Fig 1.
Microscopic observation was performed on ovules at the fiber initiation stage of 142-WT and 142-fl mutants by scanning electron microscopy (SEM).
SEM images of ovules at 0, 1, and 2 DPA in 142-WT (left) and 142-fl (right) were captured. All ovules were collected from the same location on comparably located cotton bolls on each plant. Scale bar graphs are shown at magnifications of 300 μm and 80 μm.
Fig 2.
Differentially expressed genes (DEGs) between 142-WT and 142-fl and between the three periods of 142-WT.
(A) Difference comparison determines the number of up-regulation and down-regulation of DEGs. (B) Venn diagram showing DEGs during the 142-WT1 period. (C) Venn diagram showing DEGs during the 142-WT2 period. (D) Total number of non-redundant DEGs in 142-WT0, WT1, and WT2 periods.
Fig 3.
GO enrichment analysis of 0DPA, 1DPA, and 2DPA stage DEGs initiated by 142-W fiber. WT0, WT1, and WT2 represent the top 15 GO terms in the initial 0DPA, 1DPA, and 2DPA periods of the 142-WT optical fiber, respectively.
Fig 4.
Hierarchical cluster tree and Module-sample association relationship.
(A) Hierarchical cluster tree showing co-expression modules identified by WGCNA. Each leaf on the tree represents a gene. Each major branch represents a module, with a total of 16 modules marked with different colors. (B) Module-sample association relationship. Each row corresponds to a module, labeled with the same color as in Figure (A). The number of genes in each module is shown next to the module name. Each column corresponds to a specific organization. The correlation coefficient and P value between the module and the sample or tissue are displayed at the intersection of rows and columns.
Fig 5.
KEGG enrichment analysis and co-expression network analysis.
(A) Gene expression trend of Turquoise module. WT0, WT1, and WT2 represent the 0 DPA, 1 DPA, and 2 DPA developmental stages of 142-WT fibers, respectively. Similarly, fl0, fl1, and fl2 denote the 0 DPA, 1 DPA, and 2 DPA developmental stages of 142-fl fibers, respectively. (B) KEGG enrichment analysis of Turquoise module. (C) Co-expression network analysis of Turquoise modules. Red circles represent hub genes and transcription factors, and light blue circles represent hub genes.
Fig 6.
Analysis of fatty acid elongation pathways.
(A) Fatty acid elongation pathway. (B) Expression pattern of DEGs during fatty acid elongation. The rectangles represent the expression changes of DEGs.WT0, WT1, and WT2 represent the 0 DPA, 1 DPA, and 2 DPA developmental stages of 142-WT fibers, respectively. Similarly, fl0, fl1, and fl2 denote the 0 DPA, 1 DPA, and 2 DPA developmental stages of 142-fl fibers, respectively.