Fig. 3: Differentially expressed gene analysis indicates neutrophils of Lrrk2 G2019S-infected mice have an increased pro-inflammatory profile.
Male and female Lrrk2 G2019S and WT mice (male-to-female ratio = 0.5) were gavaged once with ~1 × 109 CFUs of C. rodentium. A Differential gene expression (DEG) analysis comparing G2019S and WT-infected mice for each immune cell cluster calculated using Seurat differential expression analysis by non-parametric Wilcoxon rank sum test with Bonferroni correction. Adjusted P value cut off = 0.05, Q value cut off = 0.2. Upregulated genes are depicted as red in the heatmap, and downregulated genes are depicted in blue. B Pathway enrichment analysis completed on DEGs obtained by comparing G2019S and WT-infected neutrophils. DEGs were run against Gene ontology (GO) biological pathways database using ClusterProfiler V4.12.6 (RRID:SCR_016884). P value cut off = 0.05, Q value cut off = 0.2. Top 30 GO term categories are depicted as a Treeplot (Left). Cnetplots depict association of differentially expressed gene hits, and which GO term pathways they correspond to (Right). scRNAseq was obtained from pooled conditions of n = 3 mice per group. One independent experiment is presented.
