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 36 for “"Whole genome sequences"”.
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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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Exact genome alignment
… genomic 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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Platyrrhine Phylogenetics With A Focus On Callitrichine Life History Adaptations
… approach, using the publicly available whole genome sequences of 17 mammal species. With high confidence, we determined here that Tarsier is the most recent common ancestor to Anthropoid primates. Secondly, we construct a reliable phylogenetic framework for New World monkeys. To do this, …
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Evolutionary Genomics of the Trans-Atlantic Slave Trade
… uses differently inherited high coverage Whole Genome Sequences (WGS) from autosomal, X, Y, and low coverage mitochondrial chromosomes collectively to present a detailed genetic point of view of the African Americans, their genetic relations to Africans and their interactions with …
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ToxIN-mediated resistance to and cell-free production of Salmonella bacteriophages
… and other phage isolates; and is found in the whole-genome sequences of numerous Salmonella serovars and in other human pathogens. The second half of this work describes the in vitro synthesis of FelixO1 using an Escherichia coli-based cell-free expression system, demonstrating for the first …
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Characterisation of surfactant-expressing bacteria and their potential bioremediation properties from hydrocarbon-contaminated and uncontaminated soils
… using bioinformatics analysis of draft whole genome sequences of the eight strains. Sixty isolates were chosen from a total of 168 identified to express surfactants (24.7 mNm<sup>-1</sup> – 26.7 mNm<sup>-1</sup>), and when examined using Hierarchical cluster analysis, they revealed …
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Application of genetic and statistical tools for improvement of Louisiana rice
… mapping population using GGE biplots (2) Exploit whole genome sequences of 13 inbred lines to identify non-synonymous SNPs (nsSNPs) and candidate genes for SB resistance. Genotype-by-environment interaction for SB analysis was performed using heritability-adjusted GGE (HA-GGE) biplot. DH lines …
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Quantifying evolution and natural selection in vertebrate noncoding sequence
… sequence. The recent availability of whole genome sequences, especially those of various mammals and other vertebrates, enables us to develop alternative methods for analyzing molecular evolution and selection that rely on noncoding sequence. Furthermore, our greater understanding of …
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The Intra-Tumour Heterogeneity Landscape of Human Cancers
… data and applied these to the 2,778 tumour whole genome sequences in the International Cancer Genome Consortium Pan-Cancer Analysis of Whole Genomes initiative to paint the pan-cancer landscape of intra-tumour heterogeneity. I will first introduce the methods; a method to call somatic copy …
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COVID-19 Variant Analyzer through Genomic Sequences and Jaccard Similarities
… to determine variant group membership. Whole-genome data was analyzed to compare its effectiveness in identifying variants of concern, with the database structure accommodating genomic data. The results demonstrated the framework's ability to accurately detect and classify SARS-CoV-2 …
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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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Techniques for the identification and differentiation of Cronobactor species
… were used in a variety of applications. These sequences were used to identify a novel species, characterize outbreak strains, and resolve discrepancies in species identification. It was also shown that MLST does not necessarily correlate to observable phenotypes. This led to the final portion …
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Immune-driven positive and balancing selection in human populations
… diverse populations. The data are high coverage whole genome sequences, many from populations that have been sparsely represented in global genetic diversity studies in the past. Two main analyses were performed for both positive and balancing selection: enrichment tests for each population and …
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In silico approaches to investigating mechanisms of gene regulation
… computational biology. The rapid accumulation of whole genome sequences and genome-wide expression data, and advances in alignment algorithms and motif-finding methods, provide opportunities to tackle the important task of dissecting how genes are regulated. Genes exhibiting similar expression …
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Bacteria Big and Small: Exploring the Gut Microbiota of Marine Herbivorous Fish and Student Learning About Cell Size
… and correlations between isolation source and genome content. The gene content of 106 bacterial isolates differs significantly by isolation source supported by non-metric multidimensional scaling (NMDS) analyses. In addition to environmental conditions, bacterial metabolic processes may be …
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Population genomics and domestication of the Black Soldier Fly (Hermetia illucens L.)
… the role of domestication and its impact on the genome of *H. illucens*. I developed a suite of high-quality genomic resources for this novel agricultural system and used this to investigate the genomic landscape of an inbred *H. illucens* population. I obtained whole-genome sequences for a total …
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Comparative genomics of bacteria from amphibian skin associated with inhibition of an amphibian fungal pathogen Batrachochytrium dendrobatidis
… Batrachochytrium dendrobatidis (Bd). We analyzed whole genome sequences of 40 bacterial isolates that had been previously cultured from the skin of four amphibian species from Virginia, USA, and tested for their ability to inhibit Bd growth via an in vitro challenge assay. These 40 isolates …
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The Molecular Epidemiology of Enteric Fever in South and Southeast Asia
… <br></br><br></br> First, this thesis utilized whole genome sequences of <i>S.</i> Typhi combined with clinical data from a randomized controlled trial to investigate the impact of AMR and bacterial genotype on the disease outcome. A novel subclade of ciprofloxacin-resistant H58 <i>S.</i> Typhi …
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Adaptation to altitude in Heliconius butterflies
… this trait. Thirdly, with a dataset of over 600 whole-genome sequenced H. erato and H. melpomene individuals from four elevational clines, I found many parallel signatures of local adaptation to high altitude across clines and sides of the Andes, especially within H. erato. Finally, I studied the …
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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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