Next Generation Sequencing Facilitates Quantitative Analysis of Wild-type (WT) and Uba3fl/fl-Lck Cre+ (KO) splenic CD44hiCD4+ T cell transcriptomes

We analyze the impact of T cell-specific deletion of Uba3 gene on CD4+ T cell responses during Plasmodium infection using the RNA-seq techonology. We isolated CD44hiCD4+ T cells in spleens from wild-type (WT) and Uba3fl/fl-LckCre+ (KO)mice at day 5 of Plasmodium yoelii 17XNL infection. RNA samples were prepared for deep-sequencing on an Illumina Hiseq platform and 150 bp paired-end reads were generated.Quanlity control was performed to generate high quality data for further analysis.By comparing gene expression levels of different CD4+ T cell lineages, we observed defects in the expression of several signature genes that related to Th1 and Tfh responses in KO mice. Splenic CD44hiCD4+ T cell mRNA profiles of day 5 Plasmodium yoelii 17XNL-infected wild-type (WT) and Uba3fl/fl-Lck Cre+ (KO) mice were generated by deep sequencing using Illumina Hiseq platform.