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 17 of 17 for “"Bacterial genome"”.
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OperomeDB: database of condition specific transcription in prokaryotic genomes and genomic insights of convergent transcription in bacterial genomes
… using high-throughput sequencing datasets for bacterial genomes. 2) Genomics and mechanistic insights of convergent transcription in bacterial genomes. In the first project we developed a database for the prediction of operons for bacterial genomes using RNA-seq datasets, we predicted operons …
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Detection of Bacterial Retroelements Using Genomics
… in bacteria is called a retron element. Recent bacterial genome sequencing projects have revealed many examples of retron RT genes. This gene assignment is based on comparison with a few known retron RT proteins. However, RT proteins are highly diverse in their amino acid sequences, and thus the …
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Host and pathogen genetics associated with pneumococcal meningitis
… the development of a method to perform genome-wide association studies (GWAS) in bacteria, which can find variation in bacterial genomes associated with bacterial traits such as antibiotic resistance and virulence. I then applied this method to longitudinal samples from asymptomatic …
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Identification of virulence determinants of Mycobacterium tuberculosis via genetic comparisons of a virulent and an attenuated strain of Mycobacterium tuberculosis.
… DNA technologies: two-dimensional bacterial genome display, and bacterial comparative genomic hybridisation. The two-dimensional technologies were optimised for mycobacterial use, but failed to yield reproducible genomic differences between the two strains. Expression differences …
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Secretion of the chitinolytic machinery in Serratia marcescens
… least six effector molecules directly into other bacterial target cells. <br/>Serratia marcescens is a model organism in terms of its ability to degrade the quite intractable polymer chitin, for which it produces three chitinase enzymes ChiA, ChiB, ChiC and a chitin-binding protein Cbp21, which …
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The biosynthesis and discovery of lanthipeptides
… gene cluster of a natural product on the bacterial genome, this processing enzyme may function as the immunity protein to prevent producer viability loss during the production of the natural products, and the natural product may target the small molecule. Following this hypothesis, I …
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Genome-wide studies of virulence-associated mechanisms in Erwinia amylovora
Submission published under a 24 month embargo labeled 'Closed Access', the embargo will last until 2024-05-01
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Bacteriophages in the honey bee gut and amphibian skin microbiomes: investigating the interactions between phages and their bacterial hosts
… temperate. Lytic phages infect and directly kill bacterial hosts and can directly regulate bacterial population size. Temperate phages, in contrast, have the potential to undergo either a lytic cycle or integrate into the bacterial genome as a prophage. As a prophage, the phage may alter bacterial …
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Ancestral Genome Reconstruction in Bacteria
The rapid accumulation of numerous sequenced genomes has provided a golden opportunity for ancestral state reconstruction studies, especially in the whole genome reconstruction area. However, most ancestral genome reconstruction methods developed so far only focus on gene or replicon sequences …
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Determining and differentiating protein-biopolymer interactions
… important applications for promoter design in bacterial genome engineering. Chapters 1-4 talk about the work done on this project. Algal bioenergy systems are the future of the bio fuel industry. They promise several advantages over terrestrial biomass – faster growth rates, no land issues, …
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Pathogen evolution within and between hosts with applications to the pneumococcus and SARS-CoV-2
… the pathogen’s evolution. Although the first bacterial genome was sequenced in 1995, techniques and costs have only recently enabled the large scale study of the evolution of pathogens in human populations over short timescales. This thesis begins by developing methods for the analysis of …
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Engineering genetic isolation in Escherichia coli and developing synthetic genomics tools to efficiently assemble megabase-scale genomes
… evolution of proteins. The synthesis of entire genomes empowers researchers to manipulate fundamental properties of organisms. Most notably the synthesis of the entire genome of E. coli allowed for the compression of its genetic code. However, DNA synthesis at the genome scale is not yet a …
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Molecular Cloning and Analysis of the Modification Genes of the KpnBl Restriction- Modification System of Klebsiella pneumoniae Strain GM236
… including numerous type I systems deduced from bacterial genome sequence projects were grouped into 24 new type I families in addition to the 4 existing families.</p> <p>In this project the DNA sequence recognized by the Kpn&l R-M enzyme has also been deduced using a new analytical method …
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A gene-space de Bruijn graph framework for improved genotyping of antimicrobial resistance genes
… have greatly improved the completeness of bacterial genome assemblies, allowing for more accurate detection of AMR. However, even with long-reads, assembly remains imperfect and this can result in the under-detection of genuinely present AMR genes and inaccurate predictions of antimicrobial …
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Genome-guided bioprospecting for novel antibiotic lead compounds.
… scaffolds derived from less than 1% of all known bacterial species, bacterial secondary metabolites constitute an untapped source of novel antibiotics. The aim of this project therefore was to expand the chemical space of bacteria-derived antibiotic lead compounds, using genomics approach. To that …
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The Diversity and Function of Bacteria Enriched from Gold Particles: Understanding Bacterial Contribution to Biogeochemical Cycling of Gold
… culture-independent (direct amplification of bacterial 16S rDNA gene from particles) and dependent (enrichment of viable bacteria from particles) techniques were applied to get a comprehensive overview of the composition of microbial communities on gold particles. Diverse bacterial species …