Physical Sciences and Mathematics Commons^™

Mapping The Patent Landscape Of Synthetic Biology For Fine Chemical Production Pathways, Pablo Carbonell, Abdullah Gok, Philip Shapira, Jean-Loup Faulon

Philip Shapira

U.S. Billion-Ton Update: Biomass Supply For A Bioenergy And Bioproducts Industry, Robert D. Perlack, Laurence M. Eaton, Anthony F. Turhollow Jr., Matt H. Langholtz, Craig C. Brandt, Mark E. Downing, Robin L. Graham, Lynn L. Wright, Jacob M. Kavkewitz, Anna M. Shamey, Richard G. Nelson, Bryce J. Stokes, William L. Rooney, David J. Muth Jr., J. Richard Hess, Jared M. Abodeely, Chad Hellwinckel, Danial De La Torre Ugarte, Daniel C. Yoder, James P. Lyon, Timothy G. Rials, Timothy A. Volk, Thomas S. Buchholz, Lawrence P. Abrahamson, Robert P. Anex, Thomas B. Voigt, William Berguson, Don E. Riemenschneider, Douglas Karlen, Jane M. F. Johnson, Robert B. Mitchell, Kenneth P. Vogel, Edward P. Richard Jr., John Tatarko, Larry E. Wagner, Kenneth E. Skog, Patricia K. Lebow, Dennis P. Dykstra, Marilyn A. Buford, Patrick D. Miles, D. Andrew Scott, James H. Perdue, Robert B. Rummer, Jamie Barbour, John A. Stanturf, David B. Mckeever, Ronald S. Zalesny Jr., Edmund A. Gee, P. Daniel Cassidy, David Lightle

Douglas L Karlen

The Report, Biomass as Feedstock for a Bioenergy and Bioproducts Industry: The Technical Feasibility of a Billion-Ton Annual Supply (generally referred to as the Billion-Ton Study or 2005 BTS), was an estimate of “potential” biomass within the contiguous United States based on numerous assumptions about current and future inventory and production capacity, availability, and technology. In the 2005 BTS, a strategic analysis was undertaken to determine if U.S. agriculture and forest resources have the capability to potentially produce at least one billion dry tons of biomass annually, in a sustainable manner—enough to displace approximately 30% of the country’s present petroleum …

Biofield Treatment: A Potential Strategy For Modification Of Physical And Thermal Properties Of Indole, Mahendra Kumar Trivedi, Rama Mohan Tallapragada, Alice Branton, Dahryn Trivedi, Gopal Nayak, Rakesh K. Mishra, Snehasis Jana

Mahendra Kumar Trivedi

Structural And Physical Properties Of Biofield Treated Thymol And Menthol, Mahendra Kumar Trivedi, Shrikant Patil, Rakesh K. Mishra, Snehasis Jana

Mahendra Kumar Trivedi

Algal Biomass As A Binding Agent For The Densification Of Miscanthus, Sunil Thapa, Daniel B. Johnson, Peter Ping Liu, Thomas Canam

Thomas Canam

Purpose: Lignocellulosic biomass has been regarded as an important future energy source due to its excessive availability; however, the wide application of this material for many applications is restricted by the high costs associated with densification, transportation, thermo-chemical pretreatment and conversion. In order to increase the density of lignocellulosic biomass, it is typically compressed into pellets or briquettes. This frequently requires the addition of additives, which may negatively impact the economics of the process. Environmentally-friendly binding agents that can be obtained inexpensively are therefore desirable. This study examines the change in physicochemical properties of densified Miscanthus straw where algae were …

Modeled Impacts Of Cover Crops And Vegetative Barriers On Corn Stover Availability And Soil Quality, Ian J. Bonner, David J. Muth Jr., Joshua B. Koch, Douglas L. Karlen

David J. Muth

Environmentally benign, economically viable, and socially acceptable agronomic strategies are needed to launch a sustainable lignocellulosic biofuel industry. Our objective was to demonstrate a landscape planning process that can ensure adequate supplies of corn (Zea mays L.) stover feedstock while protecting and improving soil quality. The Landscape Environmental Assessment Framework (LEAF) was used to develop land use strategies that were then scaled up for five U.S. Corn Belt states (Nebraska, Iowa, Illinois, Indiana, and Minnesota) to illustrate the impact that could be achieved. Our results show an annual sustainable stover supply of 194 million Mg without exceeding soil erosion T …

Modeled Impacts Of Cover Crops And Vegetative Barriers On Corn Stover Availability And Soil Quality, Ian J. Bonner, David J. Muth Jr., Joshua B. Koch, Douglas L. Karlen

Douglas L Karlen

Sensitivity Analysis And Parameter Identification For A Nonlinear Time-Delay System In Microbial Fed-Batch Process, Chongyang Liu

Chongyang Liu

Developing suitable dynamic models of bioprocess is a difficult issue in bioscience. In this paper, considering the microbial metabolism mechanism, i.e., the production of new biomass is delayed by the amount of time it takes to metabolize the nutrients, in glycerol bioconversion to 1,3-propanediol, we propose a nonlinear time-delay system to formulate the fed-batch fermentation process. Some important properties are also discussed. Then, in view of the effect of time-delay and the high number of kinetic parameters in the system, the parametric sensitivity analysis is used to determine the key parameters. Finally, a parameter identification model is presented and a …

Inducing A Dielectric Barrier Discharge Plasma Within A Package, Vladimir Milosavljevic

Vladimir Milosavljevic

Cold atmospheric plasma offers significant potential as a nonthermal decontamination tool for food and medical applications. We present results of a dielectric barrier discharge (DBD) plasma induced in a gas confined by a polymer package. The resultant discharge and contained afterglow are found to have a strong antimicrobial effect.

Inducing A Dielectric Barrier Discharge Plasma Within A Package, Vladimir Milosavljevic

Vladimir Milosavljevic

Cold atmospheric plasma offers significant potential as a nonthermal decontamination tool for food and medical applications. We present results of a dielectric barrier discharge (DBD) plasma induced in a gas confined by a polymer package. The resultant discharge and contained afterglow are found to have a strong antimicrobial effect.

Sweet Sorghum As A Bioenergy Crop: Literature Review, Teshome Regassa

Teshome H. Regassa

No abstract provided.

The Contested Vision For Agriculture's Future: Sustainable Intensive Agriculture And Agroecology, Drew Kershen

Drew L. Kershen

No abstract provided.

Fractal Approach To Heat Transfer In Silkworm Cocoon Hierarchy, Dong-Dong Fei, Fu-Juan Liu, Qiu-Na Cui, Ji-Huan He

Ji-Huan He

Silkworm cocoon has a complex hierarchic structure with discontinuity. In this paper, heat transfer through the silkworm cocoon is studied using fractal theory. The fractal approach has been successfully applied to explain the fascinating phenomenon of cocoon survival under extreme temperature environment. A better understanding of heat transfer mechanisms for the cocoon could be beneficial to the design of biomimetic clothes for special applications.

Microfabricated Nanotopological Surfaces For Study Of Adhesion-Dependent Cell Mechanosensitivity, Weiqiang Chen, Yubing Sun, Jianping Fu

Weiqiang Chen

Cells exhibit high sensitivity and diverse responses to the intrinsic nanotopography of the extracellular matrix through their nanoscale cellular sensing machinery. A simple microfabrication method for precise control and spatial patterning of the local nanoroughness on glass surfaces by using photolithography and reactive ion etching is reported. It is demonstrated that local nanoroughness as a biophysical cue could regulate a diverse array of NIH/3T3 fi broblast behaviors, including cell morphology, adhesion, proliferation, migration, and cytoskeleton contractility. The capability to control and further predict cellular responses to nanoroughness might suggest novel methods for developing biomaterials mimicking nanotopographic structures in vivo for …

Surface-Micromachined Microfiltration Membranes For Efficient Isolation And Functional Immunophenotyping Of Subpopulations Of Immune Cells, Weiqiang Chen, Nien-Tsu Huang, Boram Oh, Raymond H. W. Lam, Rong Fan, Timothy T. Cornell, Thomas P. Shanley, Katsuo Kurabayashi, Jianping Fu

Weiqiang Chen

An accurate measurement of the immune status in patients with immune system disorders is critical in evaluating the stage of diseases and tailoring drug treatments. The functional cellular immunity test is a promising method to establish the diagnosis of immune dysfunctions. The conventional functional cellular immunity test involves measurements of the capacity of peripheral blood mononuclear cells to produce pro-inflammatory cytokines when stimulated ex vivo. However, this “bulk” assay measures the overall reactivity of a population of lymphocytes and monocytes, making it difficult to pinpoint the phenotype or real identity of the reactive immune cells involved. In this research, we …

Modelling And Parameter Identification For A Nonlinear Time-Delay System In Microbial Batch Fermentation, Chongyang Liu

Chongyang Liu

Mathematical modelling and parameter identification of a microbial batch fermentation process is considered in this paper. In view of the existence of time delays, a nonlinear time-delay system is firstly proposed to formulate the fermentation process. Some important properties are also discussed. Taking the errors between the computational values and the experimental data as the cost function, a parameter identification model subject to continuous state constraints and parameter constraints is then presented. To seek the optimal time delay and the optimal kinetic parameters, an improved differential evolution algorithm in conjunction with the constraint transcription technique is developed. Finally, numerical results …

Nanoroughened Surfaces For Efficient Capture Of Circulating Tumor Cells Without Using Capture Antibodies, Weiqiang Chen, Shinuo Weng, Feng Zhang, Steven Allen, Xiang Li, Liwei Bao, Raymond H. W. Lam, Jill A. Macoska, Sofia D. Merajver, Jianping Fu

Weiqiang Chen

Circulating tumor cells (CTCs) detached from both primary and metastatic lesions represent a potential alternative to invasive biopsies as a source of tumor tissue for the detection, characterization and monitoring of cancers. Here we report a simple yet effective strategy for capturing CTCs without using capture antibodies. Our method uniquely utilized the differential adhesion preference of cancer cells to nanorough surfaces when compared to normal blood cells and thus did not depend on their physical size or surface protein expression, a significant advantage as compared to other existing CTC capture techniques.

Environmental Impacts Of Stover Removal In The Corn Belt, Alicia English, Wallace E. Tyner, Juan Sesmero, Phillip Owens, David J. Muth Jr.

David J. Muth

When considering the market for biomass from corn stover resources erosion and soil quality issues are important to consider. Removal of stover can be beneficial in some areas, especially when coordinated with other conservation practices, such as vegetative barrier strips and cover crops. However, benefits are highly dependent on several factors, namely if farmers see costs and benefits associated with erosion and the tradeoffs with the removal of biomass. This paper uses results from an integrated RUSLE2/WEPS model to incorporate six different regime choices, covering management, harvest and conservation, into a simple profit maximization model to show these tradeoffs.

Nanotopography Influences Adhesion, Spreading, And Self-Renewal Of Human Embryonic Stem Cells, Weiqiang Chen, Luis G. Villa-Diaz, Yubing Sun, Shinuo Weng, Jin Koo Kim, Raymond H. W. Lam, Lin Han, Rong Fan, Paul H. Krebsbach, Jianping Fu

Weiqiang Chen

Human embryonic stem cells (hESCs) have great potentials for future cell-based therapeutics. However, their mechanosensitivity to biophysical signals from the cellular microenvironment is not well characterized. Here we introduced an effective microfabrication strategy for accurate control and patterning of nanoroughness on glass surfaces. Our results demonstrated that nanotopography could provide a potent regulatory signal over different hESC behaviors, including cell morphology, adhesion, proliferation, clonal expansion, and self-renewal. Our results indicated that topological sensing of hESCs might include feedback regulation involving mechanosensory integrin-mediated cell matrix adhesion, myosin II, and E-cadherin. Our results also demonstrated that cellular responses to nanotopography were cell-type …

Integrative Bayesian Analysis Of High-Dimensional Multi-Platform Genomics Data, Wenting Wang, Veerabhadran Baladandayuthapani, Jeffrey S. Morris, Bradley M. Broom, Ganiraju C. Manyam, Kim-Anh Do

Jeffrey S. Morris

Motivation: Analyzing data from multi-platform genomics experiments combined with patients’ clinical outcomes helps us understand the complex biological processes that characterize a disease, as well as how these processes relate to the development of the disease. Current integration approaches that treat the data are limited in that they do not consider the fundamental biological relationships that exist among the data from platforms.

Statistical Model: We propose an integrative Bayesian analysis of genomics data (iBAG) framework for identifying important genes/biomarkers that are associated with clinical outcome. This framework uses a hierarchical modeling technique to combine the data obtained from multiple platforms …

Optimal Switching Control Of A Fed-Batch Fermentation Process, Chongyang Liu, Zhaohua Gong, Enmin Feng, Hongchao Yin

Chongyang Liu

Considering the hybrid nature in fed-batch culture of glycerol biconversion to 1,3-propanediol (1,3-PD) by Klebsiella pneumoniae, we propose a state-based switching dynamical system to describe the fermentation process. To maximize the concentration of 1,3-PD at the terminal time, an optimal switching control model subject to our proposed switching system and constraints of continuous state inequality and control function is presented. Because the number of the switchings is not known a priori, we reformulate the above optimal control problem as a two-level optimization problem. An optimization algorithm is developed to seek the optimal solution on the basis of a heuristic approach …

Nonlinear Dynamical Systems Of Fed-Batch Fermentation And Their Optimal Control, Chongyang Liu, Zhaohua Gong, Enmin Feng, Hongchao Yin

Chongyang Liu

In this article, we propose a controlled nonlinear dynamical system with variable switching instants, in which the feeding rate of glycerol is regarded as the control function and the moments between the batch and feeding processes as switching instants, to formulate the fed-batch fermentation of glycerol bioconversion to 1,3-propanediol (1,3-PD). Some important properties of the proposed system and its solution are then discussed. Taking the concentration of 1,3-PD at the terminal time as the cost functional, we establish an optimal control model involving the controlled nonlinear dynamical system and subject to continuous state inequality constraints. The existence of the optimal …

Modeling And Parameter Identification Involving 3-Hydroxypropionaldehyde Inhibitory Effects In Glycerol Continuous Fermentation, Zhaohua Gong, Chongyang Liu, Yongsheng Yu

Chongyang Liu

Mathematical modeling and parameter estimation are critical steps in the optimization of biotechnological processes. In the 1,3-propanediol (1,3-PD )production by glycerol fermentation process under anaerobic conditions, 3-hydroxypropionaldehyde (3-HPA) accumulation would arouse an irreversible cessation of the fermentation process. Considering 3-HPA inhibitions to cells growth and to activities of enzymes, we propose a novel mathematical model to describe glycerol continuous cultures. Some properties of the above model are discussed. On the basis of the concentrations of extracellular substances, a parameter identification model is established to determine the kinetic parameters in the presented system. Through the penalty function technique combined with an …

Optimal Control Of A Fed-Batch Fermentation Involving Multiple Feeds, Chongyang Liu, Zhaohua Gong, Zhaoyi Huo, Bangyu Shen

Chongyang Liu

A nonlinear dynamical system, in which the feed rates of glycerol and alkali are taken as the control functions, is first proposed to formulate the fed-batch culture of 1,3-propanediol (1,3-PD) production. To maximize the 1,3-PD concentration at the terminal time, a constrained optimal control model is then presented. A solution approach is developed to seek the optimal feed rates based on control vector parametrization method and improved differential evolution algorithm. The proposed methodology yielded an increase by 32.17% of 1,3-PD concentration at the terminal time.

Improving Biomass Logistics Cost Within Agronomic Sustainability Constratints And Biomass Quality Targets, Kevin L. Kenney, J. Richard Hess, William A. Smith, David J. Muth Jr.

David J. Muth

Equipment manufacturers have made rapid improvements in biomass harvesting and handling equipment. These improvements have increased transportation and handling efficiencies due to higher biomass densities and reduced losses. Improvements in grinder efficiencies and capacity have reduced biomass grinding costs. Biomass collection efficiencies (the ratio of biomass collected to the amount available in the field) as high as 75% for crop residues and greater than 90% for perennial energy crops have also been demonstrated. However, as collection rates increase, the fraction of entrained soil in the biomass increases, and high biomass residue removal rates can violate agronomic sustainability limits. Advancements in …

Economics Of Residue Harvest: Regional Partnership Evaluation, David W. Archer, David J. Muth Jr., Jacob J. Jacobson, Douglas L. Karlen

David J. Muth

Economic analyses on the viability of corn (Zea mays, L.) stover harvest for bioenergy production have largely been based on simulation modeling. While some studies have utilized field research data, most field-based analyses have included a limited number of sites and a narrow geographic distribution. An Iowa case study is developed illustrating the use of data extracted from a database of geographically distributed field studies for a region-specific economic analysis. The analysis utilizes grain and residue yield and associated management information from two Iowa field research sites that are Sun Grant Regional Partnership locations associated with the Corn Stover Regional …

Economics Of Residue Harvest: Regional Partnership Evaluation, David W. Archer, David J. Muth Jr., Jacob J. Jacobson, Douglas L. Karlen

Douglas L Karlen

Photolithographic Surface Micromachining Of Polydimethylsiloxane (Pdms), Weiqiang Chen, Raymond H. W. Lam, Jianping Fu

Weiqiang Chen

A major technical hurdle in microfluidics is the difficulty in achieving high fidelity lithographic patterning on polydimethylsiloxane (PDMS). Here, we report a simple yet highly precise and repeatable PDMS surface micromachining method using direct photolithography followed by reactive ion etching (RIE). Our method to achieve surface patterning of PDMS applied an O2 plasma treatment to PDMS to activate its surface to overcome the challenge of poor photoresist adhesion on PDMS for photolithography. Our photolithographic PDMS surface micromachining technique is compatible with conventional soft lithography techniques and other silicon-based surface and bulk micromachining methods. To illustrate the general application of our …

Overview Of Corn-Based Fuel Ethanol Coproducts: Production And Use, Kurt A. Rosentrater

Kurt A. Rosentrater

Modern societies face many challenges, including growing populations, increased demands for food, clothing, housing, consumer goods, and the raw materials required to produce all of these. Additionally, there is a growing need for energy, which is most easily met by use of fossil fuels (e.g., coal, natural gas, petroleum). For example, in 2008, the overall U.S. demand for energy was 99.3 x 1015 Btu (1.05 x 1014 MJ); 84% of this was supplied by fossil sources. Transportation fuels accounted for 28% of all energy consumed during this time, and nearly 97% of this came from fossil sources. Domestic production of …

Developing Criteria For Evaluating The Sustainability Of Emerging Energy, Kurt A. Rosentrater, Elif Kongar

Kurt A. Rosentrater

Over the last decade, the interest in and production of biofuels has grown rapidly. Renewable transportation fuels can be produced from a variety of substrates, using various processing strategies. Feedstock preference and factory scale are geographic dependent. However, it is important to understand the implications of deploying these types of systems on a large scale, both throughout the U.S. as well as globally. To assess the sustainability of various biofuel options, it is crucial to evaluate their performance according to a number of attributes. This has been done using Life Cycle Assessment (LCA). Even so, comparisons among biofuel options are …