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 58 for “"phylogenomic"”.
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Large scale phylogenomic estimation
Phylogenomic estimation - the science of calculating evolutionary trees from genomic data - is an important biological problem. As the amount of genomic data in biological datasets increases, new methods are needed to analyze this data. Cutting edge analyses may utilize genomes from tens of …
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Rates of Molecular Evolution and Phylogenomic Inference
… to address issues associated with the phylogenomic analysis of genomic data. Developments were made to the area of lineage-specific variation in evolutionary rates, with improvements in more efficient computational implementations of relaxed molecular clock models and the proposal of …
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Novel computational methods for discordance-aware phylogenomic analysis
… availability of genome-scale data, and today phylogenomics projects construct species trees using hundreds to thousands of loci, potentially whole genomes. However, species tree estimation from multi-locus datasets presents several statistical and computational challenges, as most problems in …
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Computational evolutionary genomics : phylogenomic models spanning domains, genes, individuals, and species
Computational techniques have long been applied to biological data to address a wide range of evolutionary questions. In phylogenetics, methods for reconstructing gene histories from sequence data have enabled researchers to better understand how evolution shapes gene content; for example, the …
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Phylogenomic supertrees: integration of maximal data and assessment of input tree shape.
… to the properties and applicability of phylogenomic data used in a supertree context. While the availability of genomic scale data is rapidly diminishing as a problem in the field of phylogenomics, there is now a greater need for an appropriate means of analysing such data. Supertrees …
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Type IA topoisomerases: a phylogenomic and biochemical analysis of Methanosarcina acetivorans C2A TopoIII
… unexplored domain and utilizes a large-scale phylogenomic approach to illustrate the therapeutic potential of the specific class to which it belongs. This report provides the first analysis of over 2000 topoisomerase sequences from the type IA class.
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Phylogenomic analysis of hemimetabolan insects with emphasis on the hemipteran suborder Auchenorrhyncha and the superorder Paraneoptera
… analyses of many insect groups. These phylogenomic data sets were anticipated to resolve the remaining questions concerning insect relationships in the tree of life, although the reality has been more complicated. As data sets have increased in size, so too have the potential sources of …
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Comparative microbial genome analysis of lactobacilli
… technological processes. We present a robust phylogenomic framework of existing species and for classifying new species. In Chapter 3, we (Harris et al. 2017) we carried out comparative genomic analyses of the functional and phylogenomic diversity of 42 genomes of strains of L. salivarius. We …
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Systematics of the Australian members of bee fly subfamily Bombyliinae and molecular phylogeny of the superfamily Asiloidea using anchored hybrid enrichment and transcriptome data
… were strongly supported. In this thesis, two phylogenomic analysis were performed focusing on the phylogenetic position of Bombyliidae and the family relationships of Asiloidea, and an analysis with more focused taxon sampling for the subfamily relationships of Bombyliidae, respectively. For …
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Systematics of the Australian members of bee fly subfamily Bombyliinae and molecular phylogeny of the superfamily Asiloidea using anchored hybrid enrichment and transcriptome data
… were strongly supported. In this thesis, two phylogenomic analysis were performed focusing on the phylogenetic position of Bombyliidae and the family relationships of Asiloidea, and an analysis with more focused taxon sampling for the subfamily relationships of Bombyliidae, respectively. For …
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Big Data Phylogenomics: Methods and Applications
Phylogenomics, the study of genome-scale data containing many genes and species, has advanced our understanding of patterns of evolutionary relationships and processes throughout the Tree of Life. Recent research studies frequently use such large-scale datasets with the expectation of recovering …
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Structural and functional advances in the evolutionary studies of cells and viruses
Phylogenomics aims to describe evolutionary relatedness between organisms by analyzing genomic data. The common practice is to produce phylogenomic trees from molecular information in the sequence, order and content of genes in genomes. These phylogenies describe the evolution of life and have …
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Phylogenomics and Geometric Morphometrics Define Species Flocks of Snowtrout (Teleostei: Schizothorax) in the Central Himalayas
… data (n=51, outgroups=5). Chapter V employed a phylogenomic approach to examine fine-scale relationships amongst Schizothorax in Nepal and assess uniqueness of endemic forms in Lake Rara. Double digest restriction associated DNA (ddRAD)sequences were generated to extract 20,000 single nucleotide …
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A Species Independent Universal Bio-detection Microarray for Pathogen Forensics
… distinguish organisms into accepted and known phylogenomic relationships. Classification methods such as hierarchical clustering, Pearson's correlation matrix, principal component analysis and curve fitting regression methods were tested for pathogen specific use cases. Hierarchical clustering …
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Evolution and Function of Receptor-like Kinases in Arbuscular Mycorrhizal Symbiosis
… Symbiosis Receptor Kinase (SYMRK), comprehensive phylogenomic analyses of these receptors in more than a hundred plant genomes revealed their deep origins in green algae. I then defined the major clades of LysM-RLKs, their correlation with plant symbiotic capabilities, how the pseudokinases have …
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Population structure of the lizard Ecpleopus gaudichaudii coincides with a biogeographic barrier - the Doce River
… genomic diversity. Together, the data identify a phylogenomic barrier at the Doce River, located in the state of Espírito Santo. This result agrees with a larger body of research indicating patterns of genetic divergence around this river in other taxa.</p>
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Origin of viruses revealed by the genomic study of protein domain structures
… advocates for their inclusion into global phylogenomic studies and their consideration as a distinct and ancient form of life. Here we reconstruct phylogenies describing the evolution of proteomes and protein domain structures of viruses and cells that define viruses as a ‘fourth …
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Expansion of Deltaproteobacteria diversity from marine sediment reveals unique metabolic features
… a 28% increase in Deltaproteobacteria genomes. Phylogenomic analyses revealed 12 novel lineages which consist entirely of uncultured representatives. Among these are two lineages that appear to represent a new order, which are capable of denitrification and dissimilatory nitrate reduction to …
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Platyrrhine Phylogenetics With A Focus On Callitrichine Life History Adaptations
… common ancestor of Anthropoid primates we took a phylogenomic 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 …
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