1. Applied Wheat Genomics
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Feed the Future Innovation Lab for Applied Wheat Genomics

Publications

2017

Crossa, J., Pérez-Rodríguez, P., Cuevas, J., Montesinos-López, O., Jarquín, D., de los Campos, G., Burgueño, J., Camacho-González, J.M., Pérez-Elizalde, S., Beyene, Y., Dreisigacker, S., Singh, R., Zhang, X., Gowda, M., Roorkiwal, M., Rutkoski, J., & Varshney, R.K. (2017). Genomic Selection in Plant Breeding: Methods, Models, and Perspectives. Trends in Plant Science. Published online. http://dx.doi.org/10.1016/j.tplants.2017.08.011

Lado, B., S. Battenfield, C. Guzmán, M. Quincke, R. P. Singh, S. Dreisigacker, R. J. Peña, A. Fritz, P. Silva, J. Poland and L. Gutiérrez (2017) Strategies for selecting crosses using genomic prediction in two wheat breeding programs. The Plant Genome 10(2). DOI: 10.3835/plantgenome2016.12.0128

Montesinos López, O.A, Montesinos López, A., Cross, J., Montesinos López, J.C., Moto-Sanchez, D., Estrada-Gonzalez, F., Gilberg, J., Singh, R., Mondal, S., & Juliana, P. (2017). Prediction of multiple-trait and multiple-environment genomic data using recommender systems. G3, doi: 10.1534/g3.117.300309

Dunckel, S., Crossa, J., Wu, S., Bonnett, D., & Poland, J. (2017). Genomic Selection for Increased Yield in Synthetic-Derived Wheat. Crop Science, 57(2). https://doi.org/10.2135/cropsci2016.04.0209

Juliana, P., Singh, R. P., Singh, P. K., Crossa, J., Huerta-Espino, J., Lan, C., Bhavani, S., Rutkoski, J. E., Poland, J. A., Bergstrom, G. C., & Sorrells, M. E. (2017). Genomic and pedigree-based prediction for leaf, stem, and stripe rust resistance in wheat. Theoretical and Applied Genetics, 1–16. https://doi.org/10.1007/s00122-017-2897-1

Juliana, P., Singh, R. P., Singh, P. K., Crossa, J., Rutkoski, J. E., Poland, J. A., Bergstrom, G. C., & Sorrells, M. E. (2017). Comparison of Models and Whole-Genome Profiling Approaches for Genomic-Enabled Prediction of Septoria Tritici Blotch, Stagonospora Nodorum Blotch, and Tan Spot Resistance in Wheat. The Plant Genome, 10(2), 0. https://doi.org/10.3835/plantgenome2016.08.0082

Pérez-Rodríguez, P., Crossa, J., Rutkoski, J., Poland, J., Singh, R., Legarra, A., Autrique, E., Campos, G. de los, Burgueño, J., & Dreisigacker, S. (2017). Single-Step Genomic and Pedigree Genotype × Environment Interaction Models for Predicting Wheat Lines in International Environments. The Plant Genome, 0(0), 0. https://doi.org/10.3835/plantgenome2016.09.0089

Sehgal, D., Autrique, E., Singh, R., Ellis, M., Singh, S., Dreisigacker, S. (2017). Identification of genomic regions for grain yield and yield stability and their epistatic interactions, 2017, Scientific Reports, 7, 41578. doi:10.1038/srep41578

Tanger, P., Klassen, S., Mojica, J. P., Lovell, J. T., Moyers, B. T., Baraoidan, M., Naredo, M. E. B., McNally, K. L., Poland, J., Bush, D. R., Leung, H., Leach, J. E., & McKay, J. K. (2017). Field-based high throughput phenotyping rapidly identifies genomic regions controlling yield components in rice. Scientific Reports, 7, 42839. https://doi.org/10.1038/srep42839

2016

Guzman, C., R. J. Peña, R. Singh, E. Autrique, S. Dreisigacker, J. Crossa, J. Rutkoski, J. Poland, and S. Battenfield (2016). Wheat quality improvement at CIMMYT and the use of genomic selection on it. Applied and Translational Genomics. DOI: 10.1016/j.atg.2016.10.004

Tack, J., A. Barkley, T. Rife, J. Poland, and L. Nalley (2016). Quantifying variety-specific heat resistance and the potential for adaptation to climate change. Global Change Biology, 22(8), 2904–2912. https://doi.org/10.1111/gcb.13163  

Rutkoski, J., J. Poland, S. Mondal, E. Autrique, L. G. Párez, J. Crossa, M. Reynolds and R. Singh (2016)  Canopy temperature and vegetation indices from high-throughput phenotyping improve accuracy of pedigree and genomic selection for grain yield in wheat.  G3: Genes| Genomes| Genetics. DOI: 10.1534/g3.116.032888

Poland, J. and J. Rutkoski (2016). Advances and challenges in genomic selection for disease resistance. Annual Review of Phytopathology 54(1): DOI: doi:10.1146/annurev-phyto-080615-100056

Battenfield, S. D., C. Guzmán, R. C. Gaynor, R. Singh, R. Peña, S. Dreisigacker, A. Fritz and J. Poland (2016). Genomic selection for processing and end-use quality traits in the CIMMYT spring bread wheat breeding program.  The Plant Genome. DOI: 10.3835/plantgenome2016.01.0005

Crain, J., Y. Wei, J. Barker, S. Thompson, P. Alderman, M. Reynolds, N. Zhang and J. Poland (2016). Development and deployment of a portable field phenotyping platform. Crop Science 56(3): 965-975. DOI: 10.2135/cropsci2015.05.0290

Montesinos-López, O. A., A. Montesinos-López, J. Crossa, F. Toledo, O. Pérez-Hernández, K. M. Eskridge, J. Rutkoski. A genomic Bayesian multi-trait and multi-environment model. G3:Genes | Genomes | Genetics. 6:2725-2744 doi:10.1534/g3.116.032359

Haghighattalab, A., L. González Pérez, S. Mondal, D. Singh, D. Schinstock, J. Rutkoski, I. Ortiz-Monasterio, R. P. Singh, D. Goodin and J. Poland (2016). Application of unmanned aerial systems for high throughput phenotyping of large wheat breeding nurseries.  Plant Methods 12(1): 1-15. DOI: 10.1186/s13007-016-0134-6

Wang, X., Thorp, K. R., White, J. W., French, A. N., & Poland, J. A. (2016). Approaches for Geospatial Processing of Field-Based High-Throughput Plant Phenomics Data from Ground Vehicle Platforms. Transactions of the ASABE, 59(5), 1053–1067. https://doi.org/10.13031/trans.59.11502

Sun, J., Rutkoski, J., Poland, J., Crossa,  J., Jannink, J., Sorrells, M. Multitrait, Random Regression, or Simple Repeatability Model in High-Throughput Phenotyping Data Improve Genomic Prediction for Wheat Grain Yield. The Plant Genome. doi: 10.3835/plantgenome2016.11.0111

Pérez-Rodríguez, P., Crossa, J., Rutkoski, J., Poland, J., Singh, R., Legarra, A., Autrique, E., Campos, G. de los, Burgueño, J., & Dreisigacker, S. (2017). Single-Step Genomic and Pedigree Genotype × Environment Interaction Models for Predicting Wheat Lines in International Environments. The Plant Genome, 0(0), 0. https://doi.org/10.3835/plantgenome2016.09.0089

Barker, J., Zhang, N., Sharon, J., Steeves, R., Wang, X., Wei, Y., & Poland, J. (2016). Development of a field-based high-throughput mobile phenotyping platform. Computers and Electronics in Agriculture, 122, 74–85. https://doi.org/10.1016/j.compag.2016.01.017

2015

Juliana P., J. E. Rutkoski, J. Poland, R. P. Singh, S. Murugasamy, S. Natesan, H. Barbier, M. E. Sorrells. Genome-Wide Association Mapping for Leaf Tip Necrosis and Pseudo-black Chaff in Relation to Durable Rust Resistance in Wheat. The Plant Genome. Vol. 8, No. 2. doi:10.3835/plantgenome2015.01.0002.

Crain J. L., Y. Wei, J. Barker, S. M. Thompson, P. D. Alderman, M. Reynolds, N. Zhang, J. Poland. Development and deployment of a portable field phenotyping platform. Crop Science. Vol. 56 No. 3, p. 965-975. doi:10.2135/cropsci2015.05.0290.

Rutkoski J. , Poland J., Mondal, S. Autrique E., Gonzalez Perez L., Crossa J., Reynolds M., Singh R., Predictor traits from high-throughput phenotyping improve accuracy of pedigree and genomic selection for yield in wheat. In preparation.

Dunckel, S., M. Rouse, R Bowden, and J. Poland (2015)  Genetic mapping of race-specific stem rust resistance in the synthetic hexaploid W7984 x Opata M85 mapping population. Crop Sci. 55:1–9.
DOI: 10.2135/cropsci2014.11.0755

Poland, J. (2015)  Breeding assisted genomics. Current Opinion in Plant Biology: 24,119–124

Rife, T., S. Wu, R. Bowden and J. Poland (2015)  Spiked GBS: a unified, open platform for single marker genotyping and whole-genome profiling.  BMC Genomics 16(1): 248

Rutkoski, J., R. P. Singh, J. Huerta-Espino, S. Bhavani, J. Poland, J. L. Jannink and M. E. Sorrells (2015)  Genetic gain from phenotypic and genomic selection for quantitative resistance to stem rust of wheat.  The Plant Genome 8(2). DOI: 10.3835/plantgenome2014.10.0074

Rutkoski, J., R. P. Singh, J. Huerta-Espino, S. Bhavani, J. Poland, J. L. Jannink and M. E. Sorrells (2015)  Efficient use of historical data for genomic selection: A case study of stem rust resistance in wheat.  The Plant Genome 8(1). DOI: 10.3835/plantgenome2014.09.0046

M. Lopez‐Cruz, J. Crossa, D. Bonnett, S. Dreisigacker, J. Poland, J‐L Jannink, R. P. Singh, E. Autrique and G. de los Campos. (2015)  Increased prediction accuracy in wheat breeding trials using a marker × environment interaction genomic selection model. G3: Genes|Genomes|Genetics doi:10.1534/g3.114.016097