Global ETD Search
Search theses and dissertations gathered from participating repositories worldwide. Every result links back to the library that holds it. No account is needed.
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Showing 1 to 20 of 75 for “"stem loop"”.
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Investigating the Role of Stem-Loop 1 in the Assembly Process of HIV-1
… by the viral protease. Large deletions in stem-loop 1 (SL1) in the 5’ untranslated region (UTR) of HIV-1 genomic RNA (gRNA) delay CA-SP1 processing. SL1 harbours the dimerisation initiation site (DIS) palindrome suggesting that efficient Gag processing may be linked to gRNA dimerization as …
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Stability of Nucleic Acid Secondary Structures and Their Contribution to Gene Expression
… mRNA can form a secondary structural element (a "stem-loop"). Using biophysical methods, the goal was to determine if the stem-loop structure exists in solution conditions that mimic the in vivo biological environment (42°C and 4M KCl) (2-4). The salt-dependent thermal stability of a DNA model of …
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Transcriptional regulation of the Bacillus subtilis pyrimidine biosynthetic operon
… to be comprised of an antiterminator (AT) stem-loop structure, a terminator (T) stem-loop structure which overlaps with the 3$\sp\prime$ strand of the AT, and a consensus sequence which is proposed to be the binding site for the regulatory protein PyrR, and is also capable of forming an …
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Unraveling the interactions between MBNL1 protein and its RNA targets
… various RNA substrates, most of which share a stem-loop structure with two GC base pairs and pyrimidine-pyrimidine mismatches. However, MBNL1 has been shown to have a general binding preference for single-strand RNA containing 5’YGCY3’ motifs. In this work, the secondary structural preference …
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Genetic mechanisms contributing to antimicrobial resistance: gene repression in Mycobacterium, gene transfer in Salmonella, and phage sensitivity in Escherichia
… Sxy is overexpressed. Identification of a mRNA stem-loop in the comA promoter region provides a possible gene repression mechanism. We used the MoClo toolkit to assemble comA promoter-luciferase fusions with or without the predicted mRNA secondary structure, and we used site-directed mutagenesis …
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The mechanism of component recognition of bipartite geminiviruses: Genetic studies of the replication of squash leaf curl virus, and, Genetic and functional studies of squash leaf curl virus coat protein AR1
… the viral genome and the B component systemically spreads the virus throughout the host. Thus, correct recognition between the two components is required to ensure a constant co-presence of the two viral genomic components during viral infection. In this study, using two closely related …
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Investigations of the molecular determinants of maize streak virus replication
… and termination of the replication cycle from a stem-loop structure, located within the LIR and conserved throughout the three genera of Geminiviridae. The specific interaction between the Rep protein with sequences within the intergenic region has been well characterised for the begomoviruses …
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Molecular genetic analysis of puf andpuc operon expression in Rhodobacter sphaeroides 2.4.1
… suggesting that the proximal intercistronic stem-loop functions as a transcription terminator.
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Analysis of cis-acting expression determinants of the tobacco psbA 5’UTR in vivo
… sequence deletions, with special regard to the stem-loop structure and the putative target sites for ribosome association and binding of nuclear regulatory factors. In addition, a versatile plastid transformation vector pKCZ with an insertion site in the inverted repeat region of the plastid …
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Genetic decoding dynamics: from its exploitation to enhance or rescue gene expression to a search for relevance for early evolution
… signals including a nascent peptide and a mRNA stem loop which includes the take-off codon at the start of the coding gap. An additional stem loop whose 3’ end is nine nucleotides 5’ of the take-off codon, was recently demonstrated to be important for bypassing in vitro. I investigated the …
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Characterization of the nifUHD cluster and a new myoglobin-like gene from Nostoc commune UTEX 584
… <i>nifD</i> genes and identified two potential stem loop structures, a direct repeat, and an ORF that codes for a protein with a predicted amino acid sequence similar to that of myoglobin from <i>Paramecium caudatum</i>. The <i>N. commune</i> UTEX 584 myoglobin-like protein has a predicted …
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Regulation of Human T-cell Leukemia Virus Type 1 Infection and Replication
… the <italic>hbz</italic> mRNA or disrupted a stem-loop in <italic>hbz</italic> mRNA, or mutations that eliminated or truncated the HBZ protein were introduced in a functional molecular clone of HTLV-1. The protein and stem-loop mutants had no effect on viral gene expression. However, the …
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Translational Regulation in the 5′UTR of Enteroviruses
… codon (uAUG), situated on the domain six (dVI) stem loop structure within the viral internal ribosome entry site (IRES), some viruses have additional AUGs both up and downstream of this structure. However, whether these represent alternative sites of translation initiation has not yet been …
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Esterase 2-oligodeoxynucleotide conjugates as enzyme reporter for electrochemical detection of DNA and identification of bacterial species
Electrical Chip (E-Chip) system offers a fast, sensitive and cost-effective way to detect analyte. To improve its application of nucleic acids detection, a suitable enzyme reporter is expected. Esterase 2 (EST2) from Alicyclobacillus acidocaldarius was introduced and mutated to have an accessible …
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FUNCTIONAL ANALYSIS OF THE UPSTREAM PSEUDOKNOT DOMAIN AND ITS SUBSTITUTION WITH A POLY(A) TRACT IN TOBACCO MOSAIC VIRUS (TMV)
… AND INFECTIVITY. IN ADDITION, A NOVEL STEM LOOP STRUCTURE THAT REGULATES VIRAL REPLICATION WAS DISCOVE
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EXPANDING THE TOOLKIT: STRUCTURE, DYNAMICS, AND DRUG INTERACTIONS OF THE “PRIMING LOOP” FROM HEPATITIS B VIRUS PRE-GENOMIC RNA BY SOLUTION NMR SPECTROSCOPY
… and interactions of a conserved regulatory RNA stem-loop from hepatitis B virus that is critical for viral replication.
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Evaluation of three heterologous xylose isomerase genes for the fermentation of plant biomass to bioethanol in Saccharomyces cerevisiae
… analysis showed a putative inhibitory stem-loop structure in the mRNA containing the B. thetaiotaomicron gene which may have reduced translation. Otherwise non-functional folding or undetectable activity were concluded as the results of the expression for all genes.
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A bioinformatics framework for RNA structure mining, motif discovery and polyadenylation analysis
… regions. As an application of RADAR, a systematic data mining approach was developed, termed GLEAN-UTR, to identify small stem loop RNA structure elements in the Untranslated regions (UTRs) that are conserved between human and mouse orthologs and exist in multiple genes with common Gene …
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Biochemical and Genetic Analyses of Rna-Protein Interactions
… functions by interacting with a 21 nucleotide stem-loop structure located within the translation initiation region of the bacteriophage replicase gene. A great deal is known about the genetics and biochemistry of the RNA-protein interaction; however, the mechanism of translational repression is …
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Functionalization of Peptide Nucleic Acids via post-synthetic click chemistry
… quencher-free PNA molecular beacons, a stemless MB and one possessing a stem-loop structure, both targeting a portion of the cystic fibrosis gene, were successfully synthesized by this method. Fluorescence studies showed that the stem-loop MB exhibited better discrimination of changes in …
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