GSE169204
Next Generation Sequencing of wild type N2 and pan-neuronal overexpression of a-syn C. elegans fed with K12 BW25113 and csgA(-) bacteria
The goal of this study is to extract differentially expressed genes between K12 BW25113 and csgA(-) fed N2 and PD C. elegans. Methods: mRNA profile of K12 BW25113 and csgA(-) fed N2 and UM10 strains were generated by deep sequencing in duplicates, using BGISEQ-500. Around 20 million reads were obtained for each sample and the reads were aligned to the C. elegans genome (WS235) using STAR 2.7. To identify genes differentially expressed, the transcript counts were analyzed using DESeq2, and genes with false discovery rate–corrected p values (q values) below 0.05 and fold change above 2 or below 0.5 were identified. qRT–PCR validation was performed using TB Green Premix Ex Taq kit. Overall design: Transcriptome profile of N2 and PD model of C. elegans UM10 fed with K12 BW25113 and csgA(-) bacteria at L4 stage.