De novo transcriptome assembly and metabolomic analysis of three tissue types in Cinnamomum cassia

Gao, Hongyang; Zhang, Huiju; Hu, Yuqing; Xu, Danyun; Zheng, Sikai; Su, Shuting; Yang, Quan

doi:10.1016/j.chmed.2022.06.013

Cited by 6 publications

(13 citation statements)

References 21 publications

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“…3a). There were differences among the four pairwise comparisons for DEGs (|log 2 fold change|≥1, p < 0.05); the minimum DEGs (16,210) were in the 36 vs. 60 stage, with 7708 upregulated and 8502 downregulated genes, while the maximum number (19,720) were in the 36 vs. 360 period, with 8895 upregulated and 10,825 downregulated genes (Fig. 3b).…”

Section: Transcriptome Analysis Of C Cassiabarks At Different Harvest...mentioning

confidence: 98%

“…macrophyllum Chu relative to C. cassia [3]. Key candidate genes associated with the biosynthesis of phenylpropanoids and flavonoids in C. cassia were identified from three tissue types: bark, leaves, and branches [16]. The mevalonic acid (MVA) and methylerythritol phosphate (MEP) pathways are two alternative, compartmentally separated pathways in terpenoid biosynthesis [17,18].…”

Section: Introductionmentioning

confidence: 99%

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Integrated transcriptomics and metabolomics analysis provides insights into aromatic volatiles formation in Cinnamomum cassia bark at different harvesting times

Yao,

Tan,

Huang

et al. 2024

BMC Plant Biol

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Background Cinnamomum cassia Presl, classified in the Lauraceae family, is widely used as a spice, but also in medicine, cosmetics, and food. Aroma is an important factor affecting the medicinal and flavoring properties of C. cassia, and is mainly determined by volatile organic compounds (VOCs); however, little is known about the composition of aromatic VOCs in C. cassia and their potential molecular regulatory mechanisms. Here, integrated transcriptomic and volatile metabolomic analyses were employed to provide insights into the formation regularity of aromatic VOCs in C. cassia bark at five different harvesting times. Results The bark thickness and volatile oil content were significantly increased along with the development of the bark. A total of 724 differentially accumulated volatiles (DAVs) were identified in the bark samples, most of which were terpenoids. Venn analysis of the top 100 VOCs in each period showed that twenty-eight aromatic VOCs were significantly accumulated in different harvesting times. The most abundant VOC, cinnamaldehyde, peaked at 120 months after planting (MAP) and dominated the aroma qualities. Five terpenoids, α-copaene, β-bourbonene, α-cubebene, α-funebrene, and δ-cadinene, that peaked at 240 MAP could also be important in creating C. cassia’s characteristic aroma. A list of 43,412 differentially expressed genes (DEGs) involved in the biosynthetic pathways of aromatic VOCs were identified, including phenylpropanoids, mevalonic acid (MVA) and methylerythritol phosphate (MEP). A gene-metabolite regulatory network for terpenoid and phenylpropanoid metabolism was constructed to show the key candidate structural genes and transcription factors involved in the biosynthesis of terpenoids and phenylpropanoids. Conclusions The results of our research revealed the composition and changes of aromatic VOCs in C. cassia bark at different harvesting stages, differentiated the characteristic aroma components of cinnamon, and illuminated the molecular mechanism of aroma formation. These foundational results will provide technical guidance for the quality breeding of C. cassia.

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Section: Transcriptome Analysis Of C Cassiabarks At Different Harvest...mentioning

confidence: 98%

Section: Introductionmentioning

confidence: 99%

Integrated transcriptomics and metabolomics analysis provides insights into aromatic volatiles formation in Cinnamomum cassia bark at different harvesting times

Yao,

Tan,

Huang

et al. 2024

BMC Plant Biol

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“…The content differences of active components such as active flavonoids in bark, branches and leaves of C . cassia were revealed, and the differentially expressed genes that may affect the synthesis of active components in cinnamon were identified ( Gao et al., 2023 ). However, there is a lack of extensive and comprehensive research on the synthesis of effective substances in C .…”

Section: Introductionmentioning

confidence: 99%

Integrated metabolomic and transcriptomic analyses revealed metabolite variations and regulatory networks in Cinnamomum cassia Presl from four growth years

Gao,

Shi,

Zhang

et al. 2024

Front. Plant Sci.

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To understand the mechanism of the dynamic accumulation of active ingredients in Cinnamomum cassia Presl, metabolomic and transcriptomic analyses of 5~8 years old C. cassia were performed. A total of 72 phenylpropanoids, 146 flavonoids, and 130 terpenoids showed marked changes. Most phenylpropanoids and flavonoids showed markedly higher abundances in 6-year-old C. cassia than in others, which was related to the higher expression of genes that synthesize and regulate phenylpropanoids and flavonoid. We identified transcription factors (TFs) and genes involved in phenylpropanoids and flavonoids synthesis and regulation through co-expression network analyses. Furthermore, most of the terpenoids in 5-year-old C. cassia showed markedly higher abundances than in others, which was due to the differentially expressed genes upstream of the terpenoids pathway. The results of our study provide new insights into the synthesis and accumulation of phenylpropanoid, flavonoids and terpenoids in C. cassia at four growth stages.

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“…Considering this situation, metabolomics is an advantageous technique for identifying potential biomarkers of diseases, which can provide a reference for finding potential biomarkers for EC screening and diagnosis 10,11 . In recent years, metabolomics technology has been widely used in the study of EC, revealing the metabolic level disorder in human EC.…”

Section: Introductionmentioning

confidence: 99%

“…9 Considering this situation, metabolomics is an advantageous technique for identifying potential biomarkers of diseases, which can provide a reference for finding potential biomarkers for EC screening and diagnosis. 10,11 In recent years, metabolomics technology has been widely used in the study of EC, revealing the metabolic level disorder in human EC. For example, in our previous study, we used two independent cohorts based on two centres to screen and verify potential biomarkers in the serum of EC, highlighting the importance of lipid metabolites as diagnostic biomarkers of EC.…”

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confidence: 99%

Metabolomics biomarkers and related pathways in endometrial cancer: A systematic review and meta‐analysis

Yan,

Zhao,

et al. 2024

J Cellular Molecular Medi

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Endometrial cancer (EC) is the fourth most common malignant tumour afflicting postmenopausal women in the world. Although advances have been made in the metabolomics of EC, the controversial findings limited the clinical applicability of the research results. Therefore, we aimed to reveal metabolic characteristics disorders in EC. We included studies comparing metabolite levels between EC and controls by searching PubMed, EMBASE, Cochrane Library, Web of Science and other source databases. Biomarkers and metabolic pathways were subjected to meta‐analysis by calculating the standardized mean difference (SMD) with 95% confidence intervals (CI), and summarizing the effect size using the inverse variance random effect model. Thirty studies identified the differential metabolites of EC. A total of 8 studies involved 4,006 participants with good quality were included. In terms of biomarkers, estrone and proline increased significantly in EC, while glutamine and phosphatidylcholine diacyl C32:2 decreased significantly in EC, with low heterogeneity. In terms of metabolic pathways, the levels of branched‐chain amino acid metabolism and sphingolipid metabolism increased significantly in EC with low heterogeneity. This review highlights the significance of above four biomarkers and two metabolic pathways in EC, which will help to realize the accurate screening and diagnosis of EC.

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De novo transcriptome assembly and metabolomic analysis of three tissue types in Cinnamomum cassia

Cited by 6 publications

References 21 publications

Integrated transcriptomics and metabolomics analysis provides insights into aromatic volatiles formation in Cinnamomum cassia bark at different harvesting times

Integrated transcriptomics and metabolomics analysis provides insights into aromatic volatiles formation in Cinnamomum cassia bark at different harvesting times

Integrated metabolomic and transcriptomic analyses revealed metabolite variations and regulatory networks in Cinnamomum cassia Presl from four growth years

Metabolomics biomarkers and related pathways in endometrial cancer: A systematic review and meta‐analysis

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