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 20 for “"metatranscriptomics"”.
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Metatranscriptomics Analysis of Ileum Microbial Communities in Necrotic Enteritis Chickens
… this project was the first research employing metatranscriptomics approach on ileum part of intestine.</p> <p>The metatranscriptomics analysis resulted in 7796 transcripts. It was found that only six bacteria showed significant differences (~5%) on a species level amongst the three groups for …
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Examination of the nematostella vectensis holobiont by comparative bacterial genomics and metatranscriptomics
Previous work has shown that similar microbial populations are associated with the starlet sea anemone Nematostella vectensis over distinct temporal and geographic locations; however, the functions these bacteria may be performing within their anemone hosts and the mechanisms with which the …
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Microbial metatranscriptomics : towards understanding microbial gene expression and regulation in natural habitats
… and applications of deep sequencing-based metatranscriptomics, for profiling community transcriptomes on spatial and temporal scales. Several findings and relevant hypotheses have emerged from this work. I show that transcripts of house-keeping genes necessary for the maintenance of basic …
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A combined metagenomics and metatranscriptomics approach to assess the occurrence and reduction of pathogenic bacteria in municipal wastewater treatment plants
Submitted in fulfillment for the Degree of Doctor of Philosophy in (Biotechnology), Durban University of Technology, Durban, South Africa, 2023.
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Strain-resolved transcriptomics: exploring functional heterogeneity of the gut microbiota in health and disease
… mechanisms. Here, we developed a strain-resolved metatranscriptomics framework to investigate how transcriptional activity varies across bacterial lineages and relates to IBD pathogenesis. Using paired metagenomics and metatranscriptomics data from 1,067 fecal samples (103 IBD and 335 non-IBD …
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Towards a mechanistic understanding of contaminant attenuation and greenhouse gas emissions in open-water engineered wetlands
… an integration of field-scale genome-resolved metatranscriptomics, porewater profiling, and greenhouse gas fluxes with inhibition microcosms manipulating redox conditions to interrogate specific metabolisms, pathways which occurred simultaneously in-situ were decoupled and associated with …
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Metatranscriptomic analysis of community structure and metabolism of the rhizosphere microbiome.
… is about the plant microbiome. Here, comparative metatranscriptomics was used to determine taxonomic compositions and metabolic responses of microbes in soil and the rhizospheres of wheat, oat and pea. Additionally a wild-type oat was compared to a mutant (sad1) deficient in production of …
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Unearthing the mechanisms of the mycorrhizal-bacterial symbiosis in plant roots using a metatranscriptomic approach
… metabolically active community of bacteria, and metatranscriptomics provides a capable tool to uncover the functional basis of such complex, obligate symbioses.
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The Influence of Prebiotics, Probiotics, and Exposure to an Opportunistic Pathogen on the Intestinal Microbiome of White Shrimp (Litopenaeus vannamei)
… Sequencing methods such as metagenomics or metatranscriptomics should be utilized for a higher microbiome resolution. Furthermore, the use of quantitative polymerase chain reaction to quantify ingested probiotic spores, prebiotic-associated bacteria, and VP-EMS is recommended.
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Analysis of microbes in Greenland ice cores from periods of high and low atmospheric carbon dioxide levels
… distinct past periods of time. Metagenomics and metatranscriptomics offer means to perform comprehensive analyses of microbial genes and taxa within the ice. During the past 400,000 years, fluctuations in atmospheric carbon dioxide levels have directly coincided with temperature fluctuations. …
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The mucosal microbiome of inflammatory bowel diseases
… mucosal samples for shotgun metagenomics or metatranscriptomics. Taxonomic classification is a corner stone for the characterisation of microbial communities, but currently many studies are limited to genus level classification. Thus, we developed SPINGO, a flexible and stand-alone software …
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Antimicrobial resistance gene monitoring in aquatic environments
… of longitudinal samples through the use of metatranscriptomics, and the presence of potential environmental antimicrobial selection pressures was examined. This demonstrated that the abundance of ARGs, as well as antimicrobial usage at the effluent source, was correlated with the …
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Structural dynamics of community gene expression In a freshwater cyanobacterial bloom over a day-night cycle
Studies of community gene expression, or metatranscriptomics, provide a powerful approach for quantifying changes in both the taxonomic composition (structure) and activity (function) of complex microbial systems in response to dynamic environmental conditions. We have used next-generation Illumina …
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Insights into Adaptations of Biogas-Producing Microbial Communities from Taxonomic Profiling, Metagenomically Assembled Genomes and Analysis of the Methanogenic Isolate Methanothermobacter wolfeii SIV6
… wolfeii* SIV6, in combination with *in situ* metatranscriptomics and metagenomics, revealed specific genome features as potential adaptations of this strain, that could explain its competitiveness under the thermophilic process conditions of the corresponding biogas digester. The high …
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Development of new tools and applications for high-throughput sequencing of microbiomes in environmental or clinical samples
… to some applications like metagenomics and metatranscriptomics, and therefore pyrosequencing remains the dominant sequencing technique in these fields. The primary reason short-read technologies have not been used for metagenomic analyses is due to the difficulty of confidently assigning …
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Investigating the roles of microbial immigration in wastewater treatment processes
… activities of immigrants in AD. Metagenomics and metatranscriptomics analyses were used to demonstrate that feed sludge-associated immigrants were capable of anaerobic respiration using nitrate, nitrite, sulfate, and sulfur. When these electron acceptors were added to fresh AD sludge, populations …
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Molecular mechanisms of microbial interactions in model systems and natural environments
Marine microbes are dominant life forms in the ocean and comprise dynamic populations of viruses, bacteria, archaea and single-celled eukaryotes. Interactions between marine microbes impact global biogeochemical cycles and form the base of marine food webs. Interactions range from symbiotic to …
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Resolving the molecular ecology of marine microbial eukaryotes with metatranscriptomes
The surface waters of the North Pacific ocean host diverse populations of microbial eukaryotes, who collectively mediate the flux of energy and matter in their environment with a significant impact on global biogeochemical cycles. The evolutionary history of these organisms spans billions of years …
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Resolving functional resilience of microbial communities to climate-induced change in the McMurdo Dry Valleys of Antarctica
The McMurdo Dry Valleys of Antarctica are an abiotically driven ecosystem characterized by having a very simple trophic structure dominated by microbial communities, whose diversity is shaped by extreme abiotic gradients, particularly extreme aridity and oligotrophy. Regional isolation and …
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Biological degradation of soluble microbial products in a combined system of anaerobic packed-bed reactors and a down-flow hanging sponge reactor
Anaerobic biological processes are a reliable alternative to the conventional activated sludge process for the treatment of high-strength industrial wastewater, offering various advantages. Such advantages include, for example, less sludge generation, less operational cost, greater energy recovery, …