Systems Biology Commons^™

The Incentive And Benefits To Publish Research, Christopher N. Jacques

The Prairie Naturalist

In the northern Great Plains, December is a month marked by the end of the year and a period of much-needed rest and relaxation during the start of the winter season. Landscapes will soon be blanketed with snow and local floral and faunal species have adapted to the ensuing winter months ahead. Winter is a season that reminds you who you live in the Plains states, and as such, should expect bitter cold temperatures, strong winds, and blowing and drifting snow. However, December is a great time to enjoy the outdoors across the Great Plains, a time to reflect on …

Avian Diversity And Habitat Use On Wetland Reserve Program Lands In The Lower Missouri River Valley, Eric C. Hopps

The Prairie Naturalist

A primary objective of the Wetland Reserve Program (WRP) is to provide habitat for migratory birds throughout all seasons of the year. Comprehensive avian assessments are lacking and limit our ability to evaluate the benefits of the WRP to continental bird populations. I investigated avian species occurrence on WRP lands within the Lower Missouri River Valley (LMRV), Nebraska, USA, from March 2010 to February 2011. Ten WRP habitat types are described based on plant community assemblages and observed hydrological regimes. Estimates of avian species richness were greatest in lowland forest (n = 115), lowland woodland (n = 83) and upland …

Differential Activity Of The Kras Oncogene By Method Of Activation: Implications For Signaling And Therapeutic Intervention, Nathan Ihle

Dissertations & Theses (Open Access)

Despite having been identified over thirty years ago and definitively established as having a critical role in driving tumor growth and predicting for resistance to therapy, the KRAS oncogene remains a target in cancer for which there is no effective treatment. KRas is activated b y mutations at a few sites, primarily amino acid substitutions at codon 12 which promote a constitutively active state. I have found that different amino acid substitutions at codon 12 can activate different KRas downstream signaling pathways, determine clonogenic growth potential and determine patient response to molecularly targeted therapies. Computer modeling of the KRas structure …

Sustainability Through Profitability: The Triple Bottom Line, Connie I. Reimers-Hild

Connie I Reimers-Hild, PhD, CPC

Today’s highly competitive, globalized world requires organizations and businesses to think differently about how they are going to stay in business. Businesses can no longer afford to focus on profits as their sole purpose for existence. Organizations must instead think about the “Triple Bottom Line” and its implications for their ability to grow their brand, customer loyalty and profits.

Of Gardens, Microorganisms, And Long Island Sound, Judy Preston

Wrack Lines

How healthy soil can make an environmental difference.

"I happened to turn over a large rounded stone in my garden to find a mesmerizing world of organisms that had, just moments earlier, been going about their business before being exposed to the sunlit world, and me."

Extensive And Prolonged Restoration Of Dystrophin Expression With Vivo-Morpholino-Mediated Multiple Exon Skipping In Dystrophic Dogs, Toshifumi Yokota, Akinori Nakamura, Tetsuya Nagata, Takashi Saito, Masanori Kobayashi, Yoshitsugu Aoki, Yusuke Echigoya, Terence A. Partridge, Eric P. Hoffman, Shinichi Takeda

Genomics and Precision Medicine Faculty Publications

Duchenne muscular dystrophy (DMD) is a severe and the most prevalent form of muscular dystrophy, characterized by rapid progression of muscle degeneration. Antisense-mediated exon skipping is currently one of the most promising therapeutic options for DMD. However, unmodified antisense oligos such as morpholinos require frequent (weekly or bi-weekly) injections. Recently, new generation morpholinos such as vivo-morpholinos are reported to lead to extensive and prolonged dystrophin expression in the dystrophic mdx mouse, an animal model of DMD. The vivo-morpholino contains a cell-penetrating moiety, octa-guanidine dendrimer. Here, we sought to test the efficacy of multiple exon skipping of exons 6–8 with vivo-morpholinos …

Monitoring Standing Herbage Of The Sands And Choppy Sands Ecological Vegetation Types In The Nebraska Sandhills, Daniel W. Uresk

Great Plains Research: A Journal of Natural and Social Sciences

A modified Robel pole with white and gray alternating bands (2.54 cm) was used to measure vegetation on sands and choppy sands ecological types in the Sandhills of Nebraska. Objectives were to determine the relationship between visual obstruction readings (VOR) and clipped standing herbage, develop guidelines for monitoring standing herbage, and provide sample size estimates. Visual obstruction measurements of standing herbage were linear, and regression coefficients were significant (P< 0.001) for 125 transects (R² = 0.60, SE = 496 kg/ha). Clipped standing herbage ranged from 293 to 4389 kg/ha with a mean of 1,559 kg/ha. A minimum of four transects (20 stations/transect with four …

Maize Radiation Use Efficiency Under Optimal Growth Conditions, John L. Lindquist, Timothy J. Arkebauer, Daniel T. Walters, Kenneth G. Cassman, Achim Dobermann

John L. Lindquist

Accurate measurement of crop growth and radiation use efficiency (RUE) under optimal growth conditions is required to predict plant dry matter accumulation and grain yield near the genetic growth potential. Research was conducted to quantify the biomass and leaf area index (LAI) accumulation, extinction coefficient, and RUE of maize (Zea mays L.) under conditions of optimal growth. Maize was grown in two environments over five growing seasons (1998–2002). Total aboveground biomass at maturity ranged from 2257 g m-2 in 1998 to 2916 g m-2 in 2001; values that are considerably greater than the biomass achieved in most previous studies on …

Comparative Ecophysiology Of Grain Sorghum And Abutilon Theophrasti In Monoculture And In Mixture, Samba Traoré, John L. Lindquist, Stephen Mason, Alex Martin, D. A. Mortensen

John L. Lindquist

Selection of crop genotypes that are more competitive with weeds for light interception may improve crop yield stability in the presence of weeds. The effects of interference on ecophysiological characteristics of Abutilon theophrasti Medic. and three morphologically diverse grain sorghum hybrids was evaluated to determine the relative tolerance and suppressive ability of the three hybrids and specific traits that may contribute to those differences. A tall hybrid was more tolerant to A. theophrasti interference than two medium stature hybrids. Early leaf area growth of two medium-stature sorghum hybrids was reduced by A. theophrasti interference, whereas early growth of a tall …

Common Lambsquarters (Chenopodium Album) Interference With Corn Across The North-Central United States, David W. Fischer, R. Gordon Harvey, Thomas T. Bauman, Sam Phillips, Stephen E. Hart, Gregg A. Johnson, James J. Kells, Philip Westra, John L. Lindquist

John L. Lindquist

Variation in crop–weed interference relationships has been shown for a number of crop–weed mixtures and may have an important influence on weed management decision-making. Field experiments were conducted at seven locations over 2 yr to evaluate variation in common lambsquarters interference in field corn and whether a single set of model parameters could be used to estimate corn grain yield loss throughout the north-central United States.

Influence Of Nitrogen And Duration Of Weed Interference On Corn Growth And Development, Sean P. Evans, Stevan Z. Knezevic, John L. Lindquist, Charles A. Shapiro

John L. Lindquist

An improved understanding of the effects of nitrogen (N) on crop–weed interactions is needed for the development of integrated weed management systems where responsible use of N fertilizers is considered. Field experiments conducted in 1999 and 2000 at two locations in eastern Nebraska quantify the effects of N and increasing duration of weed interference on corn growth and development. A naturally occurring population of weeds was allowed to compete with the corn crop for increasing lengths of time and at three rates of N application (0, 60, and 120 kg N ha-1). Weed interference and withholding applied N increased the …

Simulated Insect Defoliation And Duration Of Weed Interference Affected Soybean Growth, Travis C. Gustafson, Stevan Z. Knezevic, Thomas E. Hunt, John L. Lindquist

John L. Lindquist

An improved understanding of crop stress from multiple pests is needed for better implementation of integrated pest management (IPM) strategies. Field studies were conducted in 2003 and 2004 at two locations in eastern Nebraska to describe the effects of simulated early-season insect defoliation of soybean and duration of weed interference on soybean growth. Three levels of simulated defoliation (undefoliated, 30, and 60%) and seven durations of weed interference (weedy and weed free; weed removal at V2, V4, V6, R3, and R5) were evaluated in a split-plot design. Defoliation significantly reduced soybean leaf-area index (LAI), total dry matter (TDM), and crop …

Light-Saturated Co2 Assimilation Rates Of Corn And Velvetleaf In Response To Leaf Nitrogen And Development Stage, John L. Lindquist

John L. Lindquist

Single-leaf CO₂ assimilation rate under saturating light (C_A) varies as a function of leaf nitrogen content per unit leaf area (N_L). Measured C_A for many crop species also declines with developmental stage. Because these relationships may have strong implications for crop–weed competition, a field experiment was conducted to quantify corn and velvetleaf C_A as influenced by leaf N_L and stage of development. Crop and weed C_A were measured on the most recent fully expanded leaves of plants grown in four nitrogen (N) application treatments. Both corn and velvetleaf C_A increased …

Hybrid-Maize—A Maize Simulation Model That Combines Two Crop Modeling Approaches, H. S. Yang, A. Dobermann, John L. Lindquist, Daniel T. Walters, Timothy J. Arkebauer, Kenneth G. Cassman

John L. Lindquist

A new maize (Zea mays L.) simulation model, Hybrid-Maize, was developed by combining the strengths of two modeling approaches: the growth and development functions in maize-specific models represented by CERES- Maize, and the mechanistic formulation of photosynthesis and respiration in generic crop models such as INTERCOM and WOFOST. It features temperature-driven maize phenological development, vertical canopy integration of photosynthesis, organ-specific growth respiration, and temperature-sensitive maintenance respiration. The inclusion of gross assimilation, growth respiration and maintenance respiration makes the Hybrid- Maize model potentially more responsive to changes in environmental conditions than models such as CERES-Maize. Hybrid-Maize also requires fewer genotype-specific …

A Simulation Approach For Evaluating Maize Yield Potential In Different Environments, Haishun S. Yang, Achim R. Dobermann, Kenneth G. Cassman, Daniel T. Walters, John L. Lindquist

John L. Lindquist

What is yield potential? To achieve yield potential of an environment: Why yield potential important? Objectives: Nebraska (NE): To estimate yield potential across NE requires: How to estimate yield potential across NE? Choice of model: Hybrid-Maize Simulation of best yields under current practices Current practices: best yields Current practices: variation of best yields To achieving full yield potential: Optimal management: gain in season length Optimal management: gain in yield Optimal management: temporal (mean=14 y) variation of yields Conclusions

Performance Of Weedsoft For Predicting Soybean Yield Loss, Shawn M. Hock, Stevan Z. Knezevic, Alex Martin, John L. Lindquist

John L. Lindquist

Decision support systems (DSSs) have been developed to assist producers and consultants with weed management decisions. WeedSOFT is a DSS currently used in several states in the northcentral region of the United States. Accurate estimates of crop yield loss due to weed interference are required for cost-effective weed management recommendations. WeedSOFT uses competitive indices (CIs) to predict crop yield loss under multiple weed species, weed densities, and relative times of weed emergence. Performance of several WeedSOFT versions to predict soybean yield loss from weed competition was evaluated using CI values in WeedSOFT version 9.0 compared to new CI values calculated …

The Influence Of Plant Population Spatial Arrangement On Individual Plant Yield, John L. Lindquist, D. Rhode, K. J. Puettmann, B. D. Maxwell

John L. Lindquist

Two greenhouse experiments were conducted to evaluate the performance of individual oat (Avena sativa) target plants as influenced by neighbor oat plants with different spatial arrangements. Crop spatial arrangement was separated into three com- ponents: (I) population density, (2) distance between plants (distance dispersion, DD), and (3) angular arrangement of plants about one another (angular dispersion, AD). Distance dispersion was quantified using a weighted mean distance from a target individual to its neighbors. Angular dispersion of neighbors around the target was quantified using a measure of circular variance. DD and AD were combined to create a dispersion index (DI). At …

Critical Period For Weed Control: The Concept And Data Analysis, Stevan Z. Knezevic, Sean P. Evans, Erin E. Blankenship, Rene C. Van Acker, John L. Lindquist

John L. Lindquist

The critical period for weed control (CPWC) is a period in the crop growth cycle during which weeds must be controlled to prevent yield losses. Knowing the CPWC is useful in making decisions on the need for and timing of weed control and in achieving efficient herbicide use from both biological and economic perspectives. An increase in the use of herbicide-tolerant crops, especially soybean resistant to glyphosate, has stimulated interest in the concept of CPWC. Recently, several studies examined this concept in glyphosate-resistant corn and soybean across the midwestern United States. However, these studies presented various methods for data analysis …

Influence Of Planting Date And Weed Interference On Sweet Corn Growth And Development, Martin M. Williams Ii, John L. Lindquist

John L. Lindquist

Crop planting date and canopy density influence interactions between weeds and sweet corn (Zea mays L.); however, little is known about sweet corn growth response to weed interference. Field studies were conducted in 2004 and 2005 near Urbana, IL, to quantify the influence of planting date and weed interference on growth of sweet corn height, leaf area, aboveground biomass, and phenological development. Crop growth response to weed interference (presence or absence) was determined for sweet corn planted early May (EARLY) and late June (LATE). Dominant weed species included barnyard-grass [Echinochloa crus-galli (L.) Beauv.], common lambsquarters (Chenopodium album L.), common purslane …

Comparison And Hybridization Of Two Approaches For Maize Simulation, Haishun Yang, Kenneth G. Cassman, Achim R. Dobermann, Daniel T. Walters, John L.. Lindquist, Timothy J. Arkebauer

John L. Lindquist

Two approaches dominate simulation modeling of maize growth: (1) a generic approach, represented by the family of crop models developed by Dutch scientists at the Wageningen University, e.g. SUCROS (Spitters et al, 1989), WOFOST (Diepen et al, 1989) and INTERCOM (Kropff and van Laar, 1993), and (2) a maize-specific approach, represented by CERES-Maize (Jones and Kiniry, 1986) and its derivatives such as the maize module in DSSAT, and the MSB model developed by Muchow et al. (Muchow et al, 1990). These two approaches differ in three aspects. First, maize development in generic models is driven primarily by availability of assimilate …