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 136 for “"Genome sequences"”.
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New insights into Transposable Elements from high quality genome sequences across diverse animals
New high quality genomes, together with faster whole genome alignment methods, have opened the possibility of identifying new transposable element (TE) families by their polymorphic character in different haplotypes, in contrast to previous methods based on repetitiveness, homology and structural …
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Leveraging Whole Genome Sequences to Compare Mutational Mechanism and Identify Medically Relevant Variation in African versus Non-African Descend Populations
Whole-Genome Sequencing (WGS) is ushering a new era in healthcare and research in identifying genetic variation in all populations. However, the African populations are still under-represented. Since African populations are being the most genetically diverse with high heterogeneity rate, we need to …
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Identification of bacterial pathogenic gene classes subject to diversifying selection
Availability of genome sequences for numerous bacterial species comprising of different bacterial strains allows elucidation of species and strain specific adaptations that facilitate their survival in widely fluctuating micro-environments and enhance their pathogenic potential. Different bacterial …
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Exact genome alignment
… data due to the decrease in the cost of whole genome sequencing techniques has opened up new avenues of research in the field of Bioinformatics, like comparative genomics and evolutionary dynamics. The fundamental task in these studies is to align the genome sequences accurately. Sequence …
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Pathogen phylogenies for public health
An organism’s genome sequence is a rich source of information on its current characteristics and its evolutionary history. In this thesis, I refine and apply methods to extract information from pathogen genome sequences via phylogenetic reconstructions. I extend existing phylogeny-based models to …
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Characterisation of badnavirus sequences in West African yams (Dioscorea spp.)
… badnaviruses, as well as determine if badnavirus sequences are also integrated in the genomes of West African yam breeding lines. DNAs were extracted from Nigerian yam leaf samples (177 breeding lines, 78 landraces), using an optimised CTAB-extraction method and then screened using degenerate …
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Comparative and Epidemiological Genomics of Human Malaria Parasites
… the genomic basis of malaria biology, the genome sequences of two of the five human malaria parasite species, Plasmodium malariae and P. ovale, have remained essentially a mystery. Consequently, the implications of these sequences on aspects such as drug resistance have eluded us. However, …
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Phage therapy applications: Efficacy and impact on the animal intestinal microbiome
… Additionally, this study also examined phage genome sequences, bacterial phage resistance, and the impact of orally administered phages on acute immune response and gut microbiome of the host in effort to more clearly assess the safety and long-lasting efficacy of phage-based treatments.
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Probabilistic Model-Based Approach to Evolutionary Analysis of Non-Coding Sequences
Non-coding sequences, constituting a large fraction of genomic DNA, are of great importance because (i) they harbor functional elements that are involved in the regulation of gene expression and (ii) they are essential for the study of genome structure and evolution. The availability of genome …
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CBK Bacteriophage Genome Annotation and Organization
… phage CbK being the best studied. As no B3 phage genome sequences are currently available in the Genbank, we decided to determine the nucleotide sequence of the CBK genome. Bacteriophage CbK is a double-stranded DNA phage with an extremely large genome size of 203,242 base pairs and a 66.13% GC …
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Complex evolution of mitochondrial genomes: lessons from salamanders
This dissertation research on genome evolution focuses on understanding the mechanisms that drive the evolution of mitochondrial genome size, content, and organization in animals. This research uses a combination of empirical and computational approaches to examine the evolution of mitochondrial …
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Characterisation of the lipooligosaccharide biosynthesis gene cluster in campylobacter species
… isolates and 703 publicly available C. jejuni genome sequences revealed that the class B (Group 1) was the most abundant LOS locus class in C. jejuni. Two novel C. jejuni LOS types were identified from the GenBank database which may have arisen due to interspecies and intraspecies LOS gene …
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Insights into the genomic histories of diverse human populations using whole-genome sequencing analysis.
… 54 human populations which are part of the Human Genome Diversity Project (HGDP-CEPH) panel. Using whole-genome sequences previously produced at the Wellcome Sanger Institute, I generated a comprehensive catalogue of structural variation identifying a total of 126,018 variants, of which 78% are …
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Peptide Antisera Generation against Three <em>Chlamydia trachomatis</em> Hsp60 Homologues to Examine Expression of each Hsp60 during Iron Restrictive Growth.
… expression in response to iron limitation. Genome sequencing revealed three genes encoding chsp60s. The objective of this study was to generate peptide antisera that would selectively recognize each chsp60. The DNA sequence for each <em>C. trachomatis</em> serovar E chsp60 was determined and …
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Improving the Phylogenetic Understanding of the Genus Juniperus
… complete and 17 nearly complete chloroplast genome sequences to an ever-growing number of sequenced organellar genomes. This phylogeny provides a foundation from which an improved biogeographic history and molecular dating analysis can be performed.<em> </em>
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Creating and analysing an African pan-genome
The human reference genome is currently a core resource for understanding the role of genetics in human health, disease, and variation, and has been invaluable in the development of clinical and computational tools for these purposes. However, the limited number of individual genomes used to create …
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Analysis of DNA-binding Proteins in Yeast Saccharomyces Cerevisiae
… in vivo, in vitro as well as in silico. With the genome sequences of many organisms now readily available, a plethora of DNA functional elements have been predicted, but the process of identifying the proteins that bind to them in vivo remains a bottleneck. I developed two high-throughput assays …
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Genomic analysis of mouse tumorigenesis
The availability of the human and mouse genome sequences has spurred a growing interest in analyzing mouse models of human cancer using genomic techniques. Comparative genomic studies on mouse and human tumors can be valuable in two major ways: in validating mouse models and in identifying genes …
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Approaches to determining the three-dimensional structure and dynamics of bacterial chromosomes
The information in genomes is only partially contained in the linear sequence of their nucleotides. Their folding into dynamic three-dimensional structures creates spatial relationships between loci that likely play important functional roles. Yet so far only the broad outlines of this spatial …
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How Chromosome-Nuclear Envelope Attachments Affect 3D Genome Organization
… for gene expression and regulation. Thus, genome sequences must be understood in the context of their 3D organization which critically influences the flow of information. The effort to understand this added complexity now encompasses an entire field of chromosome biology and is reshaping …
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