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Showing 1 to 20 of 23 for “"riboswitch"”.
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Characterization of an Orphan Riboswitch: Identification of a Metal-Sensing Regulatory RNA
Riboswitches are RNA-based genetic control elements found in untranslated regions of the mRNA transcript that they regulate. These RNA motifs are highly structured and bind metabolites to elicit control of gene expression. Typically, the metabolite sensed by these RNAs is a component of the …
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CHARACTERIZATION OF A DUAL FUNCTIONING SAM-I RIBOSWITCH AND TRANS ACTING SMALL RNA IN DESULFOVIBRIO VULGARIS HILDENBOROUGH
… over the last decade. Both small RNAs and riboswitches have been shown in other bacteria to play key roles in sensing cellular conditions and eliciting the appropriate responses. A previous study in this laboratory identified several small regulatory RNAs, but their biological roles have …
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Fluorescence Investigations of RNA Folding: Group I Intron P4-P6 Domain and Xpt G -Riboswitch Aptamer Domain
… of the Tetrahymena group I intron RNA, xpt G-riboswitch aptamer domain, FRET.
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Riboswitch regulation of methionine metabolism and vitamin B12 uptake in mycobacteria – implications for drug susceptibility and pathogenesis
… (MS) was then employed to investigate cobamide riboswitch-dependent regulation of methionine biosynthesis in M. smegmatis. Results indicated that, in wild-type M. smegmatis, de novo cobamide biosynthesis ensured constitutive repression of metE, the gene encoding the mycobacterial …
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Structure and molecular recognition in riboswitches
Riboswitches are cis-acting gene regulatory RNAs, which function without involvement of proteins. They have been implicated as drug targets and are attractive systems for the study of RNA-ligand binding and RNA folding. The purine riboswitch was used as a model system for RNA-ligand docking. …
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Single-Molecule Studies Of Local And Global Nucleic-Acid Dynamics
… using 2AP across a DNA abasic-site mimic, SAM-1 riboswitch binding pocket reorganization, and tRNAPro 3' end are reported. </p> <p>Additionally, RNA global motions in conditions with molecular crowding, which mimics the cellular environment, are reported using the cyclic-diguanylate monophosphate …
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An investigation into nucleic acid binding compounds
… on a recently discovered RNA element, known as a riboswitch, and their use as drug targets. In achieveing this two riboswitches have been selected to be investigated: the thiamine pyrophosphate riboswitch and the PreQ1 riboswitch. The suitability of each of these riboswitches as drug targets has …
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Single molecule studies of rna-target interactions
… a target ligand. We have shown that the c-di-GMP riboswitch undergoes a large, global conformational change upon binding of the ligand. The folding dynamics of the c-di-GMP riboswitch upon Mg2+ binding help to pre-organize the aptamer for efficient ligand binding and ultimately efficient gene …
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Development of pattern recognition technique for classification of RNA secondary structures by small molecules
… the Trans-Activation Response element, fluoride riboswitch and pre-queuosine 1 riboswitch could be differentiated based on the position of the fluorophore using the training set clusters. This method provides insight into both the RNA topological and conformational elements and the small molecule …
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Investigating factors that influence microalgae production platforms for diterpenoids in laboratory and outdoor conditions
… which in addition includes a thiamine dependent riboswitch (CrTHI4_4N). Casbene-producing *C. reinhardtii* strains were characterised under standard laboratory conditions of 25ºC and 90 μmol s<sup>-1</sup> m<sup>-2</sup> in Tris-Acetate Phosphate media (TAP) and found to reliably produce casbene …
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Multiple Posttranscriptional Regulatory Features Control Expression of Ethanolamine Utilization Genes In Enterococcus Faecalis
… genes. The first feature I found is an AdoCBL riboswitch, a <em>cis</em>-acting RNA regulatory element that acts as a positive regulator of gene expression. The second feature I discovered is a unique two-component system, EutVW. The EutV response regulator contains an ANTAR family domain, …
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Construction and analysis of novel controllable expression vectors for Bacillus subtilis
… the presence of a small transcript termed riboswitch corresponding to the 5´ UTR in the absence of L-glycine or presence of L-lysine and its conversion into the full-length transcript after addition of the L-glycine or removal of L-lysine was confirmed by Northern blot. Next, the promoter …
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Targeted depletion of RibF, a putative bifunctional FAD synthetase/ flavokinase in Mycobacterium smegmatis using CRISPR interference
… genes) – either directly by binding to the FMN riboswitch, or indirectly through the production of FMN from RF, in turn enabling riboswitch-mediated repression of downstream genes. CRISPR interference (CRISPRi) technology was used to generate an anhydrotetracycline (ATc)-inducible ribF hypomorph …
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Investigating and expanding the functionality of RNA catalysts: Studies of the hepatitis delta virus, the hammerhead, and the aminoacyl-tRNA synthetase-like ribozymes
… based on the sequence of a naturally occurring riboswitch and an in vitro selected ribozyme that could charge tRNA with chemically synthesized unnatural amino acid substrates. The engineered ribozyme reported here serves as a prototype that could ultimately be used for site-specific …
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RNA Backbone Rotamers and Chiropraxis
… with Dr. Jack Snoeyink's laboratory. The guanine riboswitch structure ur0039/1U8D, by Dr. Rob Batey's laboratory, has been collaboratively refit and rerefined as a successful test case of the utility of these tools and techniques. Their testing and development will continue, and they are expected …
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Designing Next Generation Nucleic Acid Diagnostics Using Synthetic Biology and Artificial Intelligence
… the design of a novel CRISPR-Cas13 activated riboswitch which demonstrates the potential of synthetic biology tools for nucleic acid detection. Second, I describe the prototyping of a platform for the deployment of freeze-dried synthetic biology-based diagnostic assays in wearable formats, …
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Molecular biology of B vitamin metabolism genes and their regulation in Phaeodactylum tricornutum
… to exogenous thiamine. In many cases this is via riboswitches, sequences in mRNA that fold into a tertiary structure (aptamer) able to specifically recognise a ligand and mediate a change of genetic expression in response. In diatoms, marine algae responsible for ~20 % of net primary productivity, …
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Identification and characterization of thiamine biosynthesis, transport, and regulation elements among bacteroides species
… our attention to the conserved regulatory TPP riboswitches preceding thiamine biosynthesis and transport genes in B. thetaiotaomicron, B. uniformis, and B. vulgatus utilizing transcriptional and translational reporter assays. These assays have shown a clear regulatory hierarchy between thiamine …
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Whole-genome transposon mutagenesis to elucidate the genetic requirements for vitamin B12 biosynthesis and assimilation in mycobacteria
… in support of the functionality of the cobalamin riboswitch upstream of metE. This is an important observation as it suggests the potential to apply an analogous approach in M. tuberculosis, a major human pathogen whose ability to synthesize cobalamins remains unresolved. Moreover, elucidating the …
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