Oregon State University View Institution's Website 9 articles published in JoVE Environment Utilizing Soil Density Fractionation to Separate Distinct Soil Carbon Pools Derek Pierson*1,2, Kate Lajtha*1, Hayley Peter-Contesse*1, Amy Mayedo*1 1Department of Crop and Soil Sciences, Oregon State University, 2USDA Forest Service Soil density fractionation separates soil organic matter into distinct pools with differing stabilization mechanisms, chemistries, and turnover times. Sodium polytungstate solutions with specific densities allow the separation of free particulate organic matter and mineral-associated organic matter, resulting in organic matter fractions suitable for describing the soil response to management and climate change. Engineering Frugal Imaging Technique of Capillary Flow Through Three-Dimensional Polymeric Printing Powders Katrina J. Donovan1, James Stasiak2, Şebnem Özbek3, Willie E. Rochefort4, Travis W. Walker3 1Materials and Metallurgical Engineering Department, South Dakota School of Mines & Technology, 2HP Labs, HP Inc, 3Chemical and Biological Engineering Department, South Dakota School of Mines & Technology, 4School of Chemical, Biological, and Environmental Engineering, Oregon State University The proposed technique will provide a novel, efficient, frugal, and non-invasive approach for imaging fluidic flow through a packed powder bed, yielding high spatial and temporal resolution. Biology Collection and Identification of Pollen from Honey Bee Colonies Ellen Topitzhofer1, Hannah Lucas1, Emily Carlson1, Priyadarshini Chakrabarti1, Ramesh Sagili1 1Department of Horticulture, Oregon State University We describe methods for collecting corbicular pollen from honey bees as well as protocols for color sorting, acetolysis, and microscope slide preparation of pollen for taxonomic identification. In addition, we present pellet color and taxonomic diversity of corbicular pollen collected from five cropping systems using pollen traps. Environment Chemical Isolation, Quantification, and Separation of Skin Lipids from Reptiles Paige E. Baedke1, Holly R. Rucker1, Robert T. Mason2, M. Rockwell Parker1 1Department of Biology, James Madison University, 2Department of Integrative Biology, Oregon State University In reptiles, skin lipids from conspecifics are crucial for sexual signaling, with potential use in invasive species management. Here, we describe protocols for extracting skin lipids from shed skin or whole animals, determining and analyzing the total lipid mass, and separating the lipids using fractionation via column chromatography. Engineering Expression of Cementitious Pore Solution and the Analysis of Its Chemical Composition and Resistivity Using X-ray Fluorescence Marisol Tsui Chang1, Luca Montanari2, Prannoy Suraneni3, W. Jason Weiss1 1Civil and Construction Engineering, Oregon State University, 2SES Group and Associates LLC, Turner-Fairbank Highway Research Center, 3Civil, Architectural and Environmental Engineering, University of Miami This protocol describes the procedure to express fresh pore solution from cementitious systems and the measurement of its ionic composition using X-ray fluorescence. The ionic composition can be used to calculate pore solution electrical resistivity, which can be used, together with concrete electrical resistivity, to determine the formation factor. Environment Measuring Carbon-based Contaminant Mineralization Using Combined CO2 Flux and Radiocarbon Analyses Thomas J. Boyd1, Michael T. Montgomery1, Richard H. Cuenca2, Yutaka Hagimoto2 1Marine Biogeochemistry, Code 6114, US Naval Research Laboratory, 2Department of Biological and Ecological Engineering, Oregon State University A protocol is described wherein CO2 mineralized from organic contaminant (derived from petroleum feedstocks) biodegradation is trapped, quantified, and analyzed for 14C content. A model is developed to determine CO2 capture zone's spatial extent. Spatial and temporal measurements allow integrating contaminant mineralization rates for predicting remediation extent and time. Chemistry Preparation and Characterization of Individual and Multi-drug Loaded Physically Entrapped Polymeric Micelles Deepa A. Rao1, Duc X. Nguyen2, Gyan P. Mishra2, Bhuvana Shyam Doddapaneni2, Adam W. G. Alani2 1School of Pharmacy, Pacific University, 2Department of Pharmaceutical Sciences, College of Pharmacy, Oregon State University The goal of this protocol is to describe the preparation and characterization of physically entrapped, poorly water soluble drugs in micellar drug delivery systems composed of amphiphilic block copolymers. Biology A Hybrid DNA Extraction Method for the Qualitative and Quantitative Assessment of Bacterial Communities from Poultry Production Samples Michael J. Rothrock Jr.1, Kelli L. Hiett2, John Gamble3, Andrew C. Caudill4, Kellie M. Cicconi-Hogan1, J. Gregory Caporaso5 1Egg Safety and Quality Research Unit, USDA-Agricultural Research Service, 2Poultry Microbiological Safety and Processing Research Unit, USDA-Agricultural Research Service, 3Department of Biochemistry and Biophysics, Oregon State University, 4College of Public Health, University of Georgia, 5Department of Biological Sciences, Center for Microbial Genetics and Genomics, Northern Arizona University A novel semi-automated hybrid DNA extraction method for use with environmental poultry production samples was developed and demonstrated improvements over a common mechanical and enzymatic extraction method in terms of the quantitative and qualitative estimates of the total bacterial communities. Biology Ice-Cap: A Method for Growing Arabidopsis and Tomato Plants in 96-well Plates for High-Throughput Genotyping Shih-Heng Su1, Katie A. Clark2, Nicole M. Gibbs1, Susan M. Bush1, Patrick J. Krysan1 1Horticulture Department, University of Wisconsin-Madison, 2Department of Zoology, Oregon State University The Ice-Cap method allows one to grow plants in 96-well plates and non-destructively harvest root tissue from each seedling. DNA extracted from this root tissue can be used for genotyping reactions. We have found that Ice-Cap works well for Arabidopsis thaliana, tomato, and rice seedlings.