Fig 1.
Age-related modifications in the whole transcriptome and biological pathways of the MFP tissue of the breast cancer mouse model.
A) Experimental design of the dietary groups. AL group followed an ad libitum diet (no restriction) throughout the study. CCR group was applied to 15% caloric restriction throughout the study. ICR group was applied to 3 weeks of ad libitum feeding followed by 1 week of 60% caloric restriction, cyclically. Samples were collected at weeks 10 (baseline), 49 or 50 (adult), and 81 or 82 (old). AL: ad libitum, CCR: chronic caloric restriction, ICR: intermittent caloric restriction, ICR-R: intermittent caloric restriction-restricted, ICR-RF: intermittent caloric restriction-refed.B) PCA analysis of the samples belong to AL group at different time points. C) Heatmap displays the unsupervised hierarchical clustering of the expression patterns of the top 30 most variable genes in the AL group at different time points. D-E) Volcano graphs display the differentially expressed genes (DEGs) compared to the baseline levels at adult and old age, respectively. F) Network plot displays the relationship between the enriched pathways of downregulated genes with adult AL compared to the baseline, with adjusted p-values. PC: Principal component. For volcano graphs, absolute log2 fold-change value of > 1 and adjusted p value of 0.1 were considered statistically significant.
Fig 2.
Mid-term effects of the different dietary interventions in the MFP tissue transcriptome and the biological pathways of the breast cancer mouse model in the adult age.
A) PCA analysis of the samples belong to different dietary groups at adult age. B) Heatmap displays the unsupervised hierarchical clustering of the expression patterns of the top 30 most variable genes in different dietary groups at adult age. C) Network plot displays the relationship between the upregulated genes in the CCR group and the enriched pathways. D) Volcano graph displays the DEGs between ICR-R and AL group, at adult age. E) Upset plot represents the enriched pathways of the DEGs in the ICR-R group in adult mice, with the common gene counts. F) Tree plot represents the enriched pathways of downregulated genes in the ICR-R group in adult mice. PC: Principal component. For volcano graphs, absolute log2 fold-change value of > 1 and adjusted p value of 0.1 were considered statistically significant.
Fig 3.
Long-term effects of the different dietary interventions in the MFP tissue transcriptome and the biological pathways of the breast cancer mouse model at old age.
A) PCA analysis of the samples belong to different dietary groups at old age. B) Heatmap displays the unsupervised hierarchical clustering of the expression patterns of the top 30 most variable genes in different dietary groups at old age. C) Volcano graph displays the DEGs in the ICR-R group compared to AL group at old age. D) Tree plot represents the hierarchical clustering of the enriched pathways of the DEGs in the ICR-R group. E) Network plot display the connection of genes with the enriched pathways in ICR-R group at old age. PC: Principal component. For volcano graphs, absolute log2 fold-change value of >2 and adjusted p value of 0.1 were considered statistically significant. F) Heat plot displays the relationship between the DEGs and the enriched pathways with fold-change values.