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2007

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Differential Engagement Of Tim-1 During Activation Can Positively Or Negatively Costimulate T Cell Expansion And Effector Function, Vijay K. Kuchroo, Sheng Xiao, Nader Najafian, Jay Reddy, Monica Albin, Chen Zhu, Eric Jensen, Jaimie Imitola, Thomas Korn, Ana C. Anderson, Zheng Zhang, Cristina Gutierrez, Thomas Moll, Raymond A. Sobel, Dale T. Umetsu, Hideo Yagita, Hisaya Akiba, Terry Strom, Mohamed H. Sayegh, Rosemarie H. Dekruyff, Samia J. Khoury Jan 2007

Differential Engagement Of Tim-1 During Activation Can Positively Or Negatively Costimulate T Cell Expansion And Effector Function, Vijay K. Kuchroo, Sheng Xiao, Nader Najafian, Jay Reddy, Monica Albin, Chen Zhu, Eric Jensen, Jaimie Imitola, Thomas Korn, Ana C. Anderson, Zheng Zhang, Cristina Gutierrez, Thomas Moll, Raymond A. Sobel, Dale T. Umetsu, Hideo Yagita, Hisaya Akiba, Terry Strom, Mohamed H. Sayegh, Rosemarie H. Dekruyff, Samia J. Khoury

School of Veterinary and Biomedical Sciences: Faculty Publications

It has been suggested that T cell immunoglobulin mucin (Tim)-1 expressed on T cells serves to positively costimulate T cell responses. However, crosslinking of Tim-1 by its ligand Tim-4 resulted in either activation or inhibition of T cell responses, thus raising the issue of whether Tim-1 can have a dual function as a costimulator. To resolve this issue, we tested a series of monoclonal antibodies specifi c for Tim-1 and identifi ed two antibodies that showed opposite functional effects. One anti–Tim-1 antibody increased the frequency of antigen-specifi c T cells, the production of the proinfl ammatory cytokines IFN-γ and IL-17, …


A Protein Encoded By The Bovine Herpesvirus 1 Latency-Related Gene Interacts With Specific Cellular Regulatory Proteins, Including Ccaat Enhancer Binding Protein Alpha, Florencia Meyer, Sandra Perez, Vicki Geiser, Mark Sintek, Melissa Inman, Clinton J. Jones Jan 2007

A Protein Encoded By The Bovine Herpesvirus 1 Latency-Related Gene Interacts With Specific Cellular Regulatory Proteins, Including Ccaat Enhancer Binding Protein Alpha, Florencia Meyer, Sandra Perez, Vicki Geiser, Mark Sintek, Melissa Inman, Clinton J. Jones

Nebraska Center for Virology: Faculty Publications

Following acute infection, bovine herpesvirus 1 establishes latency in sensory neurons of trigeminal ganglia (TG). Reactivation from latency occurs periodically, resulting in the shedding of infectious virus. The latency-related (LR) RNA is abundantly expressed in TG of latently infected calves, and the expression of LR proteins is necessary for dexamethasone-induced reactivation from latency. Previously published studies also identified an alternatively spliced LR transcript which is abundantly expressed in TG at 7 days after infection and has the potential to encode a novel LR fusion protein. Seven days after infection is when extensive viral gene expression is extinguished in TG and …


Su.32. Myelin-Specific Regulatory T Cells Accumulate In The Central Nervous System, But Fail To Suppress Pathogenic Effector T Cells At The Peak Of Autoimmune Inflammation [Abstract Only], Thomas Korn, Mohamed Oukka, Jay Reddy, Estelle Betelli, Amit Awasthi, Raymond Sobel, Kai Wucherpfennig, Vijay K. Kuchroo Jan 2007

Su.32. Myelin-Specific Regulatory T Cells Accumulate In The Central Nervous System, But Fail To Suppress Pathogenic Effector T Cells At The Peak Of Autoimmune Inflammation [Abstract Only], Thomas Korn, Mohamed Oukka, Jay Reddy, Estelle Betelli, Amit Awasthi, Raymond Sobel, Kai Wucherpfennig, Vijay K. Kuchroo

Jay Reddy Publications

Treatment with ex vivo generated regulatory T cells (Treg) has been regarded as highly attractive therapeutic approach for autoimmune diseases. However, the dynamics and function of T-reg in autoimmunity are not well understood. Thus, we developed Foxp3gfp “knock-in” mice and myelin oligodendrocyte glycoprotein (MOG)35–55/IAb tetramers to track autoantigen-specific effector T cells (T-eff) and T-reg in vivo during experimental autoimmune encephalomyelitis, an animal model for multiple sclerosis. Following immunization with the encephalitogenic peptide MOG35–55 emulsified in complete Freund's adjuvant, MOG35–55-tetramer-reactive, Foxp3+ T-reg expanded in the peripheral lymphoid compartment and readily accumulated in the central nervous system (CNS), but did not prevent …


Species-Specific Visitation And Removal Of Baits For Delivery Of Pharmaceuticals To Feral Swine, Tyler A. Campbell, David B. Long Jan 2007

Species-Specific Visitation And Removal Of Baits For Delivery Of Pharmaceuticals To Feral Swine, Tyler A. Campbell, David B. Long

United States Department of Agriculture Wildlife Services: Staff Publications

Within the domestic swine industry there is growing trepidation about the role feral swine (Sus scrofa) play in the maintenance and transmission of important swine diseases. Innovative disease management tools for feral swine are needed. We used field trials conducted in southern Texas from February to March 2006 to compare species-specific visitation and removal rates of fish-flavored and vegetable-flavored baits with and without commercially available raccoon (Procyon lotor) repellent (trial 1) and removal rates of baits deployed in a systematic and cluster arrangement (trial 2). During trial 1, 1) cumulative bait removal rates after four nights …


Review Of Infectious Diseases Of Wild Rodents By Dennis Padovan, Robert G. Mclean Jan 2007

Review Of Infectious Diseases Of Wild Rodents By Dennis Padovan, Robert G. Mclean

United States Department of Agriculture Wildlife Services: Staff Publications

Infectious Diseases of Wild Rodents is a collection of reference material on a wide variety of infectious diseases documented in rodent species throughout the world. Editorially, this was a massive undertaking to provide a comprehensive and systematic coverage of the information on so many rodent species and infectious diseases in one volume. Although the information is not presented in much detail, the breadth of coverage makes this a good reference book for those interested in rodent diseases throughout the world. The information is presented in two different formats: disease information in the first part of the book is arranged by …


Airborne Dust Transport To The Eastern Pacific Ocean Off Southern California: Evidence From San Clemente Island, Daniel R. Muhs, James Budahn, Marith Reheis, Jossh Beann, Gary Skipp, Eric Fisher Jan 2007

Airborne Dust Transport To The Eastern Pacific Ocean Off Southern California: Evidence From San Clemente Island, Daniel R. Muhs, James Budahn, Marith Reheis, Jossh Beann, Gary Skipp, Eric Fisher

United States Geological Survey: Staff Publications

Islands are natural dust traps, and San Clemente Island, California, is a good example. Soils on marine terraces cut into Miocene andesite on this island are clay-rich Vertisols or Alfisols with vertic properties. These soils are overlain by silt-rich mantles, 5–20 cm thick, that contrast sharply with the underlying clay-rich subsoils. The silt mantles have a mineralogy that is distinct from the island bedrock. Silt mantles are rich in quartz, which is rare in the island andesite. The clay fraction of the silt mantles is dominated by mica, also absent from local andesite, and contrasts with the subsoils, dominated by …


Climate Change, Biofuels, And Global Food Security, Kenneth G. Cassman Jan 2007

Climate Change, Biofuels, And Global Food Security, Kenneth G. Cassman

Department of Agronomy and Horticulture: Faculty Publications

There is a new urgency to improve the accuracy of predicting climate change impact on crop yields because the balance between food supply and demand is shifting abruptly from surplus to deficit. This reversal is being driven by a rapid rise in petroleum prices and, in response, a massive global expansion of biofuel production from maize, oilseed, and sugar crops. Soon the price of these commodities will be determined by their value as feedstock for biofuel rather than their importance as human food or livestock feed [1]. The expectation that petroleum prices will remain high and supportive government policies in …


A Dialogue On Interdisciplinary Collaboration To Bridge The Gap Between Plant Genomics And Crop Sciences, P. C. Struik, Kenneth G. Cassman, M. Koornneef Jan 2007

A Dialogue On Interdisciplinary Collaboration To Bridge The Gap Between Plant Genomics And Crop Sciences, P. C. Struik, Kenneth G. Cassman, M. Koornneef

Department of Agronomy and Horticulture: Faculty Publications

In the future, more food needs to be produced with increasingly scarce natural resources. Genomics can play a key role in accelerating yield gains because it helps to improve our understanding of genetic traits and assists in breeding for better crop performance. The scientific muscle of genomics attracted tremendous research investments, but the efficiency with which these investments are paying off is still low. How can we accelerate the application of molecular genetics to our understanding of crop physiology and subsequently to crop improvement? The missing link is a more detailed understanding of the effects of gene function on crop …


Grassland Composition Affects Season Shifts In Seed Preference By Pogonomyrmex Barbatus (Hymenoptera: Myrmicinae) In The Edwards Plateau, Texas, Nancy Nicolai, Jerry L. Cook, Fred E. Smeins Jan 2007

Grassland Composition Affects Season Shifts In Seed Preference By Pogonomyrmex Barbatus (Hymenoptera: Myrmicinae) In The Edwards Plateau, Texas, Nancy Nicolai, Jerry L. Cook, Fred E. Smeins

Department of Agronomy and Horticulture: Faculty Publications

The effects of season and community composition as generated by livestock herbivory of differing intensity on seed species preference by Pogonomyrmex barbatus (F. Smith) were studied in a semiarid savanna on the Edward’s Plateau, TX. Seasonal differences in nutrient requirements of the colony could lead to differential preferences for seeds harvested in spring and fall. Field cafeteria studies were conducted to test the hypothesis that late successional species, with their high nutrient content, would be chosen regardless of grazing intensity or season. Commercial seeds of known nutrient content were used to test the hypothesis that high protein levels would be …


Nbs1 Mediates Atr-Dependent Rpa Hyperphosphorylation Following Replication-Fork Stall And Collapse, Karoline C. Manthey, Stephen Opiyo, Jason G. Glanzer, Diana Dimitrova, James Elliott, Gregory G. Oakley Jan 2007

Nbs1 Mediates Atr-Dependent Rpa Hyperphosphorylation Following Replication-Fork Stall And Collapse, Karoline C. Manthey, Stephen Opiyo, Jason G. Glanzer, Diana Dimitrova, James Elliott, Gregory G. Oakley

Department of Agronomy and Horticulture: Faculty Publications

Post-translational phosphorylation of proteins provides a mechanism for cells to switch on or off many diverse processes, including responses to replication stress. Replication-stress-induced phosphorylation enables the rapid activation of numerous proteins involved in DNA replication, DNA repair and cell cycle checkpoints, including replication protein A (RPA). Here, we report that hydroxyurea (HU)-induced RPA phosphorylation requires both NBS1 (NBN) and NBS1 phosphorylation. Transfection of both phosphospecific and nonphosphospecific anti-NBS1 antibodies blocked hyperphosphorylation of RPA in HeLa cells. Nijmegen breakage syndrome (NBS) cells stably transfected with an empty vector or with S343A-NBS1 or S278A/S343A phospho-mutants were unable to hyperphosphorylate RPA in DNA-damage-associated …


Simulation Study Of The Competitive Ability Of Erect, Semi-Erect, And Prostrate Cowpea (Vigna Unguiculata) Genotypes, G. Wang, M. E. Mcgiffen Jr., John L. Lindquist, J. D. Ehlers, I. Sartorato Jan 2007

Simulation Study Of The Competitive Ability Of Erect, Semi-Erect, And Prostrate Cowpea (Vigna Unguiculata) Genotypes, G. Wang, M. E. Mcgiffen Jr., John L. Lindquist, J. D. Ehlers, I. Sartorato

Department of Agronomy and Horticulture: Faculty Publications

Ecophysiological simulation models provide a quantitative method to predict the effects of management practices, plant characteristics, and environmental factors on crop and weed growth and competition. The INTERCOM interplant competition model was parameterized, calibrated by monoculture data for three cowpea (Vigna unguiculata) genotypes that differed in growth habit, common sunflower (Helianthus annuus) and common purslane (Portulaca oleracea), and used to simulate competition of cowpea cover crops with sunflower or purslane. The simulation results were compared with observations from field competition experiments in 2003 and 2004. INTERCOM more accurately simulated actual field data for the …


Cell Wall Proteome In The Maize Primary Root Elongation Zone. Ii. Region-Specific Changes In Water Soluble And Lightly Ionically Bound Proteins Under Water Deficit1[W][Oa], Jinming Zhu, Sophie Alvarez, Ellen L. Marsh, Mary E. Lenoble, In-Jeong Cho, Mayandi Sivaguru, Sixue Chen, Henry T. Nguyen, Yajun Wu, Daniel P. Schachtman, Robert E. Sharp Jan 2007

Cell Wall Proteome In The Maize Primary Root Elongation Zone. Ii. Region-Specific Changes In Water Soluble And Lightly Ionically Bound Proteins Under Water Deficit1[W][Oa], Jinming Zhu, Sophie Alvarez, Ellen L. Marsh, Mary E. Lenoble, In-Jeong Cho, Mayandi Sivaguru, Sixue Chen, Henry T. Nguyen, Yajun Wu, Daniel P. Schachtman, Robert E. Sharp

Department of Agronomy and Horticulture: Faculty Publications

Previous work on the adaptation of maize (Zea mays) primary roots to water deficit showed that cell elongation is maintained preferentially toward the apex, and that this response involves modification of cell wall extension properties. To gain a comprehensive understanding of how cell wall protein (CWP) composition changes in association with the differential growth responses to water deficit in different regions of the elongation zone, a proteomics approach was used to examine water soluble and loosely ionically bound CWPs. The results revealed major and predominantly region-specific changes in protein profiles between well-watered and water-stressed roots. In total, 152 …


Salt And Ph Tunable Resist Patterns On Polyelectrolyte Multilayers, Christina Chan, Ilsoon Lee, Srivatsan Kidambi Jan 2007

Salt And Ph Tunable Resist Patterns On Polyelectrolyte Multilayers, Christina Chan, Ilsoon Lee, Srivatsan Kidambi

Department of Chemical and Biomolecular Engineering: Faculty Publications

A method for selectively removing a resist material from the polycationic surface of a polyelectrolyte multilayer (PEM) ?lm, Without disturbing adhering interactions between the cationic ?lm surface and bound biomaterials such as cells, proteins, and nucleic acids. The resist material is one that that inhibits or prevents the further deposition of cells or other biomaterial; it thus masks the cationic surface from application of biomaterials. In one embodiment the resist material is a carboxy functional oxyalkylene oligomer. It is removed by exposing the ?lm containing the bound biomaterial and the bound resist material to a pH below 4.5, and/or to …


Cell Adhesion On Polyelectrolyte Multilayer Coated Polydimethylsiloxane Surfaces With Varying Topographies, Srivatsan Kidambi, Natasha Udpa, Stacey A. Schroeder, Robert Findlan, Ilsoon Lee, Christina Chan Jan 2007

Cell Adhesion On Polyelectrolyte Multilayer Coated Polydimethylsiloxane Surfaces With Varying Topographies, Srivatsan Kidambi, Natasha Udpa, Stacey A. Schroeder, Robert Findlan, Ilsoon Lee, Christina Chan

Department of Chemical and Biomolecular Engineering: Faculty Publications

This article demonstrates that the micro-topography of the surface with respect to the pattern size and pitch influences cell adhesion and proliferation. Extensive research has shown the dependence of cell proliferation on substrate chemistry, but the influence of substrate topography on cell attachment has only recently been appreciated. To evaluate the effect of substrate physical properties (i.e., periodic microstructures) on cell attachment and morphology, we compared the response of several cell types (fibroblasts, HeLa, and primary hepatocytes) cultured on various polydimethylsiloxane (PDMS) patterns. PDMS has been used as an artificial construct to mimic biological structures. Although PDMS is widely used …


Oral Treatment Of Hemophilia, Oral Alpan, Tirumalai Kamala, Polly Matzinger, William Hugold Velander Jan 2007

Oral Treatment Of Hemophilia, Oral Alpan, Tirumalai Kamala, Polly Matzinger, William Hugold Velander

Department of Chemical and Biomolecular Engineering: Faculty Publications

Disclosed herein is a simple method for the treatment of antigen-deficiency diseases, by orally administering to a subject a therapeutically effective amount of the deficient antigen, wherein the antigen is not present in a liposome. In one embodiment, the method increases hemostasis in a subject having hemophilia A or B, by orally administering to the hemophiliac a therapeutically effective amount of the appropriate clotting factor other than in a liposome, sufficient to induce oral tolerance and supply exogenous clotting factor to the subject.


Map Location Of The Rpp1 Locus That Confers Resistance To Soybean Rust In Soybean, D. L. Hyten, G. L. Hartman, R. L. Nelson, R. D. Frederick, V. C. Concibido, J. M. Narvel, P. B. Cregan Jan 2007

Map Location Of The Rpp1 Locus That Confers Resistance To Soybean Rust In Soybean, D. L. Hyten, G. L. Hartman, R. L. Nelson, R. D. Frederick, V. C. Concibido, J. M. Narvel, P. B. Cregan

Department of Agronomy and Horticulture: Faculty Publications

Soybean rust (SBR), caused by Phakopsora pachyrhizi, was first discovered in North America in 2004 and has the potential to become a major soybean [Glycine max (L.) Merr.] disease in the USA. Currently, four SBR resistance genes have been identifi ed but not mapped on the soybean genetic linkage map. One of these resistance genes is the Rpp1 gene, which is present in the soybean accession PI 200492. The availability of molecular markers associated with Rpp1 will permit marker-assisted selection and expedite the incorporation of this gene into U.S. cultivars. We compared simple sequence repeat (SSR) markers between …


Barcsoysnp23: A Panel Of 23 Selected Snps For Soybean Cultivar Identification, M. S. Yoon, Q.J. Song, I. Y. Choi, James E. Specht, D. L. Hyten, P. B. Cregan Jan 2007

Barcsoysnp23: A Panel Of 23 Selected Snps For Soybean Cultivar Identification, M. S. Yoon, Q.J. Song, I. Y. Choi, James E. Specht, D. L. Hyten, P. B. Cregan

Department of Agronomy and Horticulture: Faculty Publications

This report describes a set of 23 informative SNPs (BARCSoySNP23) distributed on 19 of the 20 soybean linkage groups that can be used for soybean cultivar identification. Selection of the SNPs to include in this set was made based upon the information provided by each SNP for distinguishing a diverse set of soybean genotypes as well as the linkage map position of each SNP. The genotypes included the ancestors of North American cultivars, modern North American cultivars and a group of Korean cultivars. The procedure used to identify this subset of highly informative SNP markers resulted in a significant increase …


Ethylene Involvement In The Regulation Of The H+-Atpase Csha1 Gene And Of The New Isolated Ferric Reductase Csfro1 And Iron Transporter Csirt1 Genes In Cucumber Plants, Brian M. Waters, Carlos Lucena, Francisco J. Romera, Gena G. Jester, April N. Wynn, Carmen L. Rojas, Esteban Alcántara, Rafael Pérez-Vicente Jan 2007

Ethylene Involvement In The Regulation Of The H+-Atpase Csha1 Gene And Of The New Isolated Ferric Reductase Csfro1 And Iron Transporter Csirt1 Genes In Cucumber Plants, Brian M. Waters, Carlos Lucena, Francisco J. Romera, Gena G. Jester, April N. Wynn, Carmen L. Rojas, Esteban Alcántara, Rafael Pérez-Vicente

Department of Agronomy and Horticulture: Faculty Publications

In previous works using ethylene inhibitors and precursors, it has been shown that ethylene participates in the regulation of several Fe-deficiency stress responses by Strategy I plants, such as enhanced ferric reductase activity, rhizosphere acidification, and subapical root hair development. Furthermore, recent evidence suggests that ethylene could regulate the expression of both the ferric reductase and the iron transporter genes of Strategy I plants by affecting the FER (or FER-like) transcription factor. Recently, two H+-ATPase genes have been isolated from cucumber roots, CsHA1 and CsHA2. CsHA1 is up-regulated under Fe deficiency while CsHA2 is constitutively expressed. In …


Fertility Restoration Of The Sorghum A3 Male-Sterile Cytoplasm Through A Sporophytic Mechanism Derived From Sudangrass, Hoang V. Tang, Jeffrey F. Pedersen, Christine D. Chase, Daryl R. Pring Jan 2007

Fertility Restoration Of The Sorghum A3 Male-Sterile Cytoplasm Through A Sporophytic Mechanism Derived From Sudangrass, Hoang V. Tang, Jeffrey F. Pedersen, Christine D. Chase, Daryl R. Pring

Department of Agronomy and Horticulture: Faculty Publications

Fertility restoration of sorghum [Sorghum bicolor (L.) Moench] lines carrying the IS1112C (A3 group) male-sterile cytoplasm has been documented as a two-gene gametophytic mechanism involving complementary action of restoring alleles designated Rf3 and Rf4, as derived from IS1112C. Fertility restoration capability has also been reported from sudangrass (S. bicolor subsp. drummondii) populations. We describe characteristics of a fertility restoration system derived from sudangrass, in which male-sterile individuals were observed at high frequency in backcross and F2-F3 segregating populations. Segregation analyses were consistent with a sporophytic restoration system involving two complementary genes. Pollen iodine staining in fertile …


Array-Based Genotyping And Expression Analysis Of Barley Cv. Maythorpe And Golden Promise, Harkamal Walia, Clyde Wilson, Pascal Condamine, Abdelbagi M. Ismail, Jin Xu, Xinping Cui, Timothy J. Close Jan 2007

Array-Based Genotyping And Expression Analysis Of Barley Cv. Maythorpe And Golden Promise, Harkamal Walia, Clyde Wilson, Pascal Condamine, Abdelbagi M. Ismail, Jin Xu, Xinping Cui, Timothy J. Close

Department of Agronomy and Horticulture: Faculty Publications

Background: Golden Promise is a salt-tolerant spring barley closely related to Maythorpe. Salt tolerance in Golden Promise has been attributed to a single mutation at the Ari-e locus (on 5H) resulting from irradiation of Maythorpe. Golden Promise accumulates lower shoot Na+ compared to Maythorpe when growing under saline conditions. This study focused on elucidating the genetic basis and mechanisms involved in this difference. Results: The level of polymorphism between the two genotypes was explored using the Barley1 GeneChip for single feature polymorphisms (SFPs) and an oligonucleotide pool assay for single nucleotide polymorphisms (SNPs). Polymorphism analyses revealed three haplotype blocks …


A “Sprinkler” Vegetative Treatment System, Jason Gross, Chris G. Henry Jan 2007

A “Sprinkler” Vegetative Treatment System, Jason Gross, Chris G. Henry

Department of Agricultural and Biological Systems Engineering: Presentations and White Papers

Vegetative Treatment Systems have historically been a practice for the treatment and utilization of open lot livestock wastes. Use of these systems has been rejuvenated in recent years. A “sprinkler” vegetative treatment area (VTA) has been designed and developed as a proof of concept for addressing challenges experienced with small and medium Animal Feeding Operations. The focus of this paper is to report on the design, economics, challenges and the lessons learned on the development of this system. Cost data shows the cost of a “sprinkler” VTS to range between $31 to $63/head, compared to $51 to $170/head for a …


Sharing Distance Education Courses Among Universities, Leon Schmacher, Thomas Brumm, John Slocombe, Jack L. Schinstock Jan 2007

Sharing Distance Education Courses Among Universities, Leon Schmacher, Thomas Brumm, John Slocombe, Jack L. Schinstock

Department of Agricultural and Biological Systems Engineering: Presentations and White Papers

Four universities collaborated to develop mechanized systems management (agricultural systems management, agricultural systems technology, etc.) courses to be shared via distance education. Funded by a USDA Higher Education Challenge Grant, these undergraduate and graduate courses were initially offered to students at Iowa State University, Kansas State University, the University of Missouri, and the University of Nebraska-Lincoln. This effort is affiliated with the Great Plains Interactive Distance Education Alliance (Great Plains IDEA).

The objectives of this cooperative effort were to: (1) develop a collaborative, multi-state educational effort to add depth and breadth to each university’s instructional program in mechanized systems management; …


Discrimination Of Bacteria And Bacteriophages By Raman Spectroscopy And Surface-Enhanced Raman Spectroscopy, Lindsay J. Goeller, Mark R. Riley Jan 2007

Discrimination Of Bacteria And Bacteriophages By Raman Spectroscopy And Surface-Enhanced Raman Spectroscopy, Lindsay J. Goeller, Mark R. Riley

Department of Agricultural and Biological Systems Engineering: Faculty Publications

Detection of pathogenic organisms in the environment presents several challenges due to the high cost and long times typically required for identification and quantification. Polymerase chain reaction (PCR) based methods are often hindered by the presence of polymerase inhibiting compounds and so direct methods of quantification that do not require enrichment or amplification are being sought. This work presents an analysis of pathogen detection using Raman spectroscopy to identify and quantify microorganisms without drying. Confocal Raman measurements of the bacterium Escherichia coli and of two bacteriophages, MS2 and PRD1, were analyzed for characteristic peaks and to estimate detection limits using …


Introducing Journal Of Biological Engineering, Mark R. Riley Jan 2007

Introducing Journal Of Biological Engineering, Mark R. Riley

Department of Agricultural and Biological Systems Engineering: Faculty Publications

Welcome to Journal of Biological Engineering (JBE), the flagship publication of the Institute of Biological Engineering. Biological Engineering is a new and unique discipline that encompasses a wide range of engineering theory and practice connected to and derived from biology. This emerging science-based engineering discipline and related applications are experiencing rapid growth. Prior to publication of JBE there is no refereed publication that encompasses the breadth and depth of biological engineering as a science- based discipline, rather than a collection of applications. Our goal in publishing JBE is to provide a forum for topics that address the foundational …


Biocompatibility Of Te–As–Se Glass Fibers For Cell-Based Bio-Optic Infrared Sensors, Allison A. Wilhelm, Pierre Lucas, Diana L. Derosa, Mark R. Riley Jan 2007

Biocompatibility Of Te–As–Se Glass Fibers For Cell-Based Bio-Optic Infrared Sensors, Allison A. Wilhelm, Pierre Lucas, Diana L. Derosa, Mark R. Riley

Department of Agricultural and Biological Systems Engineering: Faculty Publications

The chemical stability and toxicity of Te–As–Se (TAS) infrared fibers are investigated. These fibers are used for biosensing applications that involve direct contact with live cultivated human cells. It is shown that TAS fibers exhibit a small oxidation layer after extended exposure to air. This layer is highly soluble in water and easily removed. However, the TAS glass itself is stable in water over several days. While oxidized fibers release arsenate ions, which result in toxic effects to the cells, fresh or washed fibers show no toxic effects. A good correlation is shown between surface etching and the disappearance of …


Subsurface Characterization Using Textural Features Extracted From Gpr Data, R. S. Freeland, Lameck O. Odhiambo Jan 2007

Subsurface Characterization Using Textural Features Extracted From Gpr Data, R. S. Freeland, Lameck O. Odhiambo

Department of Agricultural and Biological Systems Engineering: Faculty Publications

Subsurface conditions can be non-intrusively mapped by observing and grouping patterns of similarity within ground-penetrating radar (GPR) profiles. We have observed that the intricate and often visually indiscernible textural variability found within a complex GPR image possesses important parameters that help delineate regions of similar subsurface characteristics. In this study, we therefore examined the feasibility of using textural features extracted from GPR data to automate subsurface characterization. The textural features were matched to a “fingerprint” database of previous subsurface classifications of GPR textural features and the corresponding physical probings of subsurface conditions. Four textural features (energy, contrast, entropy, and homogeneity) …


Analysis Of An Ion‐Selective Electrode Based Methodology For Integrated On‐The‐Go Mapping Of Soil Ph, Potassium, And Nitrate Contents, B. Sethuramasamyraja, V. I. Adamchuk, D. B. Marx, A. Dobermann, G. E. Meyer, D. D. Jones Jan 2007

Analysis Of An Ion‐Selective Electrode Based Methodology For Integrated On‐The‐Go Mapping Of Soil Ph, Potassium, And Nitrate Contents, B. Sethuramasamyraja, V. I. Adamchuk, D. B. Marx, A. Dobermann, G. E. Meyer, D. D. Jones

Department of Agricultural and Biological Systems Engineering: Faculty Publications

Knowledge of the spatial variation of soil attributes is critical for precision agriculture. On‐the‐go soil sensors have been able to provide relatively high mapping density while assessing this variation. A new ion‐selective electrode (ISE) based approach was developed and tested for simultaneous mapping of soil pH, residual nitrate (NO3 -), and soluble potassium (K+) contents. In this article, results of laboratory experiments investigating the effects of key measurement factors on ISE performance are presented. In addition to four different soils, these factors included: soil/water ratio (SWR), quality of water used for electrode rinsing (QWR) and for …


Protection With Recombinant Clostridium Botulinum C1 And D Binding Domain Subunit (Hc) Vaccines Against C And D Neurotoxins, Robert P. Webb, Theresa J. Smith, Patrick M. Wright, Vicki A. Montgomery, Michael M. Meagher, Leonard A. Smith Jan 2007

Protection With Recombinant Clostridium Botulinum C1 And D Binding Domain Subunit (Hc) Vaccines Against C And D Neurotoxins, Robert P. Webb, Theresa J. Smith, Patrick M. Wright, Vicki A. Montgomery, Michael M. Meagher, Leonard A. Smith

Michael Meagher Publications

Recombinant botulinum Hc (rBoNT Hc) vaccines for serotypes C1 and D were produced in the yeast Pichia pastoris and used to determine protection against four distinct BoNT C and D toxin subtypes. Mice were vaccinated with rBoNT/C1 Hc, rBoNT/D Hc, or with a combination of both vaccines and challenged with BoNT C1, D, C/D, or D/C toxin. Mice receiving monovalent vaccinations were partially or completely protected against homologous toxin and not protected against heterologous toxin. Bivalent vaccine candidates completely survived challenges from all toxins except D/C toxin. These results indicate the recombinant C1 and D Hc vaccines are not only …


The Sep15 Protein Family: Roles In Disulfide Bond Formation And Quality Control In The Endoplasmic Reticulum, Vyacheslav M. Labunskyy, Dolph L. Hatfield, Vadim N. Gladyshev Jan 2007

The Sep15 Protein Family: Roles In Disulfide Bond Formation And Quality Control In The Endoplasmic Reticulum, Vyacheslav M. Labunskyy, Dolph L. Hatfield, Vadim N. Gladyshev

Vadim Gladyshev Publications

Disulfide bonds play an important role in the structure and function of membrane and secretory proteins. The formation of disulfide bonds in the endoplasmic reticulum (ER) of eukaryotic cells is catalyzed by a complex network of thiol-disulfide oxidoreductases. Whereas a number of ER-resident oxidoreductases have been identified, the function of only a few of them is firmly established. Recently, a selenocysteine-containing oxidoreductase, Sep15, has been implicated in disulfide bond assisted protein folding, and a role in quality control for this selenoprotein has been proposed. This review summarizes up-to-date information on the Sep15 family proteins and highlights new insights into their …


Evolutionary Dynamics Of Eukaryotic Selenoproteomes: Large Selenoproteomes May Associate With Aquatic Life And Small With Terrestrial Life, Alexei Lobanov, Dmitri E. Fomenko, Yan Zhang, Aniruddha Sengupta Jan 2007

Evolutionary Dynamics Of Eukaryotic Selenoproteomes: Large Selenoproteomes May Associate With Aquatic Life And Small With Terrestrial Life, Alexei Lobanov, Dmitri E. Fomenko, Yan Zhang, Aniruddha Sengupta

Vadim Gladyshev Publications

Background: Selenocysteine (Sec) is a selenium-containing amino acid that is co-translationally inserted into nascent polypeptides by recoding UGA codons. Selenoproteins occur in both eukaryotes and prokaryotes, but the selenoprotein content of organisms (selenoproteome) is highly variable and some organisms do not utilize Sec at all.

Results: We analyzed the selenoproteomes of several model eukaryotes and detected 26 and 29 selenoprotein genes in the green algae Ostreococcus tauri and Ostreococcus lucimarinus, respectively, five in the social amoebae Dictyostelium discoideum, three in the fly Drosophila pseudoobscura, and 16 in the diatom Thalassiosira pseudonana, including several new selenoproteins. Distinct …