Open Access. Powered by Scholars. Published by Universities.®
Articles 1 - 5 of 5
Full-Text Articles in Engineering
Molecular Diversity Of Bacteroidales In Fecal And Environmental Samples And Swine-Associated Subpopulations, Regina Lamendella, Kent C. Li, Daniel B. Oerther, Jorge W. Santo Domingo
Molecular Diversity Of Bacteroidales In Fecal And Environmental Samples And Swine-Associated Subpopulations, Regina Lamendella, Kent C. Li, Daniel B. Oerther, Jorge W. Santo Domingo
Civil, Architectural and Environmental Engineering Faculty Research & Creative Works
Several swine-specific microbial source tracking methods are based on PCR assays targeting Bacteroidales 16S rRNA gene sequences. The limited application of these assays can be explained by the poor understanding of their molecular diversity in fecal sources and environmental waters. In order to address this, we studied the diversity of 9,340 partial (>600bp in length) Bacteroidales 16S rRNA gene sequences from 13 fecal sources and nine feces-contaminated watersheds. The compositions of major Bacteroidales populations were analyzed to determine which host and environmental sequences were contributing to each group. This information allowed us to identify populations which were both exclusive …
Comparative Fecal Metagenomics Unveils Unique Functional Capacity Of The Swine Gut, Regina Lamendella, Jorge W. Santo Domingo, Shreya Ghosh, John Martinson, Daniel B. Oerther
Comparative Fecal Metagenomics Unveils Unique Functional Capacity Of The Swine Gut, Regina Lamendella, Jorge W. Santo Domingo, Shreya Ghosh, John Martinson, Daniel B. Oerther
Civil, Architectural and Environmental Engineering Faculty Research & Creative Works
Background: Uncovering the taxonomic composition and functional capacity within the swine gut microbial consortia is of great importance to animal physiology and health as well as to food and water safety due to the presence of human pathogens in pig feces. Nonetheless, limited information on the functional diversity of the swine gut microbiome is available. Results: Analysis of 637, 722 pyrosequencing reads (130 megabases) generated from Yorkshire pig fecal DNA extracts was performed to help better understand the microbial diversity and largely unknown functional capacity of the swine gut microbiome. Swine fecal metagenomic sequences were annotated using both MG-RAST and …
Evaluation Of Swine-Specific Pcr Assays Used For Fecal Source Tracking And Analysis Of Molecular Diversity Of Swine-Specific "Bacteroidales" Populations, Regina Lamendella, Jorge W. Santo Domingo, Anthony C. Yannarell, Shreya Ghosh, Giovanni George Di, Roderick Ian Mackie, Daniel B. Oerther
Evaluation Of Swine-Specific Pcr Assays Used For Fecal Source Tracking And Analysis Of Molecular Diversity Of Swine-Specific "Bacteroidales" Populations, Regina Lamendella, Jorge W. Santo Domingo, Anthony C. Yannarell, Shreya Ghosh, Giovanni George Di, Roderick Ian Mackie, Daniel B. Oerther
Civil, Architectural and Environmental Engineering Faculty Research & Creative Works
In this study, we evaluated the specificity, distribution, and sensitivity of Prevotella strain-based (PF163 and PigBac1) and methanogen-based (P23-2) PCR assays proposed to detect swine fecal pollution in environmental waters. The assays were tested against 222 fecal DNA extracts derived from target and nontarget animal hosts and against 34 groundwater and 15 surface water samples from five different sites. We also investigated the phylogenetic diversity of 1,340 "Bacteroidales" 16S rRNA gene sequences derived from swine feces, swine waste lagoons, swine manure pits, and waters adjacent to swine operations. Most swine fecal samples were positive for the host-specific Prevotella-based PCR assays …
Bifidobacteria In Feces And Environmental Waters, Regina Lamendella, Jorge W. Santo Domingo, Catherine A. Kelty, Daniel B. Oerther
Bifidobacteria In Feces And Environmental Waters, Regina Lamendella, Jorge W. Santo Domingo, Catherine A. Kelty, Daniel B. Oerther
Civil, Architectural and Environmental Engineering Faculty Research & Creative Works
Bifidobacteria have been recommended as potential indicators of human fecal pollution in surface waters even though very little is known about their presence in nonhuman fecal sources. The objective of this research was to shed light on the occurrence and molecular diversity of this fecal indicator group in different animals and environmental waters. Genus- and species-specific 16S rRNA gene PCR assays were used to study the presence of bifidobacteria among 269 fecal DNA extracts from 32 different animals. Twelve samples from three wastewater treatment plants and 34 water samples from two fecally impacted watersheds were also tested. The species-specific assays …
Use Of 16s Rrna Gene Terminal Restriction Fragment Analysis To Assess The Impact Of Solids Retention Time On The Bacterial Diversity Of Activated Sludge, Pascal E. Saikaly, Peter George Stroot, Daniel B. Oerther
Use Of 16s Rrna Gene Terminal Restriction Fragment Analysis To Assess The Impact Of Solids Retention Time On The Bacterial Diversity Of Activated Sludge, Pascal E. Saikaly, Peter George Stroot, Daniel B. Oerther
Civil, Architectural and Environmental Engineering Faculty Research & Creative Works
Terminal restriction fragment length polymorphism (T-RFLP) analysis of 16S rRNA genes was used to investigate the reproducibility and stability in the bacterial community structure of laboratory-scale sequencing batch bioreactors (SBR) and to assess the impact of solids retention time (SRT) on bacterial diversity. Two experiments were performed. In each experiment two sets of replicate SBRs were operated for a periods of three times the SRT. One set was operated at an SRT of 2 days and another set was operated at an SRT of 8 days. Samples for T-RFLP analysis were collected from the two sets of replicate reactors. HhaI, …