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Transcriptomic analysis of Oncidium Twinkle 'Red Fantasy' at different time points within 24 h (under 12 h light/ 12 h dark). (a) Principal component analysis (PCA) plot showed overall differences among six groups (2:00, 6:00, 10:00, 14:00, 18:00, and 22:00) and the variability between intra-group samples. (b) Heatmap of differentially expressed genes (DEGs) sorted by K-means clustering across the samples collected at different time points. The numbers 1, 2, and 3 with each sample represented number of replicates. (c) Eight K-means clusters (Clusters 1-8) showed differential expression trends of DEGs at different time points. (d) KEGG enrichment analysis of DEGs in Cluster 4. The red boxes indicate metabolic pathways related to aroma rhythm release. (e) KEGG enrichment analysis of DEGs in Cluster 6. The red boxes indicate metabolic pathways related to aroma rhythm release. (f) KEGG enrichment analysis of DEGs in Cluster 8. The red boxes indicate metabolic pathways related to aroma rhythm release.
Source publication
Oncidium hybridum is one of the important cut-flowers in the world. However, the lack of aroma in its cut-flower varieties greatly limits the sustainable development of the Oncidium hybridum cut-flowers industry. This paper is an integral investigation of the diel pattern and influencing factors of the aroma release of Oncidium Twinkle ‘Red Fantasy...
Contexts in source publication
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... order to obtain insights into the diel rhythm changes of floral VOCs biosynthesis of Oncidium Twinkle 'Red Fantasy', transcriptomic analysis at different time points within 24 h (under 12 h light/12 h dark) was performed. Principal component analysis (PCA) demonstrated that samples were well discriminated according to the classification of different time points, and clustered mainly according to three biological replicates ( Figure 2a). The heatmap and hierarchical clustering showed different patterns of gene expression during the diel rhythm (from 2:00 to 22:00) (Figure 2b). ...
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... component analysis (PCA) demonstrated that samples were well discriminated according to the classification of different time points, and clustered mainly according to three biological replicates ( Figure 2a). The heatmap and hierarchical clustering showed different patterns of gene expression during the diel rhythm (from 2:00 to 22:00) (Figure 2b). Among them, the time points of ante meridiem (2:00, 6:00 and 10:00) and post meridiem (14:00, 18:00, and 22:00) were clustered, respectively. ...
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... used the K-means clustering algorithm to classify the different characteristics of differentially expressed genes (DEGs). Eight different expression clusters (Cluster 1 to Cluster 8) were directly exhibited, with 1818,958,1111,2341,1773,878,815, and 1476 members, respectively (Figure 2c). Based on the change in the contents of key aroma compounds and gene expression profiles, we found that the gene expressions in Cluster 6 and Cluster 8 reached their peak at 14:00 and 10:00, respectively. ...
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... on the change in the contents of key aroma compounds and gene expression profiles, we found that the gene expressions in Cluster 6 and Cluster 8 reached their peak at 14:00 and 10:00, respectively. This was similar to the trend of changes in the aroma content of Oncidium Twinkle 'Red Fantasy' (Figure 2c). In addition, the expression of genes regulating aroma synthesis may precede the release of aroma. ...
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... addition, the expression of genes regulating aroma synthesis may precede the release of aroma. Therefore, we focused on the functional annotation of genes in Cluster 4, Cluster 6, and Cluster 8 ( Figure 2d). The content of 3-Carene peaked at 10:00, and the gene expression of Cluster 4 and Cluster 8 peaked at 6:00 and 10:00, respectively. ...
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... fatty acids are catabolized via the LOX pathway to form intermediates of 9-hydroperoxide and 13-hydroperoxide [5]. A total of 21 genes were found to be differentially expressed at 6:00 vs. 2:00, 10:00 vs. 2:00, 14:00 vs. 2:00, 18:00 vs. 2:00, 22:00 vs. 2:00, 10:00 vs. 6:00, 14:00 vs. 6:00, 18:00 vs. 6:00, 22:00 vs. 6:00, 14:00 vs. 10:00, 18:00 vs. 10:00, 22:00 vs. 10:00, 18:00 vs. 14:00, 22:00 vs. 14:00, and 22:00 vs. 18:00 at different steps of LOX pathway ( Figure S2a). Among the 21 differentially enriched genes, the highly expressed genes were mainly concentrated at 14:00 (38.10%), while the remaining genes highly expressed at 2:00, 6:00, 10:00, and 18:00 were 9.52%, 23.80%, 14.29%, and 14.29%, respectively. ...
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... 2024, 13, x FOR PEER REVIEW 7 of 21 and 13-hydroperoxide [5]. A total of 21 genes were found to be differentially expressed at 6:00 vs. 2:00, 10:00 vs. 2:00, 14:00 vs. 2:00, 18:00 vs. 2:00, 22:00 vs. 2:00, 10:00 vs. 6:00, 14:00 vs. 6:00, 18:00 vs. 6:00, 22:00 vs. 6:00, 14:00 vs. 10:00, 18:00 vs. 10:00, 22:00 vs. 10:00, 18:00 vs. 14:00, 22:00 vs. 14:00, and 22:00 vs. 18:00 at different steps of LOX pathway ( Figure S2a). Among the 21 differentially enriched genes, the highly expressed genes were mainly concentrated at 14:00 (38.10%), while the remaining genes highly expressed at 2:00, 6:00, 10:00, and 18:00 were 9.52%, 23.80%, 14.29%, and 14.29%, respectively. ...
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... this study, structural genes encoding enzymes involved in these two pathways were isolated, and their expression levels were evaluated at six time points within 24 h (2:00, 6:00, 10:00, 14:00, 18:00, and 22:00). In the MVA pathway and MEP pathway, a total of 46 structural genes related to terpenoid synthesis were differentially enriched ( Figure S2b). Among the 46 differentially enriched genes, most of them had the highest expression at 6:00 (34.78%) or 10:00 (28.26%). ...
