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Articles 1 - 5 of 5
Full-Text Articles in Life Sciences
Freshwater Metaviromics And Bacteriophages: A Current Assessment Of The State Of The Art In Relation To Bioinformatic Challenges, Katherine Bruder, Kema Malki, Alexandria Cooper, Emily Sible, Jason W. Shapiro, Siobhan C. Watkins, Catherine Putonti
Freshwater Metaviromics And Bacteriophages: A Current Assessment Of The State Of The Art In Relation To Bioinformatic Challenges, Katherine Bruder, Kema Malki, Alexandria Cooper, Emily Sible, Jason W. Shapiro, Siobhan C. Watkins, Catherine Putonti
Bioinformatics Faculty Publications
Advances in bioinformatics and sequencing technologies have allowed for the analysis of complex microbial communities at an unprecedented rate. While much focus is often placed on the cellular members of these communities, viruses play a pivotal role, particularly bacteria-infecting viruses (bacteriophages); phages mediate global biogeochemical processes and drive microbial evolution through bacterial grazing and horizontal gene transfer. Despite their importance and ubiquity in nature, very little is known about the diversity and structure of viral communities. Though the need for culture-based methods for viral identification has been somewhat circumvented through metagenomic techniques, the analysis of metaviromic data is marred with …
18s Rdna Dataset Profiling Microeukaryotic Populations Within Chicago Area Nearshore Waters, Daniel Searle, Emily Sible, Alexandria Cooper, Catherine Putonti
18s Rdna Dataset Profiling Microeukaryotic Populations Within Chicago Area Nearshore Waters, Daniel Searle, Emily Sible, Alexandria Cooper, Catherine Putonti
Bioinformatics Faculty Publications
Despite their critical role in the aquatic food web and nutrient cycling, microeukaryotes within freshwater environments are under-studied. Herein we present the first high-throughput molecular survey of microeukaryotes within Lake Michigan. Every two weeks from May 13 to August 5, 2014, we collected surface water samples from the nearshore waters of four Chicago area beaches: Gillson Park, Montrose Beach, 57th Street Beach, and Calumet Beach. Four biological replicates were collected for each sampling date and location, resulting in 112 samples. Eighty-nine of these samples were surveyed through targeted sequencing of the V7 and V8 regions of the 18S rDNA gene. …
Predicting Suitable Habitat Decline Of Midwestern United States Amphibians And Quantifying The Consequence Of Declines Using Pond-Breeding Salamanders, Brock Struecker
Predicting Suitable Habitat Decline Of Midwestern United States Amphibians And Quantifying The Consequence Of Declines Using Pond-Breeding Salamanders, Brock Struecker
Master's Theses
With current declines of vertebrate taxa meeting or exceeding those of historic mass extinction events, there is a growing need to investigate the main drivers of declines. Amphibians are perhaps at greatest risk of global climate change and land-use changes than most other vertebrate classes and also have significant roles in ecosystem processes – combined, this creates a cause for concern. I designed a study that would investigate the effects of current and predicted climate change and land-use changes on amphibians using species distribution models and a field study to identify the potential consequences of amphibian species declines by investigating …
Early Round Goby (Neogobius Melanostomus) Invasion Into Lake Michigan Tributaries And Competitive Interactions With Two Native Benthic Fishes., Margaret Ann Malone
Early Round Goby (Neogobius Melanostomus) Invasion Into Lake Michigan Tributaries And Competitive Interactions With Two Native Benthic Fishes., Margaret Ann Malone
Master's Theses
The round goby is a prolific invasive species and is currently spreading into Great Lake tributary streams. There is a high potential for negative impacts on native benthic fishes in these stream habitats and the aim of this study is to assess the impacts of the round goby on two native darter species in particular (johnny darter and blackside darter). I review the history of round goby invasion in the Great Lakes and summarize hypotheses of the invasive characters of the round goby. Using game theory, I provide a G-function approach to understanding the outcomes of the round goby invasion …
Aquatic Insect Community Structure And Secondary Production In Southcentral Alaska Streams With Contrasting Thermal And Hydrologic Regimes, Samantha D. Hertel
Aquatic Insect Community Structure And Secondary Production In Southcentral Alaska Streams With Contrasting Thermal And Hydrologic Regimes, Samantha D. Hertel
Master's Theses
Streams along the Copper River Delta, southcentral Alaska, exhibit contrasting thermal and hydrologic variability associated with being primarily groundwater-fed (GWF) or surface water-fed (SWF). Groundwater-fed streams are predictable both thermally and hydrologically year round, whereas SWF streams are unpredictable and exhibit more variable thermal and hydrologic regimes. These differences may strongly influence aquatic insect community structure and secondary production. Four streams, two GWF and two SWF, were sampled twice monthly from late April 2013 through August 2013 and once seasonally in fall (September) and early winter (November). Aquatic insect community structure differed markedly in both hydrologic types. Taxa richness was …