Mississippi State University View Institution's Website 11 articles published in JoVE Genetics A Pathway Association Study Tool for GWAS Analyses of Metabolic Pathway Information Adam Thrash1, Marilyn L Warburton2 1Institute for Genomics, Biocomputing & Biotechnology, Mississippi State University, 2Corn Host Plant Resistance Research Unit, USDA-ARS By running the Pathway Association Study Tool (PAST), either through the Shiny application or through the R console, researchers can gain a deeper understanding of the biological meaning of their genome-wide association study (GWAS) results by investigating the metabolic pathways involved. Biology Repeatable Stair-step Assay to Access the Allelopathic Potential of Weedy Rice (Oryza sativa ssp.) Brooklyn C. Schumaker1, Shandrea Stallworth1, Edicarlos De Castro1, Mary Grace Fuller1, Swati Shrestha1, Te-Ming Tseng1 1Department of Plant and Soil Science, Mississippi State University Allelopathy has shown promise as a useful supplemental weed control strategy in cropping systems. To determine the allelopathic potential of a desired plant specimen, a stair-step screening method is provided. Genetics Genome-wide Surveillance of Transcription Errors in Eukaryotic Organisms Clark Fritsch1,2, Jean-Francois Pierre Gout3,4, Marc Vermulst1 1 This protocol provides researchers with a new tool to monitor the fidelity of transcription in multiple model organisms. Environment Protocol for Assessing the Relative Effects of Environment and Genetics on Antler and Body Growth for a Long-lived Cervid Eric S. Michel1,2, Emily B. Flinn1, Stephen Demarais1, Bronson K. Strickland1, Guiming Wang1, Chad M. Dacus3 1Department of Wildlife, Fisheries and Aquaculture, Mississippi State University, 2Department of Natural Resource Management, South Dakota State University, 3Mississippi Department of Wildlife, Fisheries and Parks Phenotypic differences among cervid populations may be related to population-level genetics or nutrition; discerning which is difficult in the wild. This protocol describes how we designed a controlled study where nutritional variation was eliminated. We found that phenotypic variation of male white-tailed deer was more limited by nutrition than genetics. Bioengineering Modified Drop Tower Impact Tests for American Football Helmets G. Alston Rush1,2, R. Prabhu1, Gus A. Rush III3, Lakiesha N. Williams1, M. F. Horstemeyer2,4 1Agricultural and Biological Engineering, Mississippi State University, 2Center for Advanced Vehicular Systems, Mississippi State University, 3Rush Sport Medical, 4Mechanical Engineering, Mississippi State University This article provides a novel technique to assess the performance characteristics of American football helmets by inclusion of faceguards during NOCSAE Standard drop tests. Additionally, two more impact locations are proposed to be added to the NOCSAE certification. Developmental Biology The Power of Simplicity: Sea Urchin Embryos as in Vivo Developmental Models for Studying Complex Cell-to-cell Signaling Network Interactions Ryan C. Range1, Marina Martinez-Bartolomé1, Stephanie D. Burr1 1Department of Biological Sciences, Mississippi State University This video article details a straightforward in vivo methodology that can be used to systematically and efficiently characterize components of complex signaling pathways and regulatory networks in many invertebrate embryos. Bioengineering A Coupled Experiment-finite Element Modeling Methodology for Assessing High Strain Rate Mechanical Response of Soft Biomaterials Rajkumar Prabhu1, Wilburn R. Whittington2, Sourav S. Patnaik1, Yuxiong Mao2, Mark T. Begonia1, Lakiesha N. Williams1, Jun Liao1, M. F. Horstemeyer2 1Department of Agricultural and Biological Engineering, Mississippi State University, 2Center for Advanced Vehicular Systems, Mississippi State University The current study prescribes a coupled experiment-finite element simulation methodology to obtain the uniaxial dynamic mechanical response of soft biomaterials (brain, liver, tendon, fat, etc.). The multiaxial experimental results that arose because of specimen bulging obtained from Split-Hopkinson Pressure Bar testing were rendered to a uniaxial true stress-strain behavior when simulated through iterative optimization of the finite element analysis of the biomaterial. Neuroscience Laser Capture Microdissection - A Demonstration of the Isolation of Individual Dopamine Neurons and the Entire Ventral Tegmental Area Evangel Kummari1, Shirley X. Guo-Ross1, Jeffrey B. Eells1 1Department of Basic Sciences, Mississippi State University College of Veterinary Medicine The isolation of individual dopamine neurons or the ventral tegmental area with direct or indirect immunohistochemistry is demonstrated using laser capture microdissection. Parameters for isolation of tissue from a glass slide using an infrared laser and from membrane slides using the combination of an infrared and ultraviolet laser are discussed. Bioengineering Design of a Cyclic Pressure Bioreactor for the Ex Vivo Study of Aortic Heart Valves Kimberly J. Schipke1, S. D. Filip To1, James N. Warnock1 1Department of Agricultural and Biological Engineering, Mississippi State University A cyclic pressure bioreactor capable of subjecting heart valve tissue to physiological and pathological pressure conditions has been designed. A LabVIEW program allows users to control pressure magnitude, amplitude and frequency. This device can be used to study the mechanobiology of heart valve tissue or isolated cells. Immunology and Infection Use of Fluorescent Immuno-Chemistry for the detection of Edwardsiella ictaluri in channel catfish (I. punctatus) samples Simon Menanteau-Ledouble1, Mark Lawrence1 1Department of Basic Sciences, Mississippi State University Here we describe a procedure allowing the labeling of Edwardsiella ictaluri in situ in histological sections from channel catfish Ictalurus punctatus using indirect immunohistochemistry with monoclonal antibodies Ed9 as a primary, and fluorescent FitC labeled antibodies as a secondary. This allowed for the detection of the bacterium using fluorescent microscopy. Biology Isolation and Derivation of Mouse Embryonic Germinal Cells Harold Moreno-Ortiz1, Clara Esteban-Perez1, Wael Badran1, Marijo Kent-First1 1Reproductive Genetics and Stem Cell Laboratory, Department of Biological Sciences, Mississippi State University The ability of embryonic germinal cells to differentiate into primordial germinal cells during early development stages is a perfect model to address our hypothesis about cancer and infertility. This protocol shows how to isolate primordial germinal cells from developing gonads in 10.5-11.5 days post coitum mouse embryos.
