Journal: bioRxiv
Article Title: Synthetic Immunological Niche Reveals Early Immune Dysregulation and Stratifies Therapeutic Response in Type 1 Diabetes
doi: 10.64898/2026.03.06.710219
Figure Lengend Snippet: a, Experimental design: Female Non-Obese Diabetic (NOD) mice were implanted with the scaffolds at 4 weeks of age. Scaffold based immunological niches (INs) were explanted at early (∼6 weeks), intermediate (∼11-15 weeks), and late (∼16-20 weeks) stages to characterize immune and transcriptomic changes in diabetic progressors (blood glucose ≥250 mg/dl) versus non-progressors (normoglycemic). b, Blood glucose levels per mice over time: By 30 weeks, the progressors mice developed hyperglycemia (blood glucose ≥250mg/dl), while the non-progressors remained normoglycemic). c-f, Intraperitoneal Glucose Tolerance Test (IPGTT) in progressor (n-5) vs non-progressor (n=4) at c, early, d, intermediate, e, late stage and f, AUC for progressor vs non-progressor across each stage. Statistical analysis was performed using multiple unpaired t-tests with single pooled variance. Data are shown as mean ± SEM. g–n, Immune cell composition in the IN analyzed by flow cytometry as fraction of CD45+ immune cells: g, Myeloid cells h, macrophages i, M2-like macrophages (CD206⁺CD163⁺) j, PD-L1⁺ k, T cells, l, CD4⁺ T cells, m, CD8⁺ T cells, n, PD-1⁺ CD4⁺ T cells as a fraction of total immune cells. Statistical analysis was performed using a mixed-effects model with the Geisser-Greenhouse correction, followed by Tukey’s multiple-comparison test, with individual variances computed for each comparison. Data are shown as mean ± SEM (n = 5-14 per group). o–q, Differential Gene Expression Analysis of IN transcriptomics across disease stages: Volcano plots of DEGs (p ≤ 0.05, |log₂FC| ≥ 1) in progressors vs non-progressors at o, early (n = 16-24 per group), p, intermediate (n = 10 per group), and q, late (n = 4-10 per group) stages. Axes were constrained for visualization (log₂FC: -8 to 8; -log 10 (p): 0 to 6). r, Genset enrichment analysis across disease stages: Dotplot of selected enriched pathways in progressor vs non-progressor (FDR ≤ 0.1, |NES| ≥ 1 in at least one stage). s, Venn Diagrams showing limited overlap between of IN based early stage T1D DEGs with IN based DEGs from 4T1 Breast cancer and Experimental Autoimmune Encephalomyelitis model t, Double Volcano Plot showing fold changes of IN based early stage DEGs in spontaneous NOD T1D model compared to IN DEGs from Adoptive Transfer T1D model. Genes colored show differential expression (p ≤ 0.05, |log₂FC| ≥ 1). Axes were constrained to ±5 log₂FC for visualization.
Article Snippet: Female non-obese diabetic (NOD/ShiLtJ, strain #001976; The Jackson Laboratory) mice were used due to their higher incidence of type 1 diabetes ( ).
Techniques: Flow Cytometry, Comparison, Gene Expression, Transcriptomics, Adoptive Transfer Assay, Quantitative Proteomics