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Publications

2018

  • Ali, J., U.M. Aslam, R. Tariq, V. Murugaiyan, P.S. Schnable, D. Li, C.M. Marfori-Nazarea, J.E. Hernandez, M. Arif, J. Xu, Z. Li. Exploiting the genomic diversity of rice (Oryza sativa L.): SNP-typing in 11 early-backcross introgression-breeding populations. Front Plant Sci. 2018. 9, 849.
  • Alkhalifah, N., D.A. Campbell, C.M. Falcon, J. Gardiner, N.D. Miller, M.C. Romay, R. Walls, R. Walton, C.T. Yeh, M. Bohn, J. Bubert, E.S. Buckler, I. Ciampitti, S. Flint-Garcia, M.A. Gore, C. Graham, C.N. Hirsch, J.B. Holland, D.C. Hooker, S.M. Kaeppler, J. Knoll, N. Lauter, E.C. Lee, A. Lorenz, J.P. Lynch, S.P. Moose, S.C. Murray, R. Nelson, T. Rocheford, O. Rodriguez, J.C. Schnable, B. Scully, M. Smith, N.M. Springer, P. Thomison, M.R. Tuinstra, R.J. Wisser, W. Xu, D. Ertl, P.S. Schnable, N. de Leon, E.P. Spalding, J. Edwards, C.J. Lawrence-Dill. Maize genomes to fields: 2014 and 2015 field season genotype, phenotype, environment, and inbred ear image datasets. BMC Res Notes. 2018. 11, 452.
  • Banakar, R., K. Lee, A. Eggenberger, K. Wang. CRISPR-Cas9 Ribonucleoprotein Complex Delivery in Plants for DNA Free Genome Editing. IN VITRO CELLULAR & DEVELOPMENTAL BIOLOGY-ANIMAL. 2018. 54, S30
  • Bao Y., Pu Y., Yu X., Gregory, B.D., Srivastava, R., Howell, S.H., Bassham, D.C. IRE1B degrades RNAs encoding proteins that interfere with the induction of autophagy by ER stress in Arabidopsis thaliana. Autophagy. 2018. 14, 1562-1573
  • Barnes, S.N., Wram, C.L., Mitchum, M.G., Baum, T.J. The plant-parasitic cyst nematode effector GLAND4 is a DNA-binding protein. Mol Plant Pathol. 2018. 19, 2263-2276
  • Bender, K.W., Zielinski, R.E., Huber, S.C. Revisiting paradigms of Ca(2+) signaling protein kinase regulation in plants. Biochem J. 2018. 475, 207-223
  • Bezrutczyk, M., J. Yang, J.S. Eom, M. Prior, D. Sosso, T. Hartwig, B. Szurek, R. Oliva, C. Vera‐Cruz, F.F. White, B. Yang, W.B. Frommer. Sugar flux and signaling in plant–microbe interactions. Plant Journal. 2018. 93, 675-685
  • Bezrutczyk, M., T. Hartwig, M. Horschman, S.N. Char, J. Yang, B. Yang, W.B. Frommer, D. Sosso. Impaired phloem loading in zmsweet13a,b,c sucrose transporter triple knock‐out mutants in Zea mays. New Phytol. 2018. 218, 594-603
  • Brendel, V.P. From small RNA discoveries to a new paradigm in computational genomics? New Phytol. 2018. 220, 659-660
  • Burkhow, S.J., Stephens, N.M., Mei, Y., Duenas, M.E., Freppon, D.J., Ding, G., Smith, S.C., Lee, Y.-J., Nikolau, B.J., Whitham, S.A., Smith, E.A. Characterizing virus-induced gene silencing at the cellular level with in situ multimodal imaging. Plant Methods. 2018. 14, 37
  • Caddell, D.F., Wei, T., Sharma, S., Oh, M.H., Park, C.J., Canlas, P., Huber, S.C., Ronald, P.C. Four tyrosine residues of the rice immune receptor XA21 are not required for interaction with the co-receptor OsSERK2 or resistance to Xanthomonas oryzae pv. oryzae. PeerJ. 2018. 6, e6074
  • Carzoli, A.K., Aboobucker, S.I., Sandall, L.L., Lübberstedt, T.T., Suza, W.P. Risks and opportunities of GM crops: Bt maize example. Global food security. 2018. 19, 84-91
  • Chao, L., Hayes, D., Jacobs. K. "Biomass for bioenergy: Optimal collection mechanisms and pricing when feedstock supply does not equal availability". Energy Economics 2018
  • Chen, J., Giroux, T., Nguyen, Y., Kadoma, A., Chang, B., VanVeller, B., Thuo, M. Understanding interface (odd-even) effects in charge tunneling using polished EGaIn electrode. Physical Chemistry Chemical Physics. 2018. 20, 4864-4878
  • Chen, L., P. Zhang, Y. Fan, Q. Lu, Q. Li, J. Yan, G.J. Muehlbauer, P.S. Schnable, M. Dai, L. Li. Circular RNAs mediated by transposons are associated with transcriptomic and phenotypic variation in maize. New Phytol. 2018. 217, 1292-1306.
  • Davis-Vogel, C., Ortiz, A., Procyk, L., Robeson, J., Kassa, A., Wang, Y., Huang, E., Walker, C., Sethi, A., Nelson, M.E., Sashital, D.G. Knockdown of RNA interference pathway genes impacts the fitness of western corn rootworm. Sci Rep. 2018. 8, 7858
  • Davis-Vogel, C., Van Allen, B., Van Hemert, J.L., Sethi, A., Nelson, M.E., Sashital, D.G. Identification and comparison of key RNA interference machinery from western corn rootworm, fall armyworm, and southern green stink bug. PLoS One. 2018. 13, e0203160
  • Diers, B.W., Specht, J., Rainey, K.M., Cregan, P., Song, Q., Ramasubramanian, V., Graef, G., Nelson, R., Schapaugh, W., Wang, D., Shannon, G., McHale, L., Kantartzi, S.K., Xavier, A., Mian, R., Stupar, R.M., Michno, J.M., An, Y.C., Goettel, W., Ward, R., Fox, C., Lipka, A.E., Hyten, D., Cary, T., Beavis, W.D. Genetic Architecture of Soybean Yield and Agronomic Traits. G3. 2018. 8, 3367-3375
  • Do Canto, J., Studer, B., Frei, U., Lübberstedt, T. Fine mapping a self-fertility locus in perennial ryegrass. Theoretical and Applied Genetics. 2018. 131, 817-827
  • Dorius, S.F., Lawrence-Dill, C.J. Sowing the seeds of skepticism: Russian state news and anti-GMO sentiment. GM Crops Food. 2018. 9, 53-58
  • Duensing, N., Sprink, T., Parrott, W.A., Fedorova, M., Lema, M.A., Wolt, J.D., Bartsch, D. Novel Features and Considerations for ERA and Regulation of Crops Produced by Genome Editing. Front Bioeng Biotechnol. 2018. 6, 79.
  • Dzievit, M.J., Li, X. Yu, J. Dissection of Leaf Angle Variation in Maize through Genetic Mapping and Meta-Analysis. Plant Genome. 2018. Accepted
  • Gabay-Laughnan, S., Settles, A.M., Hannah, L.C., Porch, T.G. Becraft, P.W., McCarty, D.R., Koch, K.E., Zhao, L., Kamps, T.L., Chamusco, K.C., Chase, C.D.. Restorer-of-Fertility Mutations Recovered in Transposon-Active Lines of S Male-Sterile Maize. G3. 2018. 8, 291-302
  • Gardner, M., Dhroso, A., Johnson, N., Davis, E.L., Baum, T.J., Korkin, D., Mitchum, M.G.. Novel global effector mining from the transcriptome of early life stages of the soybean cyst nematode Heterodera glycines. Sci Rep. 2018. 8, 2505
  • Gilbert, M.K., R. Majumdar, K. Rajasekaran, Z.Y. Chen, Q. Wei, C.M. Sickler, M.D. Lebar, J.W. Cary, B.R. Frame, K. Wang. RNA interference-based silencing of the alpha-amylase (amy1) gene in Aspergillus flavus decreases fungal growth and aflatoxin production in maize kernels. Planta. 2018. 247, 1465-1473.
  • Guo, H., T.M. Nolan, G. Song, S. Liu, Z. Xie, J. Chen, P.S. Schnable, J.W. Walley, Y. Yin. FERONIA receptor kinase contributes to plant immunity by suppressing jasmonic acid signaling in Arabidopsis thaliana. Curr. Biol., 2018. 28, 3316-3324.
  • Hajimorad, M.R., Domier, L.L., Tolin, S.A., Whitham, S.A., Saghai Maroof, M.A. Soybean mosaic virus: A successful potyvirus with a wide distribution but restricted natural host range. Mol. Plant Pathol. 2018. 19, 1563-1579
  • Halewood, M., Chiurugwi, T., Sackville Hamilton, R., Kurtz, B., Marden, E., Welch, E., Michiels, F., Mozafari, J., Sabran, M., Patron, N., Kersey, P., Bastow, R., Dorius, S., Dias, S., McCouch, S., Powell, W. Plant genetic resources for food and agriculture: opportunities and challenges emerging from the science and information technology revolution. New Phytol. 2018. 217, 1407-1419
  • Hansen, R.L., H. Guo, Y. Yin, Y.J. Lee. FERONIA mutation induces high levels of chloroplast‐localized Arabidopsides which are involved in root growth. Plant Journal. 2018. Accepted
  • Higgins, D.M., Lowry, E.G., Kanizay, L.B., Becraft, P.W., Hall, D.W., Dawe, R.K. Fitness Costs and Variation in Transmission Distortion Associated with the Abnormal Chromosome 10 Meiotic Drive System in Maize. Genetics. 2018. 208, 297-305
  • Irizarry, M.D., Elmore, M.G., Batzer, J.C., Whitham, S.A., Mueller, D.S. Alternative hosts for Soybean vein necrosis virus and feeding preferences of its vector soybean thrips. Plant Health Progress. 2018. 19, 176-181. doi: 10.1094/PHP-11-17-0071-RS
  • Jubery, T.Z., Liu, S., Lubberstedt, T., Ganapathysubramanian, B., Attinger. D. Measurements of maize root plasticity under water stress in hydroponic chamber. BioRxiv. 2018. 380592
  • Juvale, P.S., Baum, T.J. "Cyst-ained" research into Heterodera parasitism. PLoS Pathog. 2018. 14, e1006791
  • Kim, B., Dai, X., Zhang, W., Zhuang, Z., Sanchez, D.L., Lübberstedt, T., Kang, Y., Udvardi, M., Beavis, W.D., Xu, S., Zhao, P.X. GWASpro: A High-Performance Genome-Wide Association Analysis Server. Bioinformatics. 2018. Accepted
  • Köhler, I.H., Huber, S.C., Bernacchi, C.J., Baxter, I.R. Increased temperatures may safeguard the nutritional quality of crops under future elevated CO(2) concentrations. Plant J. 2018. Accepted
  • Kusmec, A., N. de Leon, P.S. Schnable. Harnessing phenotypic plasticity to improve maize yields. Front Plant Sci. 2018. 9, 1377.
  • Kusmec, A., P.S. Schnable. FarmCPUpp: Efficient large-scale genomewide association studies. Plant Direct. 2018. 2, 1-6.
  • Ladunga, I. Installing, Maintaining, and Using a Local Copy of BLAST for Compute Cluster or Workstation Use. Curr Protoc Bioinformatics. 2018. 63:e54
  • Lawrence-Dill, C.J., T.J. Heindel, P.S. Schnable, S.J. Strong, J. Wittrock, M.E. Losch, J.A. Dickerson. Transdisciplinary graduate training in predictive plant phenomics. Agronomy. 2018. 8(73).
  • Lee, H., Zhou, Y., Taylor, D.W., Sashital, D.G. Cas4-Dependent Prespacer Processing Ensures High-Fidelity Programming of CRISPR Arrays. Mol Cell. 2018. 70, 1-12
  • Lee, K., K. Wang. Small Noncoding RNAs in Agrobacterium tumefaciens. In Agrobacterium Biology, Springer, Berlin, Heidelberg. 2018. pp 195-213
  • Leng, P., Ouzunova, M., Landbeck, M., Wenzel, G., Eder, J., Darnhofer, B., Lübberstedt, T. Quantitative trait loci mapping of forage agronomic traits in six mapping populations derived from European elite maize germplasm. Plant Breeding. 2018. 137, 370-378
  • Leng, P., Ouzunova, M., Landbeck, M., Wenzel, G., Eder, J., Darnhofer, B., Lübberstedt, T. Quantitative trait loci mapping of forage stover quality traits in six mapping populations derived from European elite maize germplasm. Plant Breeding. 2018. 137, 139-147
  • Li, H., Lübberstedt, T. Molecular mechanisms controlling seed set in cereal crop species under stress and non-stress conditions. Journal of Integrative Agriculture. 2018. 17, 965-974
  • Li, X., Guo, T., Mu, Q., Li, X., Yu, J. Genomic and environmental determinants and their interplay underlying phenotypic plasticity. PNAS. 2018. 115, 6679-6684
  • Li, X., Wang, G., Fu, J., Li, L., Jia, G., Ren, L., Lubberstedt, T., Wang, G., Wang, J., Gu, R. QTL Mapping in Three Connected Populations Reveals a Set of Consensus Genomic Regions for Low Temperature Germination Ability in Zea mays L. Frontiers in Plant Science. 2018. 9, 65
  • Li, Z., L. Coffey, J. Garfin, N.D. Miller, M.R. White, E.P. Spalding, N. de Leon, S.M. Kaeppler, P.S. Schnable, N.M. Springer, C.N. Hirsch. Genotype-by-Environment interactions affecting heterosis in maize. PLoS One. 2018. 13, e0191321.
  • Li, Z., Srivastava, R., Tang, J., Zheng, Z., Howell, S.H. Cis-Effects Condition the Induction of a Major Unfolded Protein Response Factor, ZmbZIP60, in Response to Heat Stress in Maize. Front Plant Sci. 2018. 9, 833
  • Liang Z., S.K. Gupta, C.T. Yeh, Y. Zhang, D.W. Ngu, R. Kumar, H.T. Patil, K.D. Mungra, D.V. Yadav, A. Rathore, R.K. Srivastava, R. Gupta, J. Yang, R.K. Varshney, P.S. Schnable, J.C. Schnable. Phenotypic data from inbred parents can improve genomic prediction in pearl millet hybrids. G3 (Bethesda). 2018. 8, 2513-2522.
  • Liang, T., S. Mei, C. Shi, Y. Yang, Y. Peng, L. Ma, F. Wang, X. Li, X. Huang, Y. Yin, H. Liu. UVR8 interacts with BES1 and BIM1 to regulate transcription and photomorphogenesis in Arabidopsis. Developmental Cell. 2018. 44, 512-523
  • Liu, S., J.C. Schnable, A. Ott, C.T. Yeh, N.M. Springer, J. Yu, G.J. Muehlbauer, M.C.P. Timmermans, M.J. Scanlon, P.S. Schnable. Intragenic meiotic crossovers generate novel alleles with transgressive expression levels. Mol Biol Evol. 2018. 35, 2762-2772.
  • Liu, S., Schnable, J.C., Ott, A., Yeh, C.T., Springer, N.M., Yu, J., Muehlbauer, G., Timmermans, M.C.P., Scanlon, M.J., Schnable, P.S. Intragenic meiotic crossovers generate novel alleles with transgressive expression levels. Mol. Biol. Evol. 2018. 35, 2762-2772
  • Liu, Y., Merrick, P., Zhang, Z., Ji, C., Yang, B., Fei, S.Z. Targeted mutagenesis in tetraploid switchgrass (Panicum virgatum L.) using CRISPR/Cas9. Plant Biotechnol J. 2018. 16, 381-393
  • Long, J., C. Song, F. Yan, J. Zhou, H. Zhou, B. Yang. Non-TAL Effectors From Xanthomonas oryzae pv. oryzae Suppress Peptidoglycan-Triggered MAPK Activation in Rice. Frontiers in Plant Science. 2018. 9, 1857
  • Lu, X., J. Zhang, B. Brown, R. Li, J. Rodríguez-Romero, A. Berasategui, B. Liu, M. Xu, D. Luo, Z. Pan, S.R. Baerson, J. Gershenzon, Z. Li, A. Sesma, B. Yang, R.J. Peters. Inferring roles in defense from metabolic allocation of rice diterpenoids. Plant Cell. 2018. 30, 1119-1131
  • Lyra, D.H., Granato, Í.S.C., Morais, P.P.P., Alves, F.C., dos Santos, A.R.M., Yu, X., Yu, X., Guo, T., Yu, J. Fritsche-Neto, R. Controlling population structure in the genomic prediction of tropical maize hybrids. Molecular Breeding. 2018. 38, 126
  • Ma, J., Zhang, D., Cao, Y., Wang, L., Li, J., Lübberstedt, T., Wang, T., Li, Y., Li, H. Heterosis-related genes under different planting densities in maize. Journal of Experimental Botany. 2018. 69 (21), 5077-5087
  • Ma, L., Guan, Z., Zhang, Z., Zhang, X., Zhang, Y., Zou, C., Peng, H., Pan, G., Lee, M., Shen, Y., Lübberstedt, T. Identification of quantitative trait loci for leaf‐related traits in an IBM Syn10 DH maize population across three environments. Plant Breeding 2018. 137, 127-138
  • McHughen, A., Bradford, K., Carter, N., Eriksson, D., Grabau, E., Hood, H., Parrott, W., Wolt, J. Council for Agricultural Science and Technology (CAST). Regulatory Barriers to the Development of Innovative Agricultural Biotechnology by Small Businesses and Universities. 2018. Issue Paper 59. CAST, Ames, Iowa.
  • McNellie, J.P., Chen, J., Li, X., Yu, J. Genetic mapping of foliar and tassel heat stress tolerance in maize. Crop Science. 2018. 58, 2484-2493.
  • Mei, Y., Whitham, S.A. Virus-induced gene silencing in maize with a Foxtail mosaic virus vector. Methods Mol. Biol. 2018. 1676, 129-139
  • Nguyen, Y., Lampkin, B., Venkatesh, A., Ellern, A., Rossini, A., VanVeller, B. Open resonance assisted hydrogen bonds and competing quasiaromaticity. J. Organic Chem. 2018. 83, 9850-9857
  • Ortiz, D., Litvin, A.G., Salas Fernandez, M.G. A cost-effective and customizable automated irrigation system for precise high-throughput phenotyping in drought stress studies. PLoS ONE. 2018. 13, e0198546.
  • Ott, A., J.C. Schnable, C.T. Yeh, L. Wu, C. Liu, H.C. Hu, C.L. Dalgard, S. Sarkar, P.S. Schnable. Linked read technology for assembling large complex and polyploid genomes. BMC Genomics. 2018. 19, 651.
  • Qi, M., Grayczyk, J.P., Seitz, J.M., Lee, Y., Link, T.I., Choi, D., Pedley, K.F., Voegele, R.T., Baum, T.J., Whitham, S.A. Suppression or activation of immune responses by predicted secreted proteins of the soybean rust pathogen Phakopsora pachyrhizi. Mol. Plant Microbe Interact. 2018. 31, 163-174
  • Raji, J.A., B. Frame, D. Little, T.J. Santoso, K. Wang. Agrobacterium-and Biolistic-Mediated Transformation of Maize B104 Inbred. In Maize. 2018. pp 15-40
  • Ranjan, A., Jayaraman, D., Grau, C., Hill, J.H., Whitham, S.A., Ané, J.-M., Kabbage, M. The pathogenic development of Sclerotinia sclerotiorum in soybean requires specific host NADPH oxidases. Mol. Plant Pathol. 2018. 19, 700-713
  • Redinbaugh, M.G., Lübberstedt, T., Leng, P., Xu, M. The Genetics and Genomics of Virus Resistance in Maize. in The Maize Genome. 2018. pp 185-200
  • Richard, C., Osiru, D.S., Mwala, M.S., Lubberstedt, T. Genetic diversity and heterotic grouping of the core set of southern African and temperate maize (Zea mays L) Inbred lines using SNP markers. Maydica. 2018. 61, 9
  • Rosas, F., Lence, S., Hayes, D. “Crop Yield Responses to Prices: A Bayesian Approach to Blend Experimental and Market Data". European Review of Agricultural Economics. 2018
  • Sanchez, D.L., Liu, S., Ibrahim, R., Blanco, M., Lübberstedt, T. Genome-wide association studies of doubled haploid exotic introgression lines for root system architecture traits in maize (Zea mays L.). Plant Science. 2018. 268, 30-38
  • Sashital, D.G. Pathogen detection in the CRISPR-Cas era. Genome Med. 2018. 10, 32
  • Shan, S., E.V. Mavrodiev, R. Li, Z. Zhang, B.A. Hauser, P.S. Soltis, D.E. Soltis, B. Yang. Application of CRISPR/Cas9 to Tragopogon (Asteraceae), an evolutionary model for the study of polyploidy. Molecular ecology resources. 2018. 18, 1427-1443
  • Springer, N.M., Anderson, S.N., Andorf, C.M., Ahern, K.R., Bai, F., Barad, O., Barbazuk, W.B.,Bass, H.W., Baruch, K., Ben-Zvi, G., Buckler, E.S., Bukowski, R., Campbell, M.S., Cannon, E.K.S., Chomet, P., Dawe, R.K., Davenport, R., Dooner, H.K., Du, L.H., Du, C., Easterling, K.A., Gault, C., Guan, J.C., Hunter, C.T., Jander, G., Jiao, Y., Koch, K.E., Kol, G., Köllner, T.G., Kudo, T., Li, Q., Lu, F., Mayfield-Jones, D., Mei, W., McCarty, D.R., Noshay, J.M., Portwood, J.L. 2nd, Ronen, G., Settles, A.M., Shem-Tov, D., Shi, J., Soifer, I., Stein, J.C., Stitzer, M.C., Suzuki, M., Vera, D.L., Vollbrecht, E., Vrebalov, J.T., Ware, D., Wei, S., Wimalanathan, K., Woodhouse, M.R., Xiong, W., Brutnell, T.P. The maize W22 genome provides a foundation for functional genomics and transposon biology. Nat Genet. 2018. 50, 1282-1288.
  • Srivastava, R., Li, Z., Russo, G., Tang, J., Bi, R., Muppirala, U., Chudalayandi, S., Severin, A., He, M., Vaitkevicius, S.I., Lawrence-Dill, C.J., Liu, P., Stapleton, A.E., Bassham, D.C., Brandizzi, F., Howell, S.H. Response to Persistent ER Stress in Plants: A Multiphasic Process That Transitions Cells from Prosurvival Activities to Cell Death. Plant Cell. 2018. 30, 1220-1242
  • Sun, S., Y. Zhou, J. Chen, J. Shi, H. Zhao, H. Zhao, W. Song, M. Zhang, Y. Cui, X. Dong, H. Liu, X. Ma, Y. Jiao, B. Wang, X. Wei, J.C. Stein, J.C. Glaubitz, F. Lu, G. Yu, C. Liang, K. Fengler, B. Li, A. Rafalski, P.S. Schnable, D. Ware, E.S. Buckler, J. Lai. Extensive intraspecific gene order and gene structural variations between Mo17 and other maize genomes. Nat Genet. 2018. 50, 1289-1295
  • Swaminathan, S., Abeysekara, N.S., Knight, J.M., Liu, M., Dong, J., Hudson, M.E., Bhattacharyya, M.K., Cianzio, S.R. Mapping of new quantitative trait loci for sudden death syndrome and soybean cyst nematode resistance in two soybean populations. Theor Appl Genet. 2018. 131, 1047-1062
  • Tan, W., D. Zhang, H. Zhou, T. Zheng, Y. Yin, H. Lin. Transcription factor HAT1 is a substrate of SnRK2. 3 kinase and negatively regulates ABA synthesis and signaling in Arabidopsis responding to drought. PLoS Genetics. 2018. 14, e1007336
  • Vanous, A., Gardner, C., Blanco, M., Martin-Schwarze, A., Lipka, A.E., Flint-Garcia, S., Bohn, M., Edwards, J., Lübberstedt, T. Association Mapping of Flowering and Height Traits in Germplasm Enhancement of Maize Doubled Haploid (GEM-DH) Lines. The Plant Genome. 2018. 11 (2)
  • Verma, A., Lee, C., Morriss, S., Odu, F., Kenning, C., Rizzo, N., Spollen, W.G., Lin, M., McRae, A.G., Givan, S.A., Hewezi, T., Hussey, R., Davis, E.L., Baum, T.J., Mitchum, M.G. The novel cyst nematode effector protein 30D08 targets host nuclear functions to alter gene expression in feeding sites. New Phytol. 2018. 219, 697-713
  • Vieira, P., Maier, T.R., Eves-van den Akker, S., Howe, D.K., Zasada, I., Baum, T.J., Eisenback, J.D., Kamo, K.. Identification of candidate effector genes of Pratylenchus penetrans. Mol Plant Pathol. 2018. Accepted
  • Vijayapalani, P., Hewezi, T., Pontvianne, F., Baum, T.J. An Effector from the Cyst Nematode Heterodera schachtii Derepresses Host rRNA Genes by Altering Histone Acetylation. Plant Cell. 2018. 30, 2795-2812
  • Wang, B., Sumit, R., Sahu, B.B., Ngaki, M.N., Srivastava, S.K., Yang, Y., Swaminathan, S., Bhattacharyya, M.K. Arabidopsis Novel Glycine-Rich Plasma Membrane PSS1 Protein Enhances Disease Resistance in Transgenic Soybean Plants. Plant Physiol. 2018. 176, 865-878
  • Wolf, C. Sustainable Agriculture, Environmental Philosophy, and the Ethics of Food. In The Oxford Handbook of Food Ethics. 2018. pp 29 – 52
  • Wolt, J.D., Wolf, C. Policy and Governance Perspectives for Regulation of Genome Edited Crops in the United States. Front Plant Sci. 2018. 9, 1606
  • Xavier, A., Jarquin, D., Howard, R., Ramasubramanian, V., Specht, J.E., Graef, G.L., Beavis, W.D. Diers, B.W., Song, Q., Cregan, P.B., Nelson, R., Mian, R., Shannon, J.G., McHale, L., Wang, D., Schapaugh, W., Lorenz, A.J., Xu, S., Muir, W.M., Rainey, K.M. Genome-Wide Analysis of Grain Yield Stability and Environmental Interactions in a Multiparental Soybean Population. G3 (Bethesda). 2018. 8, 519-529
  • Xu, H.-Y., Zhang, C., Li, Z.-C., Wang, Z.-R., Jiang, X.-X., Shi, Y.-F., Fang, Y., Braun, E., Mei, Y., Qiu, W.-L., Li, S., Wang, B., Xu, J., Navarre, D., Ren, D., Cheng, N., Nakata, P. A., Graham, M. A., Whitham, S.A., Liu, J.-Z. GmMEKK1 is a key regulator of cell death and defense responses in soybean. Plant Physiol. 2018. 178, 907-922
  • Xu, Y., Ju, H.J., DeBlasio, S., Carino, E.J., Johnson, R., MacCoss, M.J., Heck, M., Miller, W.A., Gray, S.M. A stem-loop structure in potato leafroll virus open reading frame 5 (ORF5) is essential for readthrough translation of the coat protein ORF stop codon 700 bases upstream. J. Virol. 2018. 92, e01544-17
  • Yang, J., C.T. Yeh, R.K. Ramamurthy, X. Qi, R.L. Fernando, J.C.M. Dekkers, D.J. Garrick, D. Nettleton, P.S. Schnable. Empirical comparisons of different statistical models to identify and validate kernel row number-associated variants from structured multi-parent mapping populations of maize. G3 (Bethesda). 2018. 8, 3567-3575.
  • Yang, J., D. Luo, B. Yang, W.B. Frommer, J.S. Eom. SWEET 11 and 15 as key players in seed filling in rice. New Phytologist. 2018. 218, 604-615
  • Zhang, Z., Zhang, X., Lin, Z., Wang, J., Xu, M., Lai, J., Yu, J., Lin. Z. The genetic architecture of nodal root number in maize. Plant J. 2018. 93, 1032-1044

2017

  • Deng, X.G., Zhu, T., Peng, X.J., Xi, D.H., Guo, H., Yin, Y., Zhang, D.W. and Lin, H.H., 2016. Role of brassinosteroid signaling in modulating Tobacco mosaic virus resistance in Nicotiana benthamianaScientific reports6: 20579.
  • Deng, Y., Srivastava, R., Quilichini, T.D., Dong, H., Bao, Y., Horner, H.T. and Howell, S.H., 2016. IRE1, a component of the unfolded protein response signaling pathway, protects pollen development in Arabidopsis from heat stress. The Plant Journal88(2), pp.193-204.
  • Dinkins, R.D., Nagabhyru, P., Graham, M.A., Boykin, D. and Schardl, C.L., 2017. Transcriptome response of Lolium arundinaceum to its fungal endophyte Epichloë coenophialaNew Phytologist213(1), pp.324-337.
  • Do Canto, J., Studer, B. and Lubberstedt, T., 2016. Overcoming self-incompatibility in grasses: a pathway to hybrid breeding. Theoretical and Applied Genetics129(10), pp.1815-1829.
  • Dumortier, J., Kauffman, N. and Hayes, D.J., 2016. Production and Spatial Distribution of Switchgrass and Miscanthus in the United States under Uncertainty and Sunk Cost. Working Paper-Center for Agricultural and Rural Development, Iowa State University, (16-WP 568).
  • Duvick, J., Standage, D.S., Merchant, N. and Brendel, V.P., 2016. xGDBvm: A Web GUI-driven workflow for annotating eukaryotic genomes in the cloud. The Plant Cell, pp.tpc-00933.
  • EL-Manzalawy, Y., Dobbs, D. and Honavar, V.G., 2017. In Silico Prediction of Linear B-Cell Epitopes on Proteins. Prediction of Protein Secondary Structure, pp.255-264.

2016

  • Feng, X., and Hayes, D., 2016. Diversifying systemic risk in agriculture. Agricultural Finance Review76(4), pp.512-531.
  • Ge, L., Yu, J., Wang, H., Luth, D., Bai, G., Wang, K. and Chen, R., 2016. Increasing seed size and quality by manipulating BIG SEEDS1 in legume species. Proceedings of the National Academy of Sciences, 113(44), pp. 12414-12419.
  • Gelli, M., Mitchell, S.E., Liu, K., Clemente, T.E., Weeks, D.P., Zhang, C., Holding, D.R. and Dweikat, I.M., 2016. Mapping QTLs and association of differentially expressed gene transcripts for multiple agronomic traits under different nitrogen levels in sorghum. BMC Plant Biology16(1), p.16.
  • Gontarek, B.C., Neelakandan, A.K., Wu, H. and Becraft, P.W., 2016. NKD Transcription Factors Are Central Regulators of Maize Endosperm Development. The Plant Cell, pp.tpc-00609.
  • Hart, C.E., Lence, S.H., Hayes, D.J. and Jin, N., 2016. Price mean reversion, seasonality, and options markets. American Journal of Agricultural Economics98(3), pp.707-725.
  • Howard, R., Beavis, W.D. and Carriquiry, A., 2016. Evaluation of a Computational Diagnostic for Epistasis in Plant Breeding Populations. bioRxiv, p.044453.
  • Hu, S., Lübberstedt, T., Zhao, G. and Lee, M., 2016. QTL mapping of low-temperature germination ability in the maize IBM Syn4 RIL population. PloS one11(3), p.e0152795.
  • Huang, H., Antony,G., Li, T., Liu, B., Obasa, K., Yang, B. and White, F.F. 2016, The broad recessive resistance gene xa5 of rice is a virulence effector-dependent quantitative trait for bacterial blight. Plant Journal. 86 (2), 186-194.
  • Huber, S.C., Li, K., Nelson, R., Ulanov, A., DeMuro, C.M. and Baxter, I., 2016. Canopy position has a profound effect on soybean seed composition. PeerJ4, p.e2452.
  • Irani, S., Knapp, A.D., Lubberstedt, T., Frei, U. and Askari, E., 2016. Increasing Seed Viability of Maize Haploid Inducing Lines by Genetic and Non-Genetic Approaches. Crop Science56(4), pp.1940-1947.
  • Jacobs, K.L., Li, Z. and Hayes, D.J., 2016. Forward Contracting by Iowa Corn Producers: Connecting Hedging with Price Movements. Agricultural Policy Review. Fall 2016
  • Jeffrey, B., Kuzhiyil, N., de Leon, N. and Lübberstedt, T., 2016. Genetic and Quantitative Trait Locus Analysis for Bio-Oil Compounds after Fast Pyrolysis in Maize Cobs. PloS One11(1), p.e0145845.
  • Ji, Z.Y., Ji, C.H., Liu, B., Zou, L.F., Chen, G.Y. and Yang, B. 2016, Interfering TAL effectors of Xanthomonas oryzaeneutralize R-gene-mediated plant disease resistance. Nature Communications. DOI: 10.1038/ncomms13435.
  • Jiao, Y., Young, C.W., Yang, S., Oren, S., Ceylan, H., Kim, S., Gopalakrishnan, K., Taylor, P.C. and Dong, L., 2016. Wearable Graphene Sensors With Microfluidic Liquid Metal Wiring for Structural Health Monitoring and Human Body Motion Sensing. IEEE Sensors Journal16(22), pp.7870-7875.
  • Juvale, P.S., Wagner, R.L. and Spalding, M.H., 2016. Opportunistic proteolytic processing of carbonic anhydrase 1 from Chlamydomonas in Arabidopsis reveals a novel route for protein maturation. Journal of experimental botany67(8), pp.2339-2351.
  • Kim, B. and Beavis, W.D., 2016. Numericware i: Identical in state matrix calculator. bioRxiv, p.075267.
  • Kim, B., Beavis, W.D. and Léon, J., 2016. Numericware N: Numerator Relationship Matrix Calculator. Journal of Heredity, p.esw057.
  • Kim, S.Y., Bender, K.W., Walker, B.J., Zielinski, R.E., Spalding, M.H., Ort, D.R. and Huber, S.C., 2016. The plastid casein kinase 2 phosphorylates Rubisco activase at the Thr-78 site but is not essential for regulation of Rubisco activation state. Frontiers in Plant Science7, 404.
  • Li, L., Briskine, R., Schaefer, R., Schnable, P.S., Myers, C.L., Flagel, L.E., Springer, N.M. and Muehlbauer, G.J., 2016. Co-expression network analysis of duplicate genes in maize (Zea mays L.) reveals no subgenome bias. BMC Genomics17(1), p.875.
  • Li, T., Liu, B., Chen, C.Y. and Yang, B. 2016, TALEN-mediated homologous recombination produces site-directed DNA base change and herbicide-resistant rice. Journal of Genetics and Genomics. 43 (5), 297-305.
  • Lin, M., Zhang, D., Liu, S., Zhang, G., Yu, J., Fritz, A.K. and Bai, G., 2016. Genome-wide association analysis on pre-harvest sprouting resistance and grain color in US winter wheat. BMC Genomics17(1), p.794.
  • Liu, J.X. and Howell, S.H., 2016. Managing the protein folding demands in the endoplasmic reticulum of plants. New Phytologist211(2), pp.418-428.
  • Liu, M., Li, S., Swaminathan, S., Sahu, B.B., Leandro, L.F., Cardinal, A.J., Bhattacharyya, M.K., Song, Q., Walker, D.R. and Cianzio, S.R., 2016. Identification of a soybean rust resistance gene in PI 567104B. Theoretical and Applied Genetics129(5), pp.863-877.
  • Liu, Z., Wang, Y., Ren, J., Mei, M., Frei, U.K., Trampe, B. and Lubberstedt, T., 2016. Maize Doubled Haploids. Plant Breeding Reviews40, p.123.
  • Lukman, R., Afifuddin, A. and Lübberstedt, T., 2016. Tracing the signature of Peronosclerospora maydis in maize seeds. Australasian Plant Pathology45(1), pp.73-82.
  • Martin, K., Singh, J., Hill, J.H., Whitham, S.A. and Cannon, S.B., 2016. Dynamic transcriptome profiling of Bean Common Mosaic Virus (BCMV) infection in Common Bean (Phaseolus vulgaris L.). BMC Genomics17(1), p.613.
  • McCabe, C.E., Singh, A.K., Leandro, L.F., Cianzio, S.R. and Graham, M.A., 2016. Identifying new sources of resistance to Brown Stem Rot in Soybean. Crop Science56(5), pp.2287-2296.
  • Mei, Y., Zhang, C., Kernodle, B.M., Hill, J.H. and Whitham, S.A., 2016. A Foxtail mosaic virus vector for virus-induced gene silencing in maize. Plant physiology171(2), pp.760-772.
  • Nahampun, H.N., López-Arredondo, D., Xu, X., Herrera-Estrella, L. and Wang, K., 2016. Assessment of ptxD gene as an alternative selectable marker for Agrobacterium-mediated maize transformation. Plant cell reports35(5), pp.1121-1132.
  • Ngaki, M.N., Wang, B., Sahu, B.B., Srivastava, S.K., Farooqi, M.S., Kambakam, S., Swaminathan, S. and Bhattacharyya, M.K., 2016. Transcriptomic Study of the Soybean-Fusarium virguliforme Interaction Revealed a Novel Ankyrin-Repeat Containing Defense Gene, Expression of Whose during Infection Led to Enhanced Resistance to the Fungal Pathogen in Transgenic Soybean Plants. PloS One11(10), p.e0163106.
  • Nolan, T., Liu, S., Guo, H., Li, L., Schnable, P. and Yin, Y., 2017. Identification of Brassinosteroid Target Genes by Chromatin Immunoprecipitation Followed by High-Throughput Sequencing (ChIP-seq) and RNA-Sequencing. Brassinosteroids: Methods and Protocols, pp.63-79.
  • Noon, J.B. and Baum, T.J., 2016. Horizontal gene transfer of acetyltransferases, invertases and chorismate mutases from different bacteria to diverse recipients. BMC Evolutionary Biology, 16(1), p.74.
  • Noon, J.B., Qi, M., Sill, D.N., Muppirala, U., Eves‐van den Akker, S., Maier, T.R., Dobbs, D., Mitchum, M.G., Hewezi, T. and Baum, T.J., 2016. A Plasmodium‐like virulence effector of the soybean cyst nematode suppresses plant innate immunity. New Phytologist, 212(2), pp.444-460.
  • Pauli, D., Chapman, S.C., Bart, R., Topp, C.N., Lawrence-Dill, C.J., Poland, J. and Gore, M.A., 2016. The quest for understanding phenotypic variation via integrated approaches in the field environment. Plant Physiology172(2), pp.622-634.
  • Pogorelko, G., Juvale, P.S., Rutter, W.B., Hewezi, T., Hussey, R., Davis, E.L., Mitchum, M.G. and Baum, T.J., 2016. A cyst nematode effector binds to diverse plant proteins, increases nematode susceptibility and affects root morphology. Molecular Plant Pathology, 17(6), pp.832-844.
  • Qi, M., Link, T.I., Müller, M., Hirschburger, D., Pudake, R.N., Pedley, K.F., Braun, E., Voegele, R.T., Baum, T.J. and Whitham, S.A., 2016. A small cysteine-rich protein from the Asian soybean rust fungus, Phakopsora pachyrhizi, suppresses plant immunity. PLoS Pathogens12(9), p.e1005827.
  • Richard, C., Osiru, D.S., Mwala, M.S. and Lubberstedt, T., 2016. Genetic diversity and heterotic grouping of the core set of southern African and temperate maize (Zea mays L) Inbred lines using SNP markers. Maydica61(1).
  • Salas, E.N., Shu, J., Cserhati, M.F., Weeks, D.P. and Ladunga, I., 2016. Pluralistic and stochastic gene regulation: examples, models and consistent theory. Nucleic Acids Research, p.gkw042.
  • Shen, R., Ying, K., Wang, Z. and Schnable, P.S., 2016, March. Algorithm for DNA copy number variation detection with read depth and paramorphism information. In: 2016 IEEE International Conference on Acoustics, Speech and Signal Processing (ICASSP), (pp. 869-873). IEEE.
  • Smelser, A., Gardner, C., Blanco, M., Lübberstedt, T. and Frei, U., 2016. Germplasm enhancement of maize: a look into haploid induction and chromosomal doubling of haploids from temperate‐adapted tropical sources. Plant Breeding135(5), pp.593-597.
  • Smith, S., Lence, S., Hayes, D., Alston, J. and Corona, E., 2016. Elements of Intellectual Property Protection in Plant Breeding and Biotechnology: Interactions and Outcomes. Crop Science56(4), pp.1401-1411.
  • Srivistava, R., Zalisko, B.E., Keenan, R.J. and Howell, S.H., 2016. The GET system inserts the tail-anchored SYP72 protein into endoplasmic reticulum membranes. Plant Physiology, pp.pp-00928.
  • Standage, D.S., Berens, A.J., Glastad, K.M., Severin, A.J., Brendel, V.P. and Toth, A.L., 2016. Genome, transcriptome, and methylome sequencing of a primitively eusocial wasp reveal a greatly reduced DNA methylation system in a social insect. Molecular Ecology, 25(8), pp.1769-1784.
  • Suza, W.P., Gibson, P., Edema, R., Akromah, R., Sibiya, J., Madakadze, R. and Lamkey, K.R., 2016. Plant breeding capacity building in Africa. Nature Climate Change6(11), pp.976-976.
  • Swaminathan, S., Abeysekara, N.S., Liu, M., Cianzio, S.R. and Bhattacharyya, M.K., 2016. Quantitative trait loci underlying host responses of soybean to Fusarium virguliforme toxins that cause foliar sudden death syndrome. Theoretical and Applied Genetics129(3), pp.495-506.
  • Wang, K., Yang, B, 2016. A High-efficiency CRISPR Platform for Maize Improvement.  Information System for Biotechnology News Report, October/November, 2016.  www.isb.vt.edu
  • Wang, M., Dzievit, M., Chen, Z., Morris, J.B., Norris, J., Barkley, N.A., Tonnis, B., Pederson, G.A. and Yu, J., 2016. Genetic diversity and population structure of castor (Ricinus communis L.) germplasm within the US collection assessed with EST-SSR markers. Genome, doi: 10.1139/gen-2016-0116.
  • Wang, Q., Hong, W. and Dong, L., 2016. Graphene “microdrums” on a freestanding perforated thin membrane for high sensitivity MEMS pressure sensors. Nanoscale8(14), pp.7663-7671.
  • Wang, Y., Liu, L., Wang, Q., Han, W., Lu, M. and Dong, L., 2016. Strain-tunable plasmonic crystal using elevated nanodisks with polarization-dependent characteristics. Applied Physics Letters108(7), p.071110.
  • Weeks, D.P., Spalding, M.H. and Yang, B., 2016. Use of designer nucleases for targeted gene and genome editing in plants. Plant Biotechnology Journal14(2), pp.483-495.
  • Whitham, S.A. and Hajimorad, M.R., 2016. Plant genetic resistance to viruses. In: Current Research Topics in Plant Virology (pp. 87-111). Springer International Publishing.
  • Whitham, S.A., Lincoln, L.M., Chowda‐Reddy, R.V., Dittman, J.D., O’Rourke, J.A. and Graham, M.A., 2016. Virus‐Induced Gene Silencing and Transient Gene Expression in Soybean (Glycine max) Using Bean Pod Mottle Virus Infectious Clones. Current Protocols in Plant Biology, pp.263-283.
  • Whitham, S.A., Qi, M., Innes, R.W., Ma, W., Lopes-Caitar, V. and Hewezi, T., 2016. Molecular Soybean-Pathogen Interactions. Annual Review of Phytopathology54, pp.443-468.
  • Whitis, N.R., Xue, C., Sashital, D.G. and Carver, R.J., 2016. Control of CRISPR Priming and Interference Activities by a Cascade-Activated Switch. The FASEB Journal30(1 Supplement), pp.571-3.
  • Wolt, J.D., Wang, K. and Yang, B. 2016, The Regulatory Status of Genome-edited Crops. Plant. Biotechnol. J., 14, 510-518.
  • Wolt, J.D., Wang, K., Sashital, D. and Lawrence-Dill, C.J., 2016. Achieving Plant CRISPR Targeting that Limits Off-Target Effects. The Plant Genome9(3).
  • Wolt, J.D., Yang, B., Wang, K. and Spalding, M.H., 2016. Regulatory aspects of genome-edited crops. In Vitro Cellular & Developmental Biology-Plant52(4), pp.349-353.
  • Xu, Z., Jiang, H., Sahu, B.B., Kambakam, S., Singh, P., Wang, X., Wang, Q., Bhattacharyya, M.K. and Dong, L., 2016. Humidity assay for studying plant-pathogen interactions in miniature controlled discrete humidity environments with good throughput. Biomicrofluidics10(3), p.034108.
  • Xu, Z., Wang, X., Weber, R.J., Kumar, R. and Dong, L., 2016, October. Microfluidic eletrophoretic ion nutrient sensor. In: SENSORS, 2016 IEEE (pp. 1-3). IEEE.
  • Xue, C., Whitis, N.R. and Sashital, D.G., 2016. Conformational Control of Cascade Interference and Priming Activities in CRISPR Immunity. Molecular Cell64(4), pp.826-834.
  • Xue, L.C., Rodrigues, J.P., Dobbs, D., Honavar, V. and Bonvin, A.M., 2016. Template-based protein–protein docking exploiting pairwise interfacial residue restraints. Briefings in Bioinformatics, p.bbw027.
  • Yang, X., Srivastava, R., Howell, S.H. and Bassham, D.C., 2016. Activation of autophagy by unfolded proteins during endoplasmic reticulum stress. The Plant Journal85(1), pp.83-95.
  • Yu X., Li X., Guo T., Zhu C., Wu Y., Mitchell S.E., Roozeboom K.L., Wang D., Wang M.L., Pederson G.A., Tesso T.T., Schnable P.S., Bernardo R., and Yu, J., 2016. Genomic prediction contributing to a promising global strategy to turbocharge gene banks. Nature Plants2, p.16150.
  • Zhang, D.W., Yuan, S., Xu, F., Zhu, F., Yuan, M., Ye, H.X., Guo, H.Q., Lv, X., Yin, Y. and Lin, H.H., 2016. Light intensity affects chlorophyll synthesis during greening process by metabolite signal from mitochondrial alternative oxidase in Arabidopsis. Plant, Cell & Environment39(1), pp.12-25.
  • Zhang, K., Zhou, L., Brady, M., Xu, F., Yu, J. and Wang, D., 2016. Fast analysis of high heating value and elemental compositions of sorghum biomass using near-infrared spectroscopy. Energy118, pp.1353-1360.
  • Zhao, J., Mantilla Perez, M.B., Hu, J. and Salas Fernandez, M.G., 2016. Genome-Wide Association Study for Nine Plant Architecture Traits in Sorghum. The Plant Genome9(2). doi: 10.3835/plantgenome2015.06.0044
  • Zheng, F., Du, X., Chou, T.H., Robertson, A.P., Edward, W.Y., VanVeller, B. and Martin, R.J., 2016. (S)-5-ethynyl-anabasine, a novel compound, is a more potent agonist than other nicotine alkaloids on the nematode Asu-ACR-16 receptor. International Journal for Parasitology: Drugs and Drug Resistance, 7, pp.12-22.

2015

2014

2013 and Before