Research Output

2017

The effect of artificial selection on phenotypic plasticity in maize

Gage, J. L., Jarquin, D., Romay, C., Lorenz, A., Buckler, E. S., Kaeppler, S., Alkhalifah, N., Bohn, M., Campbell, D. A., Edwards, J., Ertl, D., Flint-Garcia, S., Gardiner, J., Good, B., Hirsch, C. N., Holland, J., Hooker, D. C., Knoll, J., Kolkman, J., Kruger, G. & 20 others, Lauter, N., Lawrence-Dill, C. J., Lee, E., Lynch, J., Murray, S. C., Nelson, R., Petzoldt, J., Rocheford, T., Schnable, J., Schnable, P. S., Scully, B., Smith, M., Springer, N. M., Srinivasan, S., Walton, R., Weldekidan, T., Wisser, R. J., Xu, W., Yu, J. & De Leon, N., Dec 1 2017, In : Nature communications. 8, 1, 1348.

Research output: Contribution to journalArticle

The impact of iodinated X-ray contrast agents on formation and toxicity of disinfection by-products in drinking water

Jeong, C. H., Machek, E. J., Shakeri, M., Duirk, S. E., Ternes, T. A., Richardson, S. D., Wagner, E. D. & Plewa, M. J., Aug 2017, In : Journal of Environmental Sciences. 58, p. 173-182 10 p.

Research output: Contribution to journalArticle

The impact of water management practices on subtropical pasture methane emissions and ecosystem service payments

Chamberlain, S. D., Groffman, P. M., Boughton, E. H., Gomez-Casanovas, N., DeLucia, E. H., Bernacchi, C. J. & Sparks, J. P., Jun 2017, In : Ecological Applications. 27, 4, p. 1199-1209 11 p.

Research output: Contribution to journalArticle

The Kalanchoë genome provides insights into convergent evolution and building blocks of crassulacean acid metabolism

Yang, X., Hu, R., Yin, H., Jenkins, J., Shu, S., Tang, H., Liu, D., Weighill, D. A., Cheol Yim, W., Ha, J., Heyduk, K., Goodstein, D. M., Guo, H. B., Moseley, R. C., Fitzek, E., Jawdy, S., Zhang, Z., Xie, M., Hartwell, J., Grimwood, J. & 29 others, Abraham, P. E., Mewalal, R., Beltrán, J. D., Boxall, S. F., Dever, L. V., Palla, K. J., Albion, R., Garcia, T., Mayer, J. A., Don Lim, S., Man Wai, C., Peluso, P., Van Buren, R., De Paoli, H. C., Borland, A. M., Guo, H., Chen, J. G., Muchero, W., Yin, Y., Jacobson, D. A., Tschaplinski, T. J., Hettich, R. L., Ming, R., Winter, K., Leebens-Mack, J. H., Smith, J. A. C., Cushman, J. C., Schmutz, J. & Tuskan, G. A., Dec 1 2017, In : Nature communications. 8, 1, 1899.

Research output: Contribution to journalArticle

The natural history of molecular functions inferred from an extensive phylogenomic analysis of gene ontology data

Koc, I. & Caetano-Anolles, G., May 2017, In : PloS one. 12, 5, e0176129.

Research output: Contribution to journalArticle

The pomegranate (Punica granatum L.) genome and the genomics of punicalagin biosynthesis

Qin, G., Xu, C., Ming, R., Tang, H., Guyot, R., Kramer, E. M., Hu, Y., Yi, X., Qi, Y., Xu, X., Gao, Z., Pan, H., Jian, J., Tian, Y., Yue, Z. & Xu, Y., Sep 2017, In : Plant Journal. 91, 6, p. 1108-1128 21 p.

Research output: Contribution to journalArticle

TIC-Tox: A preliminary discussion on identifying the forcing agents of DBP-mediated toxicity of disinfected water

Plewa, M. J., Wagner, E. D. & Richardson, S. D., Aug 2017, In : Journal of Environmental Sciences. 58, p. 208-216 9 p.

Research output: Contribution to journalArticle

Tile drainage nitrate losses and corn yield response to fall and spring nitrogen management

Pittelkow, C. M., Clover, M. W., Hoeft, R. G., Nafziger, E. D., Warren, J. J., Gonzini, L. C. & Greer, K. D., Sep 1 2017, In : Journal of Environmental Quality. 46, 5, p. 1057-1064 8 p.

Research output: Contribution to journalArticle

Tillage and cover cropping effects on soil properties and crop production in Illinois

Dozier, I. A., Behnke, G. D., Davis, A. S., Nafziger, E. D. & Villamil, M. B., Jan 1 2017, In : Agronomy Journal. 109, 4, p. 1261-1270 10 p.

Research output: Contribution to journalArticle

Time dependent genetic analysis links field and controlled environment phenotypes in the model C4grass Setaria

Feldman, M. J., Paul, R. E., Banan, D., Barrett, J. F., Sebastian, J., Yee, M. C., Jiang, H., Lipka, A. E., Brutnell, T. P., Dinneny, J. R., Leakey, A. D. B. & Baxter, I., Jan 1 2017, In : PLoS genetics. 13, 6, e1006841.

Research output: Contribution to journalArticle

Toxicity of Wastewater with Elevated Bromide and Iodide after Chlorination, Chloramination, or Ozonation Disinfection

Dong, S., Masalha, N., Plewa, M. J. & Nguyen, T. H., Aug 15 2017, In : Environmental Science and Technology. 51, 16, p. 9297-9304 8 p.

Research output: Contribution to journalArticle

Transcriptome dynamics of Camellia sinensis in response to continuous salinity and drought stress

Zhang, Q., Cai, M., Yu, X., Wang, L., Guo, C., Ming, R. & Zhang, J., Aug 1 2017, In : Tree Genetics and Genomes. 13, 4, 78.

Research output: Contribution to journalArticle

Two new PPX2 mutations associated with resistance to PPO-inhibiting herbicides in Amaranthus palmeri

Giacomini, D. A., Umphres, A. M., Nie, H., Mueller, T. C., Steckel, L. E., Young, B. G., Scott, R. C. & Tranel, P. J., Aug 2017, In : Pest Management Science. 73, 8, p. 1559-1563 5 p.

Research output: Contribution to journalArticle

Type VI secretion systems of Erwinia amylovora contribute to bacterial competition, virulence, and exopolysaccharide production

Tian, Y., Zhao, Y., Shi, L., Cui, Z., Hu, B. & Zhao, Y., Jun 2017, In : Phytopathology. 107, 6, p. 654-661 8 p.

Research output: Contribution to journalArticle

Tyrosine-610 in the receptor kinase BAK1 does not play a major role in brassinosteroid signaling or innate immunity

Singh, V., Perraki, A., Kim, S. Y., Shrivastava, S., Lee, J. H., Zhao, Y., Schwessinger, B., Oh, M. H., Marshall-Colon, A., Zipfel, C. & Huber, S. C., Aug 2 2017, In : Frontiers in Plant Science. 8, 1273.

Research output: Contribution to journalArticle

Uncertainty in measurements of the photorespiratory CO2 compensation point and its impact on models of leaf photosynthesis

Walker, B. J., Orr, D. J., Carmo-Silva, E., Parry, M. A. J., Bernacchi, C. J. & Ort, D. R., Jun 1 2017, In : Photosynthesis research. 132, 3, p. 245-255 11 p.

Research output: Contribution to journalArticle

Understanding and improving global crop response to ozone pollution

Ainsworth, E. A., Jun 2017, In : Plant Journal. 90, 5, p. 886-897 12 p.

Research output: Contribution to journalArticle

Virulence diversity of Phakopsora pachyrhizi isolates from East Africa compared to a geographically diverse collection

Murithi, H. M., Haudenshield, J. S., Beed, F., Mahuku, G., Joosten, M. H. A. J. & Hartman, G. L., Jul 2017, In : Plant disease. 101, 7, p. 1194-1200 7 p.

Research output: Contribution to journalArticle

Weed diversity affects soybean and maize yield in a long term experiment in Michigan, USA

Ferrero, R., Lima, M., Davis, A. S. & Gonzalez-Andujar, J. L., Feb 24 2017, In : Frontiers in Plant Science. 8, 236.

Research output: Contribution to journalArticle

Yield drag associated with the soybean aphid resistance gene Rag2 from PI 200538

Ward, R. A., Kim, K. S. & Diers, B. W., Nov 1 2017, In : Crop Science. 57, 6, p. 3035-3042 8 p.

Research output: Contribution to journalArticle

2018

30 years of progress toward increased biomass yield of switchgrass and big bluestem

Casler, M. D., Vogel, K. P., Lee, D. K., Mitchell, R. B., Adler, P. R., Sulc, R. M., Johnson, K. D., Kallenbach, R. L., Boe, A. R., Mathison, R. D., Cassida, K. A., Min, D. H., Crawford, J. & Moore, K. J., May 1 2018, In : Crop Science. 58, 3, p. 1242-1254 13 p.

Research output: Contribution to journalArticle

Above- and Belowground Prairie Cordgrass Response to Applied Nitrogen on Marginal Land

Hernández, K. A., Owens, V. N., Boe, A., González-Hernández, J. L., Lee, D. & Aberle, E., Jun 1 2018, In : Bioenergy Research. 11, 2, p. 440-448 9 p.

Research output: Contribution to journalReview article

Acibenzolar-S-methyl is associated with yield reduction when used for managing bacterial wilt (Erwinia tracheiphila) in cantaloupe

Egel, D. S., Kleczewski, N. M., Mumtaz, F. & Foster, R., Jul 2018, In : Crop Protection. 109, p. 136-141 6 p.

Research output: Contribution to journalArticle

A high-performance and in-season classification system of field-level crop types using time-series Landsat data and a machine learning approach

Cai, Y., Guan, K., Peng, J., Wang, S., Seifert, C., Wardlow, B. & Li, Z., Jun 1 2018, In : Remote Sensing of Environment. 210, p. 35-47 13 p.

Research output: Contribution to journalArticle

Allele-defined genome of the autopolyploid sugarcane Saccharum spontaneum L.

Zhang, J., Zhang, X., Tang, H., Zhang, Q., Hua, X., Ma, X., Zhu, F., Jones, T., Zhu, X., Bowers, J., Wai, C. M., Zheng, C., Shi, Y., Chen, S., Xu, X., Yue, J., Nelson, D. R., Huang, L., Li, Z., Xu, H. & 88 others, Zhou, D., Wang, Y., Hu, W., Lin, J., Deng, Y., Pandey, N., Mancini, M., Zerpa, D., Nguyen, J. K., Wang, L., Yu, L., Xin, Y., Ge, L., Arro, J., Han, J. O., Chakrabarty, S., Pushko, M., Zhang, W., Ma, Y., Ma, P., Lv, M., Chen, F., Zheng, G., Xu, J., Yang, Z., Deng, F., Chen, X., Liao, Z., Zhang, X., Lin, Z., Lin, H., Yan, H., Kuang, Z., Zhong, W., Liang, P., Wang, G., Yuan, Y., Shi, J., Hou, J., Lin, J., Jin, J., Cao, P., Shen, Q., Jiang, Q., Zhou, P., Ma, Y., Zhang, X., Xu, R., Liu, J., Zhou, Y., Jia, H., Ma, Q., Qi, R., Zhang, Z., Fang, J., Fang, H., Song, J., Wang, M., Dong, G., Wang, G., Chen, Z., Ma, T., Liu, H., Dhungana, S. R., Huss, S. E., Yang, X., Sharma, A., Trujillo, J. H., Martinez, M. C., Hudson, M., Riascos, J. J., Schuler, M., Chen, L. Q., Braun, D. M., Li, L., Yu, Q., Wang, J., Wang, K., Schatz, M. C., Heckerman, D., Van Sluys, M. A., Souza, G. M., Moore, P. H., Sankoff, D., VanBuren, R., Paterson, A. H., Nagai, C. & Ming, R., Nov 1 2018, In : Nature Genetics. 50, 11, p. 1565-1573 9 p.

Research output: Contribution to journalArticle

An agent-based metapopulation model simulating virus-based biocontrol of Heterodera glycines

Anderson, S., Soman, C., Bekal, S., Domier, L., Lambert, K. & Bhalerao, K., Jan 1 2018, In : Journal of Nematology. 50, 2, p. 79-90 12 p.

Research output: Contribution to journalArticle

Analysis of economic and social costs of growing Petunia × Hybrida in a greenhouse production system using alternative containers

Brumfield, R. G., Kenny, L. B., Devincentis, A. J., Koeser, A. K., Verlinden, S., Both, A. J., Bi, G., Lovell, S. T. & Stewart, J. R., Aug 2018, In : HortScience. 53, 8, p. 1179-1185 7 p.

Research output: Contribution to journalArticle

An assessment of the performance of the logistic mixed model for analyzing binary traits in maize and sorghum diversity panels

Shenstone, E., Cooper, J., Rice, B., Bohn, M., Jamann, T. M. & Lipka, A. E., Nov 2018, In : PloS one. 13, 11, e0207752.

Research output: Contribution to journalArticle

An atypical N-ethylmaleimide sensitive factor enables the viability of nematode-resistant Rhg1 soybeans

Bayless, A. M., Zapotocny, R. W., Grunwald, D. J., Amundson, K. K., Diers, B. W. & Bent, A. F., May 8 2018, In : Proceedings of the National Academy of Sciences of the United States of America. 115, 19, p. E4512-E4521

Research output: Contribution to journalArticle

Ancestrality and mosaicism of giant viruses supporting the definition of the fourth TRUC of microbes

Colson, P., Levasseur, A., Scola, B. L., Sharma, V., Nasir, A., Pontarotti, P., Caetano-Anollés, G. & Raoult, D., Nov 27 2018, In : Frontiers in Microbiology. 9, NOV, 2668.

Research output: Contribution to journalArticle

An early-killed rye (Secale cereale) cover crop has potential for weed management in edamame (Glycine max)

Crawford, L. E., Williams, M. M. & Wortman, S. E., Jul 1 2018, In : Weed Science. 66, 4, p. 502-507 6 p.

Research output: Contribution to journalArticle

An ecological perspective on managing weeds during the great selection for herbicide resistance

Bagavathiannan, M. V. & Davis, A. S., Oct 2018, In : Pest Management Science. 74, 10, p. 2277-2286 10 p.

Research output: Contribution to journalReview article

A novel picornavirus-like genome from transcriptome sequencing of sugar beet cyst nematode represents a new putative genus

Lin, J., Ye, R., Thekke-Veetil, T., Staton, M. E., Arelli, P. R., Bernard, E. C., Hewezi, T., Domier, L. L. & Hajimorad, M. R., Oct 2018, In : Journal of General Virology. 99, 10, p. 1418-1424 7 p., 001139.

Research output: Contribution to journalArticle

A novel receptor-like kinase involved in fungal pathogen defence in Arabidopsis thaliana

Ray, J., Yang, X., Kong, F., Guo, T., Deng, F., Clough, S. & Ramonell, K., Aug 2018, In : Journal of Phytopathology. 166, 7-8, p. 506-515 10 p.

Research output: Contribution to journalArticle

Archaea-First and the Co-Evolutionary Diversification of Domains of Life

Staley, J. T. & Caetano-Anollés, G., Aug 2018, In : BioEssays. 40, 8, 1800036.

Research output: Contribution to journalReview article

A regionally-adapted implementation of conservation agriculture delivers rapid improvements to soil properties associated with crop yield stability

Williams, A., Jordan, N. R., Smith, R. G., Hunter, M. C., Kammerer, M., Kane, D. A., Koide, R. T. & Davis, A. S., Dec 1 2018, In : Scientific reports. 8, 1, 8467.

Research output: Contribution to journalArticle

Assembly and annotation of a draft genome sequence for Glycine latifolia, a perennial wild relative of soybean

Liu, Q., Chang, S., Hartman, G. L. & Domier, L. L., Jul 2018, In : Plant Journal. 95, 1, p. 71-85 15 p.

Research output: Contribution to journalArticle

Association mapping of flowering and height traits in germplasm enhancement of maize doubled haploid (GEM-DH) lines

Vanous, A., Gardner, C., Blanco, M., Martin-Schwarze, A., Lipka, A. E., Flint-Garcia, S., Bohn, M., Edwards, J. & Lübberstedt, T., Jul 2018, In : Plant Genome. 11, 2, 170083.

Research output: Contribution to journalArticle

BETYdb: a yield, trait, and ecosystem service database applied to second-generation bioenergy feedstock production

LeBauer, D., Kooper, R., Mulrooney, P., Rohde, S., Wang, D., Long, S. P. & Dietze, M. C., Jan 2018, In : GCB Bioenergy. 10, 1, p. 61-71 11 p.

Research output: Contribution to journalArticle

Beyond the nutrient strategies: Common ground to accelerate agricultural water quality improvement in the upper Midwest

Christianson, R., Christianson, L., Wong, C., Helmers, M., McIsaac, G., Mulla, D. & McDonald, M., Jan 15 2018, In : Journal of Environmental Management. 206, p. 1072-1080 9 p.

Research output: Contribution to journalArticle

Biocatalytic removal of perchlorate and nitrate in ion-exchange waste brine

Hutchison, J. M. & Zilles, J. L., Aug 2018, In : Environmental Science: Water Research and Technology. 4, 8, p. 1181-1189 9 p.

Research output: Contribution to journalArticle

Biochemical and transcriptomic analysis of maize diversity to elucidate drivers of leaf carbon isotope composition

Kolbe, A. R., Studer, A. J. & Cousins, A. B., Jan 1 2018, In : Functional Plant Biology. 45, 5, p. 489-500 12 p.

Research output: Contribution to journalArticle

Bioinformatics for prohormone and neuropeptide discovery

Southey, B. R., Romanova, E. V., Rodriguez-Zas, S. L. & Sweedler, J. V., Jan 1 2018, Methods in Molecular Biology. Humana Press Inc., p. 71-96 26 p. (Methods in Molecular Biology; vol. 1719).

Research output: Chapter in Book/Report/Conference proceedingChapter

Biomass production of herbaceous energy crops in the United States: field trial results and yield potential maps from the multiyear regional feedstock partnership

Lee, D. K., Aberle, E., Anderson, E. K., Anderson, W., Baldwin, B. S., Baltensperger, D., Barrett, M., Blumenthal, J., Bonos, S., Bouton, J., Bransby, D. I., Brummer, C., Burks, P. S., Chen, C., Daly, C., Egenolf, J., Farris, R. L., Fike, J. H., Gaussoin, R., Gill, J. R. & 38 others, Gravois, K., Halbleib, M. D., Hale, A., Hanna, W., Harmoney, K., Heaton, E. A., Heiniger, R. W., Hoffman, L., Hong, C. O., Kakani, G., Kallenbach, R., Macoon, B., Medley, J. C., Missaoui, A., Mitchell, R., Moore, K. J., Morrison, J. I., Odvody, G. N., Richwine, J. D., Ogoshi, R., Parrish, J. R., Quinn, L., Richard, E., Rooney, W. L., Rushing, J. B., Schnell, R., Sousek, M., Staggenborg, S. A., Tew, T., Uehara, G., Viands, D. R., Voigt, T., Williams, D., Williams, L., Wilson, L. T., Wycislo, A., Yang, Y. & Owens, V., Oct 2018, In : GCB Bioenergy. 10, 10, p. 698-716 19 p.

Research output: Contribution to journalArticle

Biorefinery for combined production of jet fuel and ethanol from lipid-producing sugarcane: a techno-economic evaluation

Kumar, D., Long, S. P. & Singh, V., Feb 1 2018, In : GCB Bioenergy. 10, 2, p. 92-107 16 p.

Research output: Contribution to journalArticle