@article{boyles_ballen-taborda_brown-guedira_costa_cowger_dewitt_griffey_harrison_ibrahim_johnson_et al._2023, title={Approaching 25 years of progress towards Fusarium head blight resistance in southern soft red winter wheat (Triticum aestivum L.)}, volume={8}, ISSN={["1439-0523"]}, DOI={10.1111/pbr.13137}, abstractNote={Abstract}, journal={PLANT BREEDING}, author={Boyles, Richard E. and Ballen-Taborda, Carolina and Brown-Guedira, Gina and Costa, Jose and Cowger, Christina and DeWitt, Noah and Griffey, Carl A. and Harrison, Stephen A. and Ibrahim, Amir and Johnson, Jerry and et al.}, year={2023}, month={Aug} }
 @article{winn_hudson-arns_hammers_dewitt_lyerly_bai_st. amand_nachappa_haley_mason_2023, title={HaploCatcher: An R package for prediction of haplotypes}, ISSN={["1940-3372"]}, DOI={10.1002/tpg2.20412}, abstractNote={Abstract}, journal={PLANT GENOME}, author={Winn, Zachary James and Hudson-Arns, Emily and Hammers, Mikayla and DeWitt, Noah and Lyerly, Jeanette and Bai, Guihua and St. Amand, Paul and Nachappa, Punya and Haley, Scott and Mason, Richard Esten}, year={2023}, month={Nov} }
 @article{winn_acharya_merrill_lyerly_brown-guedira_cambron_harrison_reisig_murphy_2023, title={Mapping of a novel major effect Hessian fly field partial-resistance locus in southern soft red winter wheat line LA03136E71 (vol 134, pg 3911, 2021)}, volume={136}, ISSN={["1432-2242"]}, DOI={10.1007/s00122-023-04304-2}, number={4}, journal={THEORETICAL AND APPLIED GENETICS}, author={Winn, Z. J. and Acharya, R. and Merrill, K. and Lyerly, J. and Brown-Guedira, G. and Cambron, S. and Harrison, S. H. and Reisig, D. and Murphy, J. P.}, year={2023}, month={Apr} }
 @article{winn_larkin_lozada_dewitt_brown-guedira_mason_2023, title={Multivariate genomic selection models improve prediction accuracy of agronomic traits in soft red winter wheat}, volume={5}, ISSN={["1435-0653"]}, DOI={10.1002/csc2.20994}, abstractNote={Abstract}, journal={CROP SCIENCE}, author={Winn, Zachary J. and Larkin, Dylan L. and Lozada, Dennis N. and DeWitt, Noah and Brown-Guedira, Gina and Mason, Richard Esten}, year={2023}, month={May} }
 @article{winn_lyerly_brown-guedira_murphy_mason_2023, title={Utilization of a publicly available diversity panel in genomic prediction of Fusarium head blight resistance traits in wheat}, volume={5}, ISSN={["1940-3372"]}, DOI={10.1002/tpg2.20353}, abstractNote={Abstract}, journal={PLANT GENOME}, author={Winn, Zachary J. J. and Lyerly, Jeanette H. H. and Brown-Guedira, Gina and Murphy, Joseph P. P. and Mason, Richard Esten}, year={2023}, month={May} }
 @article{winn_reisig_murphy_2023, title={Yield protection afforded by imidacloprid during Hessian fly infestation in six genotypes}, volume={3}, ISSN={["1435-0645"]}, DOI={10.1002/agj2.21308}, abstractNote={Abstract}, journal={AGRONOMY JOURNAL}, author={Winn, Zachary J. J. and Reisig, Dominic and Murphy, Joseph P. P.}, year={2023}, month={Mar} }
 @article{winn_lyerly_ward_brown-guedira_boyles_mergoum_johnson_harrison_babar_mason_et al._2022, title={Profiling of Fusarium head blight resistance QTL haplotypes through molecular markers, genotyping-by-sequencing, and machine learning}, volume={7}, ISSN={["1432-2242"]}, DOI={10.1007/s00122-022-04178-w}, abstractNote={Marker-assisted selection is important for cultivar development. We propose a system where a training population genotyped for QTL and genome-wide markers may predict QTL haplotypes in early development germplasm. Breeders screen germplasm with molecular markers to identify and select individuals that have desirable haplotypes. The objective of this research was to investigate whether QTL haplotypes can be accurately predicted using SNPs derived by genotyping-by-sequencing (GBS). In the SunGrains program during 2020 (SG20) and 2021 (SG21), 1,536 and 2,352 lines submitted for GBS were genotyped with markers linked to the Fusarium head blight QTL: Qfhb.nc-1A, Qfhb.vt-1B, Fhb1, and Qfhb.nc-4A. In parallel, data were compiled from the 2011-2020 Southern Uniform Winter Wheat Scab Nursery (SUWWSN), which had been screened for the same QTL, sequenced via GBS, and phenotyped for: visual Fusarium severity rating (SEV), percent Fusarium damaged kernels (FDK), deoxynivalenol content (DON), plant height, and heading date. Three machine learning models were evaluated: random forest, k-nearest neighbors, and gradient boosting machine. Data were randomly partitioned into training-testing splits. The QTL haplotype and 100 most correlated GBS SNPs were used for training and tuning of each model. Trained machine learning models were used to predict QTL haplotypes in the testing partition of SG20, SG21, and the total SUWWSN. Mean disease ratings for the observed and predicted QTL haplotypes were compared in the SUWWSN. For all models trained using the SG20 and SG21, the observed Fhb1 haplotype estimated group means for SEV, FDK, DON, plant height, and heading date in the SUWWSN were not significantly different from any of the predicted Fhb1 calls. This indicated that machine learning may be utilized in breeding programs to accurately predict QTL haplotypes in earlier generations.}, journal={THEORETICAL AND APPLIED GENETICS}, author={Winn, Zachary J. and Lyerly, Jeanette and Ward, Brian and Brown-Guedira, Gina and Boyles, Richard E. and Mergoum, Mohamed and Johnson, Jerry and Harrison, Stephen and Babar, Ali and Mason, Richard E. and et al.}, year={2022}, month={Jul} }
 @article{winn_acharya_merrill_lyerly_brown-guedira_cambron_harrison_reisig_murphy_2021, title={Mapping of a novel major effect Hessian fly field partial-resistance locus in southern soft red winter wheat line LA03136E71}, volume={8}, ISSN={["1432-2242"]}, DOI={10.1007/s00122-021-03936-6}, abstractNote={Hessian fly resistance has centralized around resistance loci that are biotype specific. We show that field resistance is evident and controlled by a single locus on chromosome 7D. Hessian flies (Mayetiola destructor Say) infest and feed upon wheat (Triticum aestivum L) resulting in significant yield loss. Genetically resistant cultivars are the most effective method of Hessian fly management. Wheat breeders in the southern USA have observed cultivars exhibiting a "field resistance" to Hessian fly that is not detectable by greenhouse assay. The resistant breeding line "LA03136E71" and susceptible cultivar "Shirley" were crossed to develop a population of 200 random F 4:5  lines using single seed descent. The population was evaluated in a total of five locations in North Carolina during the 2019, 2020, and 2021 seasons. A subsample of each plot was evaluated for the total number of tillers, number of infested tillers, and total number of larvae/pupae. From these data, the percent infested tillers, number of larvae/pupae per tiller, and the number of larvae/pupae per infested tiller were estimated. In all within and across environment combinations for all traits recorded, the genotype effect was significant (p < 0.05). Interval mapping identified a single large effect QTL distally on the short arm of chromosome 7D for all environment-trait combinations. This locus was identified on a chromosome where no other Hessian fly resistance/tolerance QTL has been previously identified. This novel Hessian fly partial-resistance QTL is termed QHft.nc-7D. Fine mapping must be conducted in this region to narrow down the causal agents responsible for this trait, and investigation into the mode of action is highly suggested.}, journal={THEORETICAL AND APPLIED GENETICS}, author={Winn, Z. J. and Acharya, R. and Merrill, K. and Lyerly, J. and Brown-Guedira, G. and Cambron, S. and Harrison, S. H. and Reisig, D. and Murphy, J. P.}, year={2021}, month={Aug} }
 @article{winn_larkin_murry_moon_mason_2021, title={Phenotyping Anther Extrusion of Wheat Using Image Analysis}, volume={11}, ISSN={["2073-4395"]}, DOI={10.3390/agronomy11061244}, abstractNote={Phenotyping wheat (Triticum aestivum L.) is time-consuming and new methods are necessary to decrease labor. To develop a heterotic pool of male wheat lines for hybrid breeding, there must be an efficient way to measure both anther extrusion and the size of anthers. Five hundred and ninety-four soft red winter wheat lines in two replications of randomized complete block design were phenotyped for anther extrusion, a key trait for hybrid wheat production. A device was constructed to capture images using a mobile device. Four heads were sampled per line when anthesis was evident for half the heads in the plot. The extruded anthers were scraped onto a surface, their image was captured, and the area of the anthers was taken via ImageJ. The number of anthers extruded was estimated by counting the number of anthers per image and dividing by the number of heads sampled. The area per anther was taken by dividing the area of anthers per spike by the number of anthers per spike. A significant correlation (R=0.9, p<0.0001) was observed between the area of anthers per spike and the number of anthers per spike. This method is proposed as a substitute for field ratings of anther extrusion and to quantitatively measure the size of anthers.}, number={6}, journal={AGRONOMY-BASEL}, author={Winn, Zachary James and Larkin, Dylan Lee and Murry, Jamison Trey and Moon, David Earl and Mason, Richard Esten}, year={2021}, month={Jun} }