By applying four different acid derivatives of vitamin B(12), we demonstrate that the H-bonding pattern and the electrostatic environment provided by each side chain of the corrin ring are crucial for the correct structural rearrangement of the btuB riboswitch of E. coli.
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Corrin Ring Modifications Reveal the Chemical and Spatial Requirements for the B-btuB Riboswitch Interaction.
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September 2024
Department of Chemistry, University of Zurich, Winterthurerstrasse 190, CH-8057, Zurich, Switzerland.
The btuB riboswitch is a regulatory RNA sequence controlling gene expression of the outer membrane B transport protein BtuB by specifically binding coenzyme B (AdoCbl) as its natural ligand. The B sensing riboswitch class is known to accept various B derivatives, leading to a division into two riboswitch subclasses, dependent on the size of the apical ligand. Here we focus on the role of side chains b and e on affinity and proper recognition, i.
View Article and Find Full Text PDFRiboswitch and small RNAs modulate btuB translation initiation in Escherichia coli and trigger distinct mRNA regulatory mechanisms.
Nucleic Acids Res
June 2024
Department of Biology, Faculty of Science, Université de Sherbrooke, Sherbrooke, Quebec J1K 2R1, Canada.
Small RNAs (sRNAs) and riboswitches represent distinct classes of RNA regulators that control gene expression upon sensing metabolic or environmental variations. While sRNAs and riboswitches regulate gene expression by affecting mRNA and protein levels, existing studies have been limited to the characterization of each regulatory system in isolation, suggesting that sRNAs and riboswitches target distinct mRNA populations. We report that the expression of btuB in Escherichia coli, which is regulated by an adenosylcobalamin (AdoCbl) riboswitch, is also controlled by the small RNAs OmrA and, to a lesser extent, OmrB.
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Institute of Organic Chemistry & Center of Molecular Biosciences (CMBI), University of Innsbruck, Innrain 80/82, 6020 Innsbruck, Austria.
A simple model for the B-riboswitch regulatory network in is first described and the same analysis is applied when changing the strain to . Model validation is undertaken by linking the dynamics of the riboswitch model to bacterial growth and comparing the results obtained with in vivo experimental measurements. Measurements of bacterial growth are relatively straightforward to obtain experimentally, but experimental measurements relating to the operation of the riboswitch are more difficult.
View Article and Find Full Text PDFSite-Specific Dual-Color Labeling of Long RNAs.
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Labeling of large RNAs with reporting entities, e.g., fluorophores, has significant impact on RNA studies in vitro and in vivo.
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J Agric Food Chem
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School of Food Science and Bioengineering , Zhejiang Gongshang University, 18 Xuezheng Street , Hangzhou , Zhejiang 310018 , People's Republic of China.
Patients with inflammatory bowel disease (IBD) are usually advised to supplement various types of vitamin B, because vitamin B is generally absorbed in the colon. Thus, in the current study, the influence of cyanocobalamin (CNCBL) or methylcobalamin (MECBL) ingestion on IBD symptoms will be investigated. Then, whether and how the application of various cobalamins would modify the taxonomic and functional composition of the gut microbiome in mice will be examined carefully.
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