Genome-scale transcription-translation mapping reveals features of Zymomonas mobilis transcription units and promoters

Limited functional annotation of the Z. mobilis genome is a current barrier to both basic studies of Z. mobilis and its development as a synthetic-biology chassis. To gain insight, we collected sample-matched multiomics data including RNA-seq, transcription start site sequencing (TSS-seq), termination sequencing (term-seq), ribosome profiling, and label-free shotgun proteomic mass spectrometry across different growth conditions to improve annotation and assign functional sites in the Z. mobilis genome. Proteomics and ribosome profiling informed revisions of protein-coding genes, which included 44 start codon changes and 42 added proteins.

运动发酵单胞菌（Z. mobilis）基因组的功能注释不足，这既是制约该菌基础研究的瓶颈，也是限制其作为合成生物学底盘开发的关键障碍。为获取相关研究见解，我们采集了不同生长条件下的匹配样本多组学数据，涵盖RNA测序（RNA-seq）、转录起始位点测序（TSS-seq）、转录终止测序（term-seq）、核糖体谱分析以及无标记鸟枪法蛋白质组质谱，以优化基因组注释并确定运动发酵单胞菌基因组中的功能位点。蛋白质组学与核糖体谱分析为蛋白质编码基因的修订提供了支撑，本次修订包含44个起始密码子的修正以及42个新增蛋白质的注释。