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Variable-rate application (VRA) addresses in-field variation in soil nitrogen (N) availability and crop response, and as such is a tool for more effective site-specific management. This study assessed the performance of a VRA system for on-the-go delivery of granular fertilizer in 7-m wide and 200-m long strips of a 2.4-ha wheat field. A randomized complete block design consisted of three treatment strips (a preplant uniform application of 100 kg N/ha, a preplant + in-season uniform farmer rate of 212 kg N/ha and a preplant + in-season VRA) within four blocks. The VRA prototype consisted of Crop Circle ACS-430 active canopy sensors, a GeoScout X data logger that processed the geospatial data to convey a real-time N rate signal (1 Hz) to a Gandy Orbit Air 66FSC spreader through a Raven SCS 660 controller. Crop monitoring included analysis of in-season soil and plant samples, water balance and grain yield. VRA delivered an economic optimum N rate using 72% less in-season N or 38% less total N (131 kg N/ha) than that applied by the farmer (212 kg N/ha). The reduction of total N inputs came about without any yield losses and translated to 58% N-use efficiency in comparison to 44% of the farmer practice and 52% of the preplant control. VRA also provided a much higher revenue over fertilizer costs, €68/ha and €118/ha higher than the preplant control and the farmer practice, respectively. The return of VRA per unit of N was equal to that of the large preplant application due to low leaching losses. Overall, the high-resolution VRA was superior in terms of environmental benefits and profitability with the least uncertainty to the farmer. [ABSTRACT FROM AUTHOR]

Though epistasis has long been postulated to have a critical role in genetic regulation of important pathways as well as provide a major source of variation in the process of speciation, the importance of epistasis for genomic selection in the context of plant breeding is still being debated. In this paper, we report the results on the prediction of genetic values with epistatic effects for 280 accessions in the Nebraska Wheat Breeding Program using adaptive mixed least absolute shrinkage and selection operator (LASSO). The development of adaptive mixed LASSO, originally designed for association mapping, for the context of genomic selection is reported. The results show that adaptive mixed LASSO can be successfully applied to the prediction of genetic values while incorporating both marker main effects and epistatic effects. Especially, the prediction accuracy is substantially improved by the inclusion of two-locus epistatic effects (more than onefold in some cases as measured by cross-validation correlation coefficient), which is observed for multiple traits and planting locations. This points to significant potential in using non-additive genetic effects for genomic selection in crop breeding practices. [ABSTRACT FROM AUTHOR]

Web blight, an important foliar disease of dry beans in the Americas, is a challenge to manage. We studied genetic variation of 92 isolates of Rhizoctonia solani subgroups AG-1-IE and AG-1-IF using DNA fingerprinting methods and mycelial compatibility grouping. The isolates were collected over 13 years from bean fields in the Dominican Republic, Honduras and Puerto Rico. Cluster and AMOVA analysis of combined data from two universal rice primers and two internal sequence repeats revealed significant genetic variation among and within populations of both subgroups. Variation was influenced by geographic origin and sampling year for AG-1-IE isolates and geographic origin for AG-1-IF isolates. Mycelial compatibility of paired isolates was mostly scored as incompatible in both subgroups and supported many unique phenotypes. Only two isolates of AG-1-IE displayed mycelial compatibility and DNA fingerprints, suggesting clonal origin. Genetic variation in these AG-1-IE and AG-1-IF isolate populations may explain the lack of durable resistance to web blight reported in dry beans. [ABSTRACT FROM AUTHOR]

Sweet sorghum ( Sorghum bicolor L.) is a type of cultivated sorghums and has been recognized widely as potential alternative source of bio-fuel because of its high fermentable sugar content in the stalk. A substantial variation of sugar content and related traits is known to exist in US sweet sorghum. The objectives of the study were to assess the genetic diversity and relationship among the US sweet sorghum cultivars and lines using SSR markers and to examine the genetic variability within sweet sorghum accessions for sugar content. Sixty-eight sweet sorghum and four grain sorghum cultivars and lines were genotyped with 41 SSR markers that generated 132 alleles with an average of 3.22 alleles per locus. Polymorphism information content (PIC) value, a measure of gene diversity, was 0.40 with a range of 0.03–0.87. The genetic similarity co-efficient was estimated based on the segregation of the 132 SSR alleles. Clustering analysis based on the genetic similarity (GS) grouped the 72 sorghum accessions into 10 distinct clusters. Grouping based on clustering analysis was in good agreement with available pedigree and genetic background information. The study has revealed the genetic relationship of cultivars with unknown parentage to those with known parentage. A number of diverse pairs of sweet sorghum accessions were identified which were polymorphic at many SSR loci and significantly different for sugar content as well. Information generated from this study can be used to select parents for hybrid development to maximize the sugar content and total biomass, and development of segregating populations to map genes controlling sugar content in sweet sorghum. [ABSTRACT FROM AUTHOR]

Genetic diversity is the basis for successful crop improvement and can be estimated by different methods. The objectives of this study were to estimate the genetic diversity of 30 ancestral to modern hard red winter wheat ( Triticum aestivum L.) cultivars adapted to the Northern Great Plains using pedigree information, morphological traits (agronomic measurements from six environments), end-use quality traits (micro-quality assays on 50 g grain or milled flour samples for the six environments), and molecular markers (seed storage proteins separated using SDS-PAGE, 51 SSRs, and 23 SRAP DNA markers), and to determine the relationships of genetic distance estimates obtained from these methods. Relationships among diversity estimates were determined using simple (Pearson) and rank (Spearman) correlation coefficients between distance estimates and by clustering cultivars using genetic-distances for different traits. All methods found a wide range in genetic diversity. The genetic distance estimates based on pedigree had the highest values due to possible over-estimation arising from model assumptions. The genetic diversity estimates based on seed storage protein were lowest because they were the major determinants of end-use quality, which is a highly selected trait. In general, the diversity estimates from each of the methods were positively correlated at a low level with the exceptions of SRAP diversity estimates being independent of morphologic traits (simple correlation), SDS-PAGE, and SSR diversity estimates (rank correlation). However, SSR markers, thought to be among the most efficient markers for estimating genetic diversity, were most highly correlated with seed storage proteins. The procedures used to accurately estimate genetic diversity will depend largely upon the tools available to the researcher and their application to the breeding scheme. [ABSTRACT FROM AUTHOR]

Evaluation of wheat cultivars from different eras allows breeders to determine changes in agronomic and end-use quality characteristics associated with grain yield and end-use quality improvement over time. The objective of this research was to examine the trends in agronomic and end-use quality characteristics of hard red winter wheat cultivars grown in Nebraska. Thirty historically important and popular hard red winter wheat cultivars introduced or released between 1874 and 2000 were evaluated at Lincoln, Mead and North Platte, Nebraska in 2002 and 2003. An alpha lattice design with 15 incomplete blocks of two plots and three replications was used at all locations. Agronomic (days to flowering, plant height, spike length, culm length, grain yield and yield components, and grain volume weight) and end-use quality (flour yield, SDS-sedimentation value, flour protein content, and mixograph time and tolerance) traits were measured in each environment. Highly significant differences were observed among environments, genotypes and their interactions for most agronomic and end-use quality characteristics. Unlike modern cultivars, older cultivars were low yielding, and less responsive to favorable environments for grain yield and yield components. Semidwarf cultivars were more stable for plant height than traditional medium to tall cultivars. All cultivars had high grain volume weight since it is part of the grading system and highly selected for in cultivar release. Modern cultivars were less stable than older cultivars for SDS-sedimentation and mixing tolerance. However, the stability of older cultivars was attributed to their having weak mixing tolerance and reduced SDS-sedimentation values. The reduced protein content of modern cultivars was offset by increased functionality, as measured by mixograph and SDS sedimentation. In conclusion, breeders have tailored agronomic and end-use quality traits essential for hard red winter wheat production and marketing in Nebraska. [ABSTRACT FROM AUTHOR]

Constructed wetlands are widely used all over the world for the treatment of municipal wastewaters, which are characterized by high concentrations of pathogens. The objectives of this study were (1) to study the effect of solar radiation and temperature on the ability of a constructed wetland to reduce the concentration of total coliforms (TC), and (2) to evaluate the relationship between the presence of Salmonella spp. in the outflow and the concentration of TC. The results of this study showed that under Mediterranean environmental conditions, the percentage reduction in coliforms was lower during winter compared to all other seasons. Maximum removal of coliforms was achieved under conditions of high solar radiation and temperature. In addition, solar radiation was found to play a greater role in coliform die-off at low temperatures than at high temperatures. Finally, it was found that the probability of Salmonella spp. appearance in the outflow of the wetland was related to the concentration of TC. The increase in coliform bacteria in the effluents also increased the chances of Salmonella appearance. The risk of Salmonella spp. appearance in the outflow is minimized when the concentration of TC is below 102/100 mL. [ABSTRACT FROM AUTHOR]

Batch fermentations were used to study the effect of different glycerol concentrations and pH conditions on growth of recombinant Pichia pastoris. Two strains of P. pastoris were used: a wild-type in methanol utilization (Mut+) and a mutant defective in methanol utilization (Mut-). Under constant pH conditions of 5.0, glycerol concentrations up to 12% were efficiently utilized. Cell yield (Yx/s) of about 0.8 and a final cell density of about 95 g/L (dry cell) were achieved. However, there were significant differences (probability [Pr]> F 0.0351) in specific growth rates between the initial glycerol concentrations of 2, 7, and 12%. When fermentations were conducted without pH control, growth continued until the pH had decreased to about 2.5. Growth stopped at pH 2.2 with uncontrolled pH, and residual glycerol concentrations were greater than 2%. As a result, Yx/s decreased to about 0.3. There were no differences between Mut+ and Mut- strains during cell growth on glycerol. [ABSTRACT FROM AUTHOR]

An approach to selection is proposed that is based on the probabilities that a test cultivar outperforms a check by more than an amount d in a future environment. The function that gives these probabilities for all possible values of d is called the reliability function. When d=0, the value of the reliability function is the probability that the test cultivar outperforms the check. The method is illustrated using data from on-farm maize ( Zea mays L.) strip test trials grown cooperatively by Pioneer Hi-bred International and farmers. Results indicate that reliability functions are useful for evaluating how test cultivars perform relative to a check across a range of environments since the location, slope and shape of the reliability function may be used to describe a test cultivar's performance, similarity to the check and stability, and identify environments where the test cultivar has performance problems. [ABSTRACT FROM AUTHOR]

A major consideration in most plant breeding programs is the development of cultivars that have high probabilities of outperforming the check cultivar in a broad range of environments. Methods are presented for estimating and testing hypotheses regarding these probabilities, which are termed reliabilities. Reliabilities are shown to be directly related to several commonly used stability parameters. Data from international maize yield trials are used to illustrate and evaluate the repeatability of the approach. Results indicate that reliabilities can be useful aids to plant breeders since they (1) are easy to understand and compute, (2) are indices that weigh the importance of the difference in performance relative to stability, and (3) are potentially useful as genetic parameters since they are generally repeatable across randomly sampled sets of environments. [ABSTRACT FROM AUTHOR]

Variation in recombination rate is important to plant breeders since a major objective is to obtain favorable recombinants of linked genes. The ability to increase recombination (R) in circumstances in which favorable and unvavorable genes are linked (Corn Belt x exotic populations) and to decrease recombination when many favorable genes are linked (narrow-based, elite populations) would be of immense value. However, the concept of variation in recombination frequencies between linked genes has received limited attention despite its implications in breeding and genetic linkage studies. Molecular techniques have allowed better estimations of this variation. In this study, attempts were made to characterize: (1) the R values in the Pgm1-Adh1 and Adh1-Phi1 adjacent regions of chromosome 1 and the Idh2-Mdh2 region of chromosome 6 in F families of three maize ( Zea mays L.) populations; (2) the environmental effect on R values of Fs from two populations. One population, NSO, was a Corn Belt synthetic, and the other two populations, CBMEX3 and CBCAR5, were composites from crosses between Corn Belt and exotic germ-plams. Wide ranges of estimated recombination ( $$\hat R$$ ) values were observed among families in each population for all three chromsomal regions. The distribution of $$\hat R$$ values for the Pgm1-Adh1 region showed that the F families of each population fell into two broad categories: 0.30-0.50 and 0.02-0.20. No intermediates (0.21-0.29) were found. The distributions were almost normal for the Adh1-Phi1 and the Idh2-Mdh2 regions. It would appear that the major dispersion in the Pgm1-Adh1 region was controlled by the effects of a single gene, while the Adh1-Phi1 and Idh2-Mdh2 regions were only affected by polygenes. No correlation was found between recombination values of the two adjacent regions, indicating that the genes affecting recombination for the Pgm1-Adh1 region may be specific for that region. For the Pgm1-Adh1 region, no differences in $$\hat R$$ values were found among the three populations. For the Adh1-Phi1 region, $$\hat R$$ frequencies of CBMEX3 and NSO were not significantly different, but both had significantly greater $$\hat R$$ values than CBCAR5. For the Idh2-Mdh2 region, CBMEX3 was significantly different from NSO. There were significant differences between some paired F families within each population for each chromosome region. No significant differences in response to the two environments were detected in CBMEX3 and NSO for either region in chromosome 1. [ABSTRACT FROM AUTHOR]

In most plant breeding programs, selection of the best commercially suitable cultivars for a target group of environments is based on information obtained from evaluation trials cultivated in a sample of environments. Information on the performance of cultivars collected in a sample of environments can only be approximate and, consequently, selection of the best cultivar involves choosing among cultivars that respond uncertainly in many environments. The agronomic and/or economic value of a cultivar across environments may be considered the general or overall utility of the cultivar. Data from a sample of environments therefore provides only an estimate of any cultivar's overall utility, with the overall goal of selection among all cultivars being the maximization of the expected utility. Within this frame-work, expected utility maximization, an approach to decision making that has been well developed in the disciplines of economics and statistics, can assist the plant breeder in making such decisions. This research was initiated (1) to determine how expected utility maximization might be used to develop indices that are useful for selecting broadly adapted plant cultivars, and (2) to determine how the breeder's preferences might affect choice of the best cultivar. The data used in this research were from USDA Regional Soybean Tests. The results indicated that expected utility maximization, which explicitly incorporates into the selection rule the plant breeder's preferences regarding stability, can be a useful aid in the selection of stable plant cultivars. [ABSTRACT FROM AUTHOR]