Research Project: Genetic Improvement of Wheat and Barley for Environmental Resilience, Disease Resistance, and End-use Quality

Location: Wheat Health, Genetics, and Quality Research

Publications (Clicking on the reprint icon will take you to the publication reprint.)

A MYB transcription factor underlying plant height in sorghum qHT7.1 and maize Brachytic 1 loci - (Peer Reviewed Journal)
Mu, Q., Wei, J., Longest, H., Char, S., Tibbs Cortes, L., Yang, B., Li, X., Yu, J. 2024. A MYB transcription factor underlying plant height in sorghum qHT7.1 and maize Brachytic 1 loci. Plant Journal. 120:2172-2192. https://doi.org/10.1111/tpj.17111.

Evolutionary patterns of DNA base composition at polymorphic sites highlight the role of the environment in shaping barley rice genomes - (Peer Reviewed Journal)
Gou, X., Shao, Y., Li, X., Guo, T. 2024. Evolutionary patterns of DNA base composition at polymorphic sites highlight the role of the environment in shaping barley rice genomes. The Plant Genome. 17(2). Article 20456. https://doi.org/10.1002/tpg2.20456.

Novel allelic variations in Tannin1 and Tannin2 contribute to tannin absence in sorghum - (Peer Reviewed Journal)
Zhang, W., Benke, R.L., Zhang, X., Zhang, H., Zhao, C., Zhao, Y., Xu, Y., Wang, H., Liu, S., Li, X., Wu, Y. 2024. Novel allelic variations in Tannin1 and Tannin2 contribute to tannin absence in sorghum. Molecular Breeding. 44. Article 24. https://doi.org/10.1007/s11032-024-01463-y.

Chapter one - the role of artificial intelligence in crop improvement - (Book / Chapter)
Negus, K., Li, X., Welch, S., Yu, J. 2024. The Role of Artificial Intelligence in Crop Improvement. Advances in Agronomy. 184,2024:1-66. https://doi.org/10.1016/bs.agron.2023.11.001.

Genetic mapping of dynamic control of leaf angle across multiple canopy levels in maize - (Peer Reviewed Journal)
Dzievit, M., Li, X., Yu, J. 2023. Genetic mapping of dynamic control of leaf angle across multiple canopy levels in maize. The Plant Genome. 17(1). Article e20423. https://doi.org/10.1002/tpg2.20423.

Environmental context of phenotypic plasticity in flowering time in sorghum and rice - (Peer Reviewed Journal)
Guo, T., Wei, J., Li, X., Yu, J. 2023. Environmental context of phenotypic plasticity in flowering time in sorghum and rice. Journal of Experimental Botany. 75(3):1004-1015. https://doi.org/10.1093/jxb/erad398.

Sequencing 4.3 million mutations in wheat promoters to understand and modify gene expression - (Peer Reviewed Journal)
Zhang, J., Xiong, H., Burguener, G.F., Woods, D.P., Liu, Q., Debernardi, J.M., Akhunova, A., Garland Campbell, K.A., Kianian, S., Brown Guedira, G.L., Pozniak, C., Faris, J.D., Akhunov, E., Dubcovsky, J. 2023. Sequencing 4.3 million mutations in wheat promoters to understand and modify gene expression. Proceedings of the National Academy of Sciences (PNAS). 120(38) e2306494120. https://doi.org/10.1073/pnas.2306494120.

Streamline unsupervised machine learning to survey and graph indel-based haplotypes from pan-genomes - (Peer Reviewed Journal)
Zhang, B., Huang, H., Tibbs, L.E., Zhang, Z., Sanguinet, K., Vanous, A.E., Garland Campbell, K.A., Yu, J., Li, X. 2023. Streamline unsupervised machine learning to survey and graph indel-based haplotypes from pan-genomes. Molecular Plant. 16(6):975-978. https://doi.org/10.1016/j.molp.2023.05.005.

LMA or vivipary? Wheat grain can germinate precociously during grain maturation under the cool conditions used to induce late maturity alpha-amylase (LMA) - (Peer Reviewed Journal)
Peery, S.R., Carle, S., Wysock, M., Pumphrey, M., Steber, C.M. 2023. LMA or vivipary? Wheat grain can germinate precociously during grain maturation under the cool conditions used to induce late maturity alpha-amylase (LMA). Frontiers in Plant Science. 14. Article 1156784. https://doi.org/10.3389/fpls.2023.1156784.

Seed dormancy loss from dry after-ripening is associated with increasing gibberellin hormone levels in Arabidopsis thaliana - (Peer Reviewed Journal)
Nelson, S., Kanno, Y., Seo, M., Steber, C.M. 2023. Seed dormancy loss from dry after-ripening is associated with increasing gibberellin hormone levels in Arabidopsis thaliana. Frontiers in Plant Science. 14. Article 1145414. https://doi.org/10.3389/fpls.2023.1145414.

An independent validation reveals the potential to predict Hagberg-Perten falling number using spectrometers - (Peer Reviewed Journal)
Chen, C., Hu, Y., Li, X., Morris, C., Delwiche, S.R., Carter, A.H., Steber, C.M., Zhang, Z. 2023. An independent validation reveals the potential to predict Hagberg-Perten falling number using spectrometers. The Plant Phenome Journal. 6(1). Article e20070. https://doi.org/10.1002/ppj2.20070.

Association of canopy temperature with agronomic traits in spring wheat inbred populations - (Peer Reviewed Journal)
Shrestha, S.L., Garland-Campbell, K.A., Steber, C.M., Pan, W.L., Hulbert, S.H. 2022. Association of canopy temperature with agronomic traits in spring wheat inbred populations. Euphytica. 219. Article 7. https://doi.org/10.1007/s10681-022-03135-4.

Machine learning for predicting phenotype from genotype and environment - (Peer Reviewed Journal)
Guo, T., Li, X. 2023. Machine learning for predicting phenotype from genotype and environment. Current Opinion in Biotechnology. 79. Article 102853. https://doi.org/10.1016/j.copbio.2022.102853.

Streamlined alpha-amylase assays for wheat preharvest sprouting and late maturity alpha-amylase detection - (Peer Reviewed Journal)
Hauvermale, A.L., Parveen, R.S., Harris, T., Tuttle, K.M., Mikhaylenko, G.G., Nair, S., McCubbin, A.G., Pumphrey, M.O., Steber, C.M. 2023. Streamlined alpha-amylase assays for wheat preharvest sprouting and late maturity alpha-amylase detection. Agrosystems, Geosciences & Environment. 6(1). Article e20327. https://doi.org/10.1002/agg2.20327.

Genomic prediction of tocochromanols in exotic-derived maize - (Peer Reviewed Journal)
Tibbs-Cortes, L.E., Guo, T., Li, X., Tanaka, R., Vanous, A.E., Peters, D.W., Gardner, C.A., Magallanes-Lundback, M., Deason, N.T., DellaPenna, D., Gore, M.A., Yu, J. 2022. Genomic prediction of tocochromanols in exotic-derived maize. The Plant Genome. Article e20286. https://doi.org/10.1002/tpg2.20286.

Leveraging prior biological knowledge improves prediction of tocochromanols in maize grain - (Peer Reviewed Journal)
Tanaka, R., Wu, D., Li, X., Tibbs-Cortes, L.E., Wood, J., Magallanes-Lundback, M., Bornowski, N., Hamilton, J.P., Vaillancourt, B., Li, X., Deason, N.T., Schoenbaum, G.R., Buell, C.R., DellaPenna, D., Yu, J., Gore, M.A. 2022. Leveraging prior biological knowledge improves prediction of tocochromanols in maize grain. The Plant Genome. Article e20276. https://doi.org/10.1002/tpg2.20276.

Gibberellin signaling expands to include the UBX domain protein PUX1, a new binding partner for GID1 - (Peer Reviewed Journal)
Hauvermale, A., Cardenas, J.J., Bednarek, S.Y., Steber, C.M. 2022. Gibberellin signaling expands to include the UBX domain protein PUX1, a new binding partner for GID1. Plant Physiology. 190(4):2651-2670. https://doi.org/10.1093/plphys/kiac406.

Combining GWAS and TWAS to identify candidate causal genes for tocochromanol levels in maize grain - (Peer Reviewed Journal)
Wu, D., Li, X., Tanaka, R., Wood, J., Tibbs-Cortes, L., Magallanes-Lundback, M., Bornowski, N., Hamilton, J., Vaillancourt, B., Diepenbrock, C., Li, X., Deason, N., Schoenbaum, G., Yu, J., Buell, R., Dellapenna, D., Gore, M. 2022. Combining GWAS and TWAS to identify candidate causal genes for tocochromanol levels in maize grain. Genetics. 221(4). Article iyac091. https://doi.org/10.1093/genetics/iyac091.

Unraveling the sorghum domestication - (Literature Review)
Li, X., Yu, J. 2022. Unraveling the sorghum domestication. Molecular Plant. 15:1-2. https://doi.org/10.1016/j.molp.2022.03.006.

As the Number Falls, Alternatives Advanced to the Hagberg-Perten Falling Number Method: a Review - (Peer Reviewed Journal)
Hu, Y., Sjoberg, S.M., Chen, J., Hauvermale, A.L., Morris, C.F., Delwiche, S.R., Cannon, A., Steber, C.M., Zhang, Z. 2022. As the Number Falls, Alternatives Advanced to the Hagberg-Perten Falling Number Method: a Review. Comprehensive Reviews in Food Science and Food Safety. 21(3):2105-2117. https://doi.org/10.1111/1541-4337.12959.

Registration of 'Cameo' soft white club wheat - (Peer Reviewed Journal)
Garland-Campbell, K.A., Bellinger, B.S., Carter, A.H., Chen, X., DeMacon, P., Engle, D., Hagerty, C., Kiszonas, A., Klarquist, E.F., Murray, T., Morris, C.F., Neely, C., Odubiyi, S., Rashad, A., See, D., Steber, C., Wen, N. 2022. Registration of 'Cameo' soft white club wheat. Journal of Plant Registrations. 16(3):585-596. https://doi.org/10.1002/plr2.20234.

Developing a definition of biofortification through the synthesis of food biofortification publications: a scoping review protocol - (Peer Reviewed Journal)
Kellogg, J.A., Klarquist, E.F., Waziri, A.D., Luftig, D., Carbonero, F., Solverson, P., Perrigue, M., Walton, J., Aytekin, D., Mackenzie, A., Garland Campbell, K.A., Murphy, K.M. 2022. Developing a definition of biofortification through the synthesis of food biofortification publications: a scoping review protocol. JBI Evidence Synthesis. 20:8,2109-2116. https://doi.org/10.11124/JBIES-21-00297.

Club wheat, A review of history, improvement, and spike characteristics in wheat. - (Literature Review)
Garland Campbell, K.A. 2022. Club wheat, A review of history, improvement, and spike characteristics in wheat.. Plant Breeding Reviews. 7:421-465. https://doi.org/10.1002/9781119874157.ch7.

Phenotypic plasticity in plant height shaped by interaction between genetic loci and diurnal temperature range - (Peer Reviewed Journal)
Mu, Q., Guo, T., Li, X., Yu, J. 2022. Phenotypic plasticity in plant height shaped by interaction between genetic loci and diurnal temperature range. New Phytologist. 233(4):1768-1779. https://doi.org/10.1111/nph.17904.

Late Maturity Alpha-Amylase (LMA): Exploring the Underlying Mechanisms and End-Use Quality Effects in Wheat - (Peer Reviewed Journal)
Cannon, A., Marston, E.J., Kiszonas, A.M., Hauvermale, A.L., See, D.R. 2021. Late Maturity Alpha-Amylase (LMA): Exploring the Underlying Mechanisms and End-Use Quality Effects in Wheat. Planta. https://doi.org/10.1007/s00425-021-03749-3.

Genetics-inspired data-driven approaches explain and predict crop performance fluctuations attributed to changing climatic conditions - (Peer Reviewed Journal)
Li, X., Guo, T., Bai, G., Zhang, Z., See, D.R., Marshall, J., Garland Campbell, K.A., Yu, J. 2022. Genetics-inspired data-driven approaches explain and predict crop performance fluctuations attributed to changing climatic conditions. Molecular Plant. 15(2):203-206. https://doi.org/10.1016/j.molp.2022.01.001.

High-efficiency plastome base editing in rice with TAL cytosine deaminase - (Peer Reviewed Journal)
Li, R., Char, S., Liu, B., Liu, H., Li, X., Yang, B. 2021. High-efficiency plastome base editing in rice with TAL cytosine deaminase. Molecular Plant. 14(9):1412-1414. https://doi.org/10.1016/j.molp.2021.07.007.

Fine mapping of high-temperature adult-plant resistance to stripe rust in wheat cultivar Louise - (Peer Reviewed Journal)
Nazarov, T., Chen, X., Carter, A., See, D.R. 2021. Fine mapping of high-temperature adult-plant resistance to stripe rust in wheat cultivar Louise. Journal of Plant Protection Research. 60(2):126-133. https://doi.org/10.24425/jppr.2020.132213.

Registration of “ARS Crescent” soft white winter club wheat - (Peer Reviewed Journal)
Garland Campbell, K.A., Allan, R., Burke, A., Chen, X., DeMacon, P., Higginbotham, R., Engle, D., Klarquist, E., Mundt, C., Murray, T., Morris, C.F., See, D.R., Wen, N. 2021. Registration of “ARS Crescent” soft white winter club wheat. Journal of Plant Registrations. 15(3):515-526. https://doi.org/10.1002/plr2.20135.

Registration of Castella soft white winter club wheat - (Peer Reviewed Journal)
Garland Campbell, K.A., Carter, A.H., Allan, R., Chen, X., Steber, C.M., DeMacon, P., Esser, A., Higginbotham, R., Engle, D., Klarquist, E., Morris, C.F., Mundt, C., Murray, T., See, D.R., Wen, N. 2021. Registration of Castella soft white winter club wheat. Journal of Plant Registrations. 15(3):504-514. https://doi.org/10.1002/plr2.20132.

The three-way interaction of varietal emergence capabilities, rht semi-dwarfing alleles, and GA3 seed application from deep planted wheat (Triticum aestivum L) - (Peer Reviewed Journal)
Horgan, A.M., Garland Campbell, K.A., Carter, A.H., Steber, C.M. 2021. The three-way interaction of varietal emergence capabilities, rht semi-dwarfing alleles, and GA3 seed application from deep planted wheat (Triticum aestivum L). Agrosystems, Geosciences & Environment. 4(1). Article e20144. https://doi.org/10.1002/agg2.20144.

Leaf temperature impacts whole plant water use efficiency independent of changes in leaf level water use efficiency - (Peer Reviewed Journal)
Sexton, T.M., Steber, C.M., Cousins, A.B. 2021. Leaf temperature impacts whole plant water use efficiency independent of changes in leaf level water use efficiency. Journal of Plant Physiology. 258-259. Article 153357. https://doi.org/10.1016/j.jplph.2020.153357.

Identifying the underlying mechanisms that lead to low falling number in wheat - (Proceedings)

Application of the factor analytic model to assess wheat falling number performance and stability in multi-environment trials - (Peer Reviewed Journal)
Sjoberg, S., Carter, A., Steber, C.M., Garland Campbell, K.A. 2020. Application of the factor analytic model to assess wheat falling number performance and stability in multi-environment trials. Crop Science. https://doi.org/10.1002/csc2.20293.

Carbon isotope discrimination association with yield and test weight of the Pacific Northwest adapted spring and winter wheat - (Peer Reviewed Journal)
Shrestha, S.L., Garland Campbell, K.A., Steber, C.M., Hulbert, S.H. 2020. Carbon isotope discrimination association with yield and test weight of the Pacific Northwest adapted spring and winter wheat. Field Crops Research. Vol 3, Issue 1. https://doi.org/10.1002/agg2.20052.

Unravelling complex traits in wheat: approaches for analyzing genotype by environment interactions in a multi-environment study of falling numbers - (Peer Reviewed Journal)
Sjoberg, S.M., Carter, A.H., Steber, C.M., Garland Campbell, K.A. 2020. Unravelling complex traits in wheat: approaches for analyzing genotype by environment interactions in a multi-environment study of falling numbers. Crop Science. 60,6:3013-3026. https://doi.org/10.1002/csc2.20133.

Characterization of root traits for improvement of spring wheat in the Pacific Northwest - (Peer Reviewed Journal)
Ghimire, B., Hulbert, S., Garland Campbell, K.A., Steber, C.M., Sanguinet, K. 2020. Characterization of root traits for improvement of spring wheat in the Pacific Northwest. Agronomy Journal. 112(1):228-240. https://doi.org/10.1002/agj2.20040.

Exome sequencing of bulked segregants identified a novel TaMKK3-A allele linked to the wheat ERA8 ABA-hypersensitive germination phenotype - (Peer Reviewed Journal)
Martinez, S.A., Shorinola, O., Conselman, S., See, D.R., Skinner, D.Z., Uauy, C., Steber, C.M. 2020. Exome sequencing of bulked segregants identified a novel TaMKK3-A allele linked to the wheat ERA8 ABA-hypersensitive germination phenotype. Theoretical and Applied Genetics. 133:719-736. https://doi.org/10.1007/s00122-019-03503-0.

GA signaling is essential for the embryo-to-seedling transition during Arabidopsis seed germination, a ghost story - (Peer Reviewed Journal)
Hauvermale, A.L., Steber, C.M. 2020. GA signaling is essential for the embryo-to-seedling transition during Arabidopsis seed germination, a ghost story. Plant Signaling and Behavior. 15(1):1-9. https://doi.org/10.1080/15592324.2019.1705028.

Genetic diversity of clinal freezing tolerance variation in winter wheat landraces - (Peer Reviewed Journal)
Kandel, J., Huang, M., Zhang, Z., Skinner, D.Z., See, D.R. 2018. Genetic diversity of clinal freezing tolerance variation in winter wheat landraces. Agronomy. 8(6),95.

Evaluation of a QTL mapping population composed of hard red spring and winter wheat alleles using various marker platforms - (Peer Reviewed Journal)
Cook, J.P., Heo, H., Varella, A.C., Lanning, A.C., Blake, N.K., Sherman, J.D., Martin, J.M., See, D.R., Chao, S., Talbert, L.E. 2018. Evaluation of a QTL mapping population composed of hard red spring and winter wheat alleles using various marker platforms. Crop Science. 58:701-712.