Comparison of Transcriptomes of Wild Type and Paraquat-treated cells by Next Generation RNA Sequencing. Comparison of Transcriptomes of Wild Type and Paraquat-treated cells by Next Generation RNA Sequencing

We use RNAseq to compare the transcriptomes of wild type and cells treated with 2.5 mM paraquat (PQ) for 8 hr. We find that PQ treatment results in changes in the transcripts for hundreds of genes. A notable subset of PQ-induced transcripts encodes proteins activated by the retrograde response pathway. This pathway is activated by ETC dysfunction and regulates carbohydrate metabolism to increase synthesis of biosynthetic intermediates through pathways including the TCA cycle, glutamine biosynthetic pathway, and isocitrate metabolism. Transcripts encoding oxidative stress response proteins (e.g. amino acid and iron transporters and siderophores) are also more abundant in PQ-treated cells. Overall design: mRNA profiles of mid-log wild type (WT) yeast cells and cells with 2.5 mM PQ treatment were generated by deep sequencing

本研究采用RNA测序（RNAseq）技术，对比野生型酵母细胞与经2.5 mM百草枯（PQ）处理8小时的酵母细胞的转录组。我们发现，百草枯处理会导致数百个基因的转录本发生表达变化。值得注意的是，百草枯诱导的转录本中有一个子集编码由逆行响应通路（retrograde response pathway）激活的蛋白质。该通路由电子传递链（ETC）功能障碍激活，通过包括三羧酸循环（TCA cycle）、谷氨酰胺生物合成途径以及异柠檬酸代谢在内的多条通路调控碳水化合物代谢，以增加生物合成中间体的合成。编码氧化应激响应蛋白（如氨基酸转运蛋白、铁转运蛋白以及铁载体）的转录本在百草枯处理的细胞中也更为丰富。整体设计：本研究通过深度测序（deep sequencing）构建了对数中期野生型（WT）酵母细胞以及经2.5 mM百草枯处理的酵母细胞的mRNA表达谱。