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ABSTRACT:
PROVIDER: PRJNA1175636 | ENA |
REPOSITORIES: ENA
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Project description:Integrated metabolomic and transcriptomic analyses reveal different anthocyanin biosynthetic pathways in Fragaria nilgerrensis and Fragaria pentaphylla
| PRJNA606938 | ENA
Project description:Polygonatum odoratum (MILL.) DRUCE is rich in bioactive components with high medicinal value. To maximize the clinical benefits, it is of great significance to efficiently extract key bioactive components from appropriate growth stages in which they are most abundant. In this study, we analyzed the changes of metabolite accumulation and protein expression in P. odoratum rhizomes at different growth stages using targeted metabolomics combined with proteomics, and identified a total of 1,237 differentially abundant metabolites (DAMs). Flavonoids accumulated most in winter, and the biosynthesis pathways associated with flavonoids, isoflavonoids, flavones and flavonols exhibited significant differentially expressed proteins (DEPs). Among them, PGT, FLS, CYP75B1, HIDH, IF7MAT, and UFT73C6 were positively correlated with flavonoid accumulation. Steroid saponins accumulated most in spring, and the biosynthetic pathways of steroid and brassinosteroid biosynthesis exhibited DEPs. Among them, FDFT1, TM7SF2, DHCR7, CAS1, and 3BETAHSDD were positively correlated with steroidal saponin accumulation. In summary, these results revealed the accumulation of secondary metabolites P. odoratum in different growth stages, which can provide an effective reference for the extraction of specific bioactive components and the study of their regulatory mechanisms.
2024-12-13 | PXD058889 |
Project description:Polygonatum odoratum (MILL.) DRUCE is rich in bioactive components with high medicinal value. To maximize the clinical benefits, it is of great significance to efficiently extract key bioactive components from appropriate growth stages in which they are most abundant. In this study, we analyzed the changes of metabolite accumulation and protein expression in P. odoratum rhizomes at different growth stages using targeted metabolomics combined with proteomics, and identified a total of 1,237 differentially abundant metabolites (DAMs). Flavonoids accumulated most in winter, and the biosynthesis pathways associated with flavonoids, isoflavonoids, flavones and flavonols exhibited significant differentially expressed proteins (DEPs). Among them, PGT, FLS, CYP75B1, HIDH, IF7MAT, and UFT73C6 were positively correlated with flavonoid accumulation. Steroid saponins accumulated most in spring, and the biosynthetic pathways of steroid and brassinosteroid biosynthesis exhibited DEPs. Among them, FDFT1, TM7SF2, DHCR7, CAS1
2024-12-14 | PXD058887 |
Project description:We have performed a transcriptome analysis of genes at three different ripening stages of the pink-white fruits and the ripe stage of the red fruits of Chinese bayberry. This analysis provided a total of 119,701 unigenes, of which 41.43% were annotated in the Nr database. Our results showed that the formation of the pink-white color in Chinese bayberry fruits depended on the anthocyanin metabolic pathway, regulated by MYB1. Downregulated expression of key anthocyanin biosynthetic pathway genes, such as UFGT, F3’H, and ANS at the late stage of fruits development compared with DK3 fruits resulted in the failure to form red fruits. Our findings shed light on the regulatory mechanisms and metabolic processes that control color development in the fruits of Chinese bayberry.
2018-10-09 | GSE120925 | GEO
Project description:Biofilms are structured communities of tightly associated cells that constitute thepredominant state of bacterial growth in naturaland human-madeenvironments. Although the core genetic circuitry that controls biofilm formation in model bacteria such as Bacillus subtilishas been well characterized, little is known about the role that metabolism plays in this complex developmental process. Here, weperformed a time-resolved analysisof the metabolic changes associated with pellicle biofilm formation and development inB. subtilisby combining metabolomic, transcriptomic, and proteomic analyses. We report a surprisingly widespread and dynamic remodeling of metabolism affecting central carbon metabolism, primary biosynthetic pathways, fermentation pathways, and secondary metabolism. Most of these metabolic alterations were hithertounrecognized as biofilm-associated.For example, we observed increased activity of the tricarboxylic acid (TCA) cycle during early biofilm growth, a shift from fatty acid biosynthesis to fatty acid degradation, reorganization of iron metabolism and transport, and a switch from acetate to acetoin fermentation. Close agreement between metabolomic, transcriptomic, and proteomic measurements indicated that remodeling of metabolism during biofilm development was generally controlled at the transcriptional level. Our resultsalsoprovide insights into the transcription factors and regulatory networks involved in thiscomplexmetabolic remodeling. Following upon these results, we demonstrate that acetoin production via acetolactate synthase is essential for robust biofilm growthand has the dual role of conservingredox balance and maintaining extracellularpH.This study represents a comprehensive systems-level investigation of the metabolic remodeling occurring during B. subtilisbiofilm development that will serve as a useful roadmap for future studies on biofilm physiology.
2019-04-30 | PXD013307 | Pride
Project description:Grapevine is a popular fruit crop worldwide with essential economic importance. The grape berry undergoes complex biochemical changes from fruit set until ripening. To better understand this dynamic process, we applied mass spectrometry based platforms to analysis the metabolome and proteome of grape berries at 12 developmental stages covering the whole developmental process of grape berries. Primary metabolites involved in central carbon metabolism such as sugars, organic acids and amino acids metabolism together with various bioactive secondary metabolites like flavonols, flavan-3-ols and anthocyanins were annotated and quantified. At the same time, the proteomic analysis revealed the protein dynamics of the developing grape berries. Multivariate statistical analysis of the metabolomic and proteomic data revealed growing trajectories with minor difference indicating that grape berry development is a sequential process resulting in changes in all examined processes. The incorporation of the metabolomic and proteomic results allowed us to schematize representative metabolome and proteome candidates on sugar, glycolysis, TCA cycle, amino acid, phenylpropanoid, flavonoid biosynthetic pathways. The overview of the metabolism dynamics on both protein and metabolite level unveiled the metabolism switch and adjustments during grape berry development.
2018-10-18 | PXD003769 | Pride