Bharti Richa, Siebert Daniel, Blombach Bastian, Grimm Dominik G
Technical University of Munich, Campus Straubing for Biotechnology and Sustainability, Bioinformatics, Petersgasse 18, 94315 Straubing, Germany.
Weihenstephan-Triesdorf University of Applied Sciences, Petersgasse 18, 94315 Straubing, Germany.
NAR Genom Bioinform. 2022 Sep 27;4(3):lqac074. doi: 10.1093/nargab/lqac074. eCollection 2022 Sep.
Transcriptional-translational coupling is accepted to be a fundamental mechanism of gene expression in prokaryotes and therefore has been analyzed in detail. However, the underlying genomic architecture of the expression machinery has not been well investigated so far. In this study, we established a bioinformatics pipeline to systematically investigated >1800 bacterial genomes for the abundance of transcriptional and translational associated genes clustered in distinct gene cassettes. We identified three highly frequent cassettes containing transcriptional and translational genes, i.e. (gene cassette 1; in 553 genomes), (gene cassette 2; in 656 genomes) and (gene cassette 3; in 877 genomes). Interestingly, each of the three cassettes harbors a gene ( and ) encoding a protein which links transcription and translation in bacteria. The analyses suggest an enrichment of these cassettes in pathogenic bacterial phyla with >70% for cassette 3 (i.e. , and ) and >50% for cassette 1 (i.e. , , and ) and cassette 2 (i.e. , , and ). These insights form the basis to analyze the transcriptional regulatory mechanisms orchestrating transcriptional-translational coupling and might open novel avenues for future biotechnological approaches.
转录-翻译偶联被认为是原核生物基因表达的一种基本机制，因此已被详细分析。然而，迄今为止，表达机制潜在的基因组结构尚未得到充分研究。在本研究中，我们建立了一个生物信息学流程，系统地研究了1800多个细菌基因组中聚集在不同基因盒中的转录和翻译相关基因的丰度。我们鉴定出三个含有转录和翻译基因的高频基因盒，即（基因盒1；存在于553个基因组中）、（基因盒2；存在于656个基因组中）和（基因盒3；存在于877个基因组中）。有趣的是，这三个基因盒中的每一个都含有一个编码连接细菌转录和翻译的蛋白质的基因（和）。分析表明，这些基因盒在致病细菌门类中富集，基因盒3（即、和）的富集率超过70%，基因盒1（即、、和）和基因盒2（即、、和）的富集率超过50%。这些见解为分析协调转录-翻译偶联的转录调控机制奠定了基础，并可能为未来的生物技术方法开辟新途径。
