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 45 for “"Metagenomic Analysis"”.
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Shotgun metagenomic analysis of antimicrobial resistance in wastewater
… they relate to AMR indicators identified through metagenomic sequencing. Through monitoring of local WWTPs, it was found that AMR indicators shifted over time and in relation to human behavior that changed due to the COVID-19 pandemic. Hospital wastewater did not measurably impact the microbiome …
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Addressing geometric abnormalities and algorithmic shortcomings in metagenomic analysis.
… work aims to identify shortcomings in microbiome analysis methods, making maximal use of sequencing data output to accurately represent sample relationships in a microbiome dataset. We introduce LMdist, a dimensionality reduction method for adjusting pairwise distances to more accurately represent …
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Dairy-Met: compositional metagenomic analysis of milk and cheeses
Unpasteurised milk and many cheeses contain a diverse microbiological population. These microorganisms play important roles in dairy foods and can, for example, contribute to the development of flavours and aromas, determine safety, cause spoilage or enhance the health of the consumer. It is thus …
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Functional metagenomic analysis of carbohydrate degrading enzymes from the human gut microbiota
… based on functional screening of genomic and metagenomic libraries using Escherichia coli and Lactococcus lactis as heterologous expression hosts, was used to isolate novel genes encoding glycoside hydrolase (GH) enzymes. The study identified several active GH enzymes involved in the breakdown …
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LARGE-SCALE METAGENOMIC ANALYSIS TO IDENTIFY HUMAN GUT MICROBIOME BIOMARKERS OF CARDIOMETABOLIC HEALTH
… integrate newly sequenced and publicly available metagenomic datasets with extensive metadata, including anthropometric, dietary, and clinical information, as well as serum and fecal metabolomics. As a first step, we conducted a global-scale analysis on 65,809 metagenomes, focusing on the …
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Metagenomic analysis of the biodiversity and seasonal variation in the meromictic Antarctic lake, Ace Lake
… of metagenomes utilizing the Cavlab metagenome analysis pipeline. Statistical analyses of taxa abundance and environmental factors revealed the effects of the polar light cycle, with 24 hours of daylight in summer and no sunlight in winter, on the phototrophs identified in the lake, indicating …
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Metagenomic Analysis of Spring and Stream Waters in the Chesapeake and Ohio Canal National Historical Park
… contaminants, the systematic and comprehensive analysis of elemental and compound pollutants cannot practically be conducted over an extensive network of water bodies. As a consequence, large-scale surface water monitoring programs frequently rely on biological assessment protocols based on …
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Large-scale metagenomic analysis of food-associated microbial communities and their links with the human microbiome
… food categories and types through statistical analysis and machine learning approaches. The uniformly and coherently processed curated metadata, taxonomic profiles and reconstructed genomes are publicly available in a resource called curatedFoodMetagenomicData (cFMD). To investigate the …
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Metagenomic analysis of the periodontal and peri-implant microbiome: a link between health and disease status
… next-generation sequencing and bioinformatic analysis. Metagenomic studies of the oral microbial community have revealed the complexities of the oral cavity, that contains hundreds of different bacterial, viral and fungal species. Most species are commensal, but they can become pathogenic in …
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Metagenomic Analysis of Antibiotic Resistance Genes in the Fecal Microbiome Following Therapeutic and Prophylactic Antibiotic Administration in Dairy Cows
… (ARGs) in bacteria. The objectives were to use metagenomic techniques to evaluate the effect of antibiotic treatment on ARG prevalence in the fecal microbiome of the dairy cow and to determine the temporal excretion pattern of ARGs. Twelve Holstein cows were assigned to one of four antibiotic …
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Metagenomic approaches for examining the diversity of large DNA viruses in the biosphere
… for years. Luckily, the advancement of metagenomic analysis has facilitated the study of large DNA viruses by analyzing them directly from their environment without cultivating them in the lab, which could be challenging for viruses. In the first chapter of the thesis, I investigated 11 …
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Metagenomic investigation of co-infections of Ebola virus disease and Lassa fever patients
Sequencing followed by metagenomic analysis is an extremely promising method for broad, unbiased disease profiling of patients for disease surveillance and diagnosis. Here, we use two popular metagenomics tools in union, k-mer-based Kraken with reads and BLAST- and LCAbased MEGAN with assembled …
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Physicochemical assessment of microbial communities of fermented olives in Namibia using culture dependent and independent methods
… method and the culture independent method of metagenomic analysis was also used. Total phenol content ranged from 2.323 x 10-4 g Gallic Acid Equivalent (GAE) /mL at day 0 to 8.691 x 10-4 GAE/mL on day 150. Olive samples had an alkaline pH (8 .9) which was then decreased and stabilized to …
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Methanogenic Paraffin Biodegradation and the Underlying Syntrophic Relationships
… and potentially syntrophic environments using metagenomic analysis. This approach was used to determine gene families which may play unknown roles in syntrophy. Together, these studies give key insights into how hydrocarbons are degraded under methanogenic conditions.
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Sources of Variation in the Microbiome of Pre-Weaned Dairy Calves
… by anatomical location and age of the calf. Metagenomic analysis 16s ribosomal DNA revealed ten phyla associated with microbiomes of the dam and the same ten phyla associated with calf feces at various time points: Bacteroidetes, Firmicutes, Proteobacteria, Actinobacteria, Cyanobacteria, …
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Deep learning approach to metagenomic binning
… and overlapping reads limit what kinds of analysis we can do. Current methods require matching reads to a database of known microbes. These methods are either too slow or lack the sensitivity needed to identify novel species. We propose a convolutional neural network (CNN) based approach to …
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Patterns, Processes And Models Of Microbial Recovery In A Chronosequence Following Reforestation Of Reclaimed Mine Soils
… succession. This theory was also supported by metagenomic analysis of the functional genes. For example, the increased abundance of genes involved in virulence, defense and stress response along ages indicated increased competition between microorganisms, which is likely related to a decrease …
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The functional role of root-associated microbiome and metabolome of myrothamnus flabellifolia
… soil, and endosphere of M. flabellifolia. Metagenomic analysis unveiled prevalent bacterial phyla (Acidobacteriota, Actinobacteriota, Chloroflexota, Planctomycetota, and Pseudomonadota) and dominant fungal phyla (Ascomycota and Basidiomycota) across all zones. While the bulk soil hosted …
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