Lynnette M. A. Dirk, and A. Bruce Downie. 2018. "An examination of Job’s rule: Protection and repair of the proteins of the translational apparatus in seeds." Seed Science Research. 28, 168–181.
Lynnette M.A. Dirk, Manoj Majee, Santosh Kumar, A. Bruce Downie. 2018. "PHYTOCHROME INTERACTING FACTOR1 interactions leading to the completion or prolongation of seed germination." Plant Signaling and Behavior. 13(10):e1525999.
Manoj Majee, Santosh Kumar, Praveen Kumar Kathare, Shuiqin Wu, Derek Gingerich, Nihar R. Nayak, Louai Salaita, Randy Dinkins, Kathleen Martin, Michael Goodin, Lynnette M.A. Dirk, Taylor D. Lloyd, Ling Zhu, Joseph Chappell, Art G. Hunt, Richard Vierstra, Enamul Huq, and A. Bruce Downie. 2018. "KELCH F-BOX Protein Positively Influences Seed Germination by Targeting PHYTOCHROME-INTERACTING FACTOR1." Proceedings of the National Academy of Science U.S.A. 115 (17) E4120-E4129. 

Tao Li, Yumin Zhang, Dong Wang, Ying Liu, Lynnette M.A. Dirk, Jack Goodman, A. Bruce Downie, Jianmin Wang, Guoying Wang, Tianyong Zhao. "Regulation of Seed Vigor by Manipulation of Raffinose Family Oligosaccharides (RFOs) in Maize and Arabidopsis." Molecular Plant. 10(12):1540:1555.

Majee Manoj, Wu Shuiqin, Salaita Louai, Gingerich Derek, Dirk Lynnette M.A., Chappell Joseph, Hunt Art G., Vierstra Richard, Downie A. Bruce. "A Misannotated Locus Positively Influencing Arabidopsis Seed Germination is Deconvoluted Using Multiple Methods, Including surrogate Splicing." Plant Gene. 10: 74-85. 

Santos, Juliana F., Dirk, Lynnette M.A., Downie, A. Bruce, Sanches, Mauricio F. G. and Vieira, Roberval D. "Soluble Sugars, Storage Proteins and Reciprocal Effect of Parental Lines of Corn Hybrid Seeds." Seed Science Research. 27: 206-216. 
"Findings from Sao Paulo State University Broaden Understanding of Seed Science." (Reciprocal Effect of Parental Lines on the Physiological Potential and Seed Composition of Corn Hybrid Seeds). 
Agriculture Week. Sep 21, 2017, p.106. 

Gu Lei, Zhang Y., Zhang M., Li Tao, Dirk Lynnette M.A., Downie B., Zhao T-Y. "ZmGOLS2, a Target of Transcription Factor ZmDREB2A, Offers Similar Protection Against Abiotic Stress as ZmDREB2A, When Either is Over-Expressed in Arabidopsis, While Presenting a Wild Type Growth Habit in Unstressed kConditions." Plant Molecular Biology. 90:157–170. 

Han Q, Li T, Zhang L, Dirk Lynnette M.A, Downie B, Zhao T-Y. "Functional Analysis of the 5’ Regulatory Region of the Maize ALKALINE ALPHA-GALACTOSIDASE1 Gene." Plant Molecular Biology Reporter. 33: 1361-1370. DOI 10.1007/s11105-014-0840-z. 

Barrero J.M., Downie A.B., Xu Q, Gubler F. "A Role for Barley CRYPTOCHROME1 in Light Regulation of Grain Dormancy and Germination." The Plant Cell. 26:1094-1104.  In this issue: "Cryptochromes and Seed Dormancy: The Molecular Mechanism of Blue Light Inhibition of Grain Germination." Nancy Hofmann. The Plant Cell. 2014; 26: 846.

Kushwaha R, Schäfermeyer K.R., Downie A.B. "A Protocol for Phage Display and Affinity Selection Using Recombinant Protein Baits." Journal of Visualized Experiments. 84, e50685, doi:10.3791/50685. 
Petti C., Harman-Ware A.E., Tateno M., Kushwaha R., Shearer A., Downie A.B., Crocker M., DeBolt S. "Sorghum Mutant RG Displays Antithetic Leaf Shoot Lignin Accumulation Resulting in Improved Stem Saccharification Properties." Biotechnology for Biofuels. 6: 146. 

Gu Lei, Han Z., Zhang ., Downie B., Zhao T-Y. Functional Analysis of the 5’ Regulatory Region of the Maize GALACTINOL SYNTHASE2 Gene. Plant Science. 213: 38–45. 

Nayak N., Putnam A., Chen T., Addepalli B., Lowenson J., Jankowsky E., Perry S.E., Dinkins R., Limbach P., Clarke S.G., Downie A.B. "An ATP Dependent DEAD-box RNA-helicase Loses Activity Upon isoAsp Formation but is Restored by PROTEIN ISOASPARTYL METHYLTRANSFERASE. The Plant Cell. 25:2573-2586.
Kushwaha R., Downie B., Payne C.M. "Uses of Phage Display in Agriculture: Sequence Analysis and Comparative Modeling of Late Embryogenesis Abundant Client Proteins Suggests Protein-nucleic Acid Binding Functionality." Computational and Mathematical Methods in Medicine. (Special Issue on Phage Display Informatics). Volume 2013, Article ID 470390.

Kushwaha R., Payne C.M., Downie B. "Uses of Phage Display in Agriculture: A Review of Food-related Protein-Protein Interactions Discovered by Biopanning Over Diverse Baits." Computational and Mathematical Methods in Medicine. (Special Issue on Phage Display Informatics) Volume 2013, Article ID 653759.