Poster Presentation 46th Lorne Genome Conference 2025

scRNA-sequencing of KLF3-/- mice spleens (#102)

Holly Adams 1 , Andrew Perkins 1 , Jessica Salmon 1
  1. Monash University, Melbourne, VIC, Australia

Krüppel-like factor 3 (KLF3) is a transcription factor known to repress a range of inflammatory genes in immune cells. Mice without KLF3 (KLF3-/-) are seen to have an inflammatory phenotype with increased white blood cells, disproportionate T cell subsets and inflamed ears. Two KLF3-/- spleens and two KLF3+/+ spleens underwent fixation, barcoding and library preparation using the PARSE Biosciences Evercode WT single cell whole transcriptome kit before being sequenced. Analysis was conducted using Seurat in RStudio. UMAP analysis revealed 21 populations. Closer comparison of the T cell populations display that the KLF3-/- CD8+ T cells are distinct from the WT cells and have 177 genes significantly differentially expressed (adjusted p-value < 0.05) when comparing the two populations. Genes of interest that were identified as being differentially expressed include Mal and Kcnh5, which were further validated using RT-qPCR. Klf8, a known target gene of KLF3 also in the KLF family, was also upregulated as well as Klf12. Both are transcriptional repressors like KLF3 and may indicate a complicated network of KLFs and redundancy amongst the repressors. Future research such as ChIP can be used to further determine if KLF3 is directly binding to these genes and further functional assays should be conducted to determine how the changes in gene expression affect T cell functionality.