Fusarium head blight (FHB), caused predominantly by the toxigenic necrotrophic fungus Fusarium graminearum, is a devastating disease of wheat and other small grain crops in the United States and other parts of the world. Under weather conditions favorable for F. graminearum infection and FHB development (moderate to warm temperatures, high relative humidity, and rainfall during anthesis and early grain development), FHB causes significant grain yield and quality losses as a result of floret sterility, production of small, shriveled, light-weight kernels, and contamination of grain with mycotoxins. Thanks to decades of research by interdisciplinary teams of scientists, a lot has been learned about this disease and its associated toxins, contributing to the development and improvement of strategies to manage and mitigate their impacts. However, many major knowledge gaps in our understanding of the biology, epidemiology, and management of the FHB-mycotoxin-wheat system still remain. Several of these gaps were the focus of this dissertation research, with one of the overarching goals being to develop a better understanding of factors affecting relationships between FHB index (IND, ‘field severity’, mean proportion of diseased spikelets) and grain contamination with deoxynivalenol (DON) and other mycotoxins.The first step in an experiment is to define the sample size needed to accurately quantify the response variable(s) of interest. Since FHB intensity is usually highly variable within plot and field, the number of spikes rated when quantifying IND, one of the most commonly used measures of FHB, must be considered when designing experiments to study the epidemiology of, and develop and evaluate management strategies for, this disease. In addition, quantification of sources of IND heterogeneity is crucial for defining sampling protocols. Therefore, the objectives of this study were to quantify the variability of IND at different spatial scales and investigate the effects of sample size and baseline IND on the accuracy of estimated plot-level mean IND. Heterogeneity of IND, quantified by fitting unconditional hierarchical linear models, was higher among spikes within clusters (individual groups of spikes sampled in a plot) than among clusters within plots or among plots. Sampling 100 or more spikes resulted in more precise estimates of mean IND than smaller samples. The projected relative error of mean IND increased as mean IND decreased and as sample size decreased below 100 spikes per plot. Therefore, poor sampling may result in inaccurate estimates of IND and misinterpretation of research results, which in turn could contribute to a breakdown in relationships between IND and mycotoxins and between IND and grain yield, and errant conclusions about treatment effects and cultivar resistance to FHB. Findings from this study will contribute to increasing the reproducibility of FHB research, which in turn could lead to a reduction in between-study variability in quantitative syntheses of data from multiple locations and years.Although fungicides are most warranted for FHB and DON control when wet, rainy conditions occur during anthesis and early grain fill, fungicide efficacy trials are often conducted in the absence of persistent rainy, wet, and humid conditions. This could lead to errant conclusions about treatment effects, as rainfall is known to affect fungicide performance, FHB development, and grain contamination with mycotoxins. Therefore, the objective of the second study was to evaluate the efficacy and economic benefit of fungicide treatments in combination with genetic resistance against FHB and its associated mycotoxins under the influence of persistent pre- and post-anthesis simulated rainfall and F. graminearum-infection-favorable conditions throughout the window of host susceptibility. Persistent wet conditions affected relationships between IND and mycotoxins and IND and yield under different fungicide treatment programs. Among the single-treatment management programs evaluated, those that included an application of prothioconazole + tebuconazole at early anthesis (PA) or three days after anthesis to a moderate resistance and a moderate susceptible cultivar were the most effective at reducing FHB, DON, and zearalenone (ZEA, a potent estrogenic mycotoxin produced by F. graminearum) and increasing grain yield (YLD) and test weight (TW). However, management programs consisting of PA followed by a single application of metconazole after anthesis integrated with genetic resistance were considerably more effective than the best single-treatment programs. Although the cost of a second fungicide application could be a deterrent to the adoption of these recommendations, gains in YLD and TW and the reductions of DON and ZEA were sufficient to offset the added cost. This was the first study to show that two-treatments programs are effective and economically beneficial for managing FHB and associated mycotoxins under persistently wet field conditions.Environmental conditions after FHB visual symptoms development may affect relationships between IND and DON by virtue of their effects on the fate of DON. For instance, another possible explanation for the IND-DON relationship breaking down under certain conditions could be the conversion of DON to DON-3-glucoside (D3G), a masked form of the toxin that is often missed by common DON testing methods. Thus, the objectives of the third study were to quantify the effects of rainfall patterns in field plots with different levels of mean IND on DON and its conversion to D3G, and the effects of temperature (20, 25, and 30oC) and relative humidity (RH, 70, 80, 90, and 100%) on DON and D3G contamination of grain from wheat spikes with different levels of IND under controlled conditions. DON concentrations greatly increased under high-moisture conditions, but the relative proportion of additional DON production decreased as IND increased in both experiments, suggesting that the level of grain colonization by F. graminearum may influence moisture effect on DON after FHB visual symptom development. In all experiments, there were strong, positive relationships between DON and D3G, which was influenced by moisture and temperature. Higher rates of DON-to-D3G conversion occurred at relatively lower IND and DON levels under cool, wet conditions than under relatively hot, dry conditions. In addition, pre-harvest sprouting induced by the rainfall treatments, as indicated by low falling numbers (an indicative of α-amylase activity), was associated with a part of the D3G variability not explained by DON contamination. This study is the first to associate temperature and RH with D3G contamination of wheat grain and pre-harvest rainfall patterns and sprouting with DON-to-D3G conversion, providing new information for better understanding this complex disease-toxin system.The objectives of the last part of this research were to quantify grain contamination with ZEA as influenced by temperature (20, 25, and 30oC), relative humidity (RH, 70, 80, 90, and 100%), and FHB index (IND) under controlled conditions, and the effects of grain development, pre-harvest rainfall, and grain harvesting strategies on ZEA production in the field. ZEA concentrations were low during early stages of grain development (25-31 days after anthesis [DAA]) but rapidly increased at later stages (35 to 51 DAA), particularly under rainy conditions. Five or ten consecutive days with simulated rainfall shortly before harvest greatly increased ZEA contamination of grain. Similarly, extremely high levels of ZEA were observed in grain from spikes exposed to 100% RH across all tested temperatures and IND levels under controlled conditions. Interestingly, at RH ≤ 90%, ZEA concentrations were very low at all tested temperatures, even at IND above 90%. Temperature affected ZEA contamination at 100% RH, with significantly higher mean levels of the toxin at 20 and 25oC than at 30oC. Plots harvested early and not exposed to simulated rainfall consistently had lower mean ZEA than plots harvested late and subjected to pre-harvest rainfall. This study was the first to associate ZEA contamination of grain from FHB affected wheat spikes with temperature and moisture and show through designed experiments that early harvest could be a useful strategy for reducing ZEA contamination. These findings are valuable for understanding ZEA contamination of grain and developing guidelines to mitigate the impact of this toxin on wheat grain quality.