Journal Article

Genome-scale analysis of syngas fermenting acetogenic bacteria reveals the translational regulation for its autotrophic growth

Kim, Dong Rip, Lee, Jung-Kul, Kim, Sun Chang, Song, Yoseb, Cho, Byung-Kwan, Jin, Sangrak, Cho, Suhyung, Shin, Jongoh

2018

Overview

Background Acetogenic bacteria constitute promising biocatalysts for the conversion of CO 2 /H 2 or synthesis gas (H 2 /CO/CO 2 ) into biofuels and value-added biochemicals. These microorganisms are naturally capable of autotrophic growth via unique acetogenesis metabolism. Despite their biosynthetic potential for commercial applications, a systemic understanding of the transcriptional and translational regulation of the acetogenesis metabolism remains unclear. Results By integrating genome-scale transcriptomic and translatomic data, we explored the regulatory logic of the acetogenesis to convert CO 2 into biomass and metabolites in Eubacterium limosum . The results indicate that majority of genes associated with autotrophic growth including the Wood-Ljungdahl pathway, the reduction of electron carriers, the energy conservation system, and gluconeogenesis were transcriptionally upregulated. The translation efficiency of genes in cellular respiration and electron bifurcation was also highly enhanced. In contrast, the transcriptionally abundant genes involved in the carbonyl branch of the Wood-Ljungdahl pathway, as well as the ion-translocating complex and ATP synthase complex in the energy conservation system, showed decreased translation efficiency. The translation efficiencies of genes were regulated by 5′UTR secondary structure under the autotrophic growth condition. Conclusions The results illustrated that the acetogenic bacteria reallocate protein synthesis, focusing more on the translation of genes for the generation of reduced electron carriers via electron bifurcation, rather than on those for carbon metabolism under autotrophic growth.

• Publisher: BioMed Central,BioMed Central Ltd,Springer Nature B.V,BMC
• Subject: Acetates - metabolism / Acetogenesis / Acetogenic bacteria / Anaerobic bacteria / Animal Genetics and Genomics / ATP synthase / Autotrophic microorganisms / Autotrophic Processes / Bacteria / Bacterial Proteins - genetics / Bifurcations / Biocatalysts / Biodiesel fuels / Biofuels / Biomedical and Life Sciences / Biosynthesis / Carbon Cycle / Carbon dioxide / Carbon monoxide / Carbonyl compounds / Carbonyls / Dehydrogenases / Efficiency / Electrons / Energy conservation / Energy conversion efficiency / Energy Metabolism / Eubacterium - genetics / Eubacterium - growth & development / Eubacterium - metabolism / Eubacterium limosum / Fermentation / Gas fermentation / Gases - analysis / Gasoline, Synthetic / Gene expression / Gene Expression Regulation, Bacterial / Gene regulation / Genes / Genetic aspects / Genetic regulation / Genetic research / Genome, Bacterial / Genomes / Genomics / Gluconeogenesis / Growth conditions / Kinases / Life Sciences / Metabolism / Metabolites / Microarrays / Microbial Genetics and Genomics / Microorganisms / Plant Genetics and Genomics / Prokaryote microbial genomics / Properties / Protein biosynthesis / Protein structure / Protein synthesis / Proteins / Proteomics / Research Article / Secondary structure / Synthesis gas / Transcription / Transcriptome / Translation / Translation efficiency / Wood-Ljungdahl pathway