using RNA-seq and nontargeted metabolomics. The resistance assay showed that AM fungus inoculation protected poplar seedlings against gypsy moth larvae, as evidenced by the decreased larval growth and reduced larval survival. A transcriptome analysis revealed that differentially expressed genes (DEGs) were involved in jasmonic acid biosynthesis (lipoxygenase, hydroperoxide dehydratase, and allene oxide cyclase) and signal transduction (jasmonate-ZIM domain and transcription factor MYC2) and identified the genes that were upregulated in mycorrhizal seedlings. Except for chalcone synthase and anthocyanidin synthase, which were downregulated in mycorrhizal seedlings, all DEGs related to flavonoid biosynthesis were upregulated, including 4-coumarate-CoA ligase, chalcone isomerase, flavanone 3-hydroxylase, flavonol synthase, and leucoanthocyanidin reductase. The metabolome analysis showed that several metabolites with insecticidal properties, including coumarin, stachydrine, artocarpin, norizalpinin, abietic acid, 6-formylumbelliferone, and vanillic acid, were significantly accumulated in the mycorrhizal seedlings. These findings suggest the potential of mycorrhiza-induced resistance for use in pest management of woody plants and demonstrate that the priming of JA-dependent responses in poplar seedlings contributes to mycorrhiza-induced resistance to insect pests.

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“…The phenylpropanoid biosynthetic pathway is activated under stress conditions, resulting in accumulation of various phenolic compounds which, among other roles, have the potential to scavenge harmful reactive oxygen species (ROS) [ 24 , 25 , 26 ]. In recent years, metabolomics integrated with transcriptomics has been widely used to investigate the biosynthesis of metabolites in plants [ 27 , 28 ]. In this study, hydrogen water was used to treat the famous Chinese southern medicine Wuzhimaotao, and then the metabolome and transcriptome were analyzed.…”

Section: Discussionmentioning

confidence: 99%

Integrated Metabolomic and Transcriptomic Analyses to Understand the Effects of Hydrogen Water on the Roots of Ficus hirta Vahl

Zeng

2022

Plants

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Wuzhimaotao (Ficus hirta Vahl) is an important medicinal and edible plant in China. The extract from the roots of Ficus hirta Vahl contains phenylpropanoid compounds, such as coumarins and flavonoids, which are the main active components of this Chinese herbal medicine. In this study, we analyzed the transcriptomic and metabolomic data of the hydrogen-water-treated roots of Ficus hirta Vahl and a control group. The results showed that many genes and metabolites were regulated in the roots of Ficus hirta Vahl that were treated with hydrogen water. Compared with the control group, 173 genes were downregulated and 138 genes were upregulated in the hydrogen-rich water treatment group. Differential metabolite analysis through LC-MS showed that 168 and 109 metabolites had significant differences in positive and negative ion mode, respectively. In the upregulated metabolites, the main active components of Wuzhimaotao, such as the phenylpropane compounds naringin, bergaptol, hesperidin, and benzofuran, were found. Integrated transcriptomic and metabolomic data analysis showed that four and one of the most relevant pathways were over enriched in positive and negative ion mode, respectively. In the relationship between metabolites and DEGs, phenylpropanoid biosynthesis and metabolism play an important role. This indicates that phenylpropanoid biosynthesis and metabolism may be the main metabolic pathways regulated by hydrogen water. Our transcriptome analysis showed that most of the DEGs with |log2FC| ≥ 1 are transcription factor genes, and most of them are related to plant hormone signal transduction, stress resistance, and secondary metabolism, mainly phenylpropanoid biosynthesis and metabolism. This study provides important evidence and clues for revealing the botanical effect mechanism of hydrogen and a theoretical basis for the application of hydrogen agriculture in the cultivation of Chinese herbal medicine.

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Integrated transcriptomic and metabolomic data reveal the flavonoid biosynthesis metabolic pathway in Perilla frutescens (L.) leaves

Cited by 48 publications

References 52 publications

Integration of Transcriptome and Metabolome Provides New Insights to Flavonoids Biosynthesis in Dendrobium huoshanense

Integration of Transcriptome and Metabolome Provides New Insights to Flavonoids Biosynthesis in Dendrobium huoshanense

Defense responses of arbuscular mycorrhizal fungus-colonized poplar seedlings against gypsy moth larvae: a multiomics study

Integrated Metabolomic and Transcriptomic Analyses to Understand the Effects of Hydrogen Water on the Roots of Ficus hirta Vahl

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