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Illinois IGB

Research Areas

Genomic Ecology of Global Change: Publications

Fu, P., Meacham-Hensold, K., Siebers, M. H., & Bernacchi, C. J. (2020). The inverse relationship between solar-induced fluorescence yield and photosynthetic capacity: benefits for field phenotyping. Journal of experimental botany

Arora, A., & Singh, V. (2020). Biodiesel production from engineered sugarcane lipids under uncertain feedstock compositions: Process design and techno-economic analysis. Applied Energy280, [115933].

Kurambhatti, C., Kumar, D., Rausch, K. D., Tumbleson, M. E., & Singh, V. (2020). Improving technical and economic feasibility of water based anthocyanin recovery from purple corn using staged extraction approach. Industrial Crops and Products158, [112976].

Wang, Y., Xin, H., Fan, P., Zhang, J., Liu, Y., Dong, Y., Wang, Z., Yang, Y., Zhang, Q., Ming, R., Zhong, G-Y., Li, S., & Liang, Z. (2020). The genome of Shanputao (Vitis amurensis) provides a new insight into cold tolerance of grapevine. The Plant journal : for cell and molecular biology

Leung, F., Williams, K., Sitch, S., Tai, A. P. K., Wiltshire, A., Gornall, J., Ainsworth, E. A., Arkebauer, T., & Scoby, D. (2020). Calibrating soybean parameters in JULES 5.0 from the US-Ne2/3 FLUXNET sites and the SoyFACE-O3 experiment. Geoscientific Model Development13(12), 6201-6213.

Wu, G., Guan, K., Li, Y., Novick, K. A., Feng, X., McDowell, N. G., Konings, A. G., Thompson, S. E., Kimball, J. S., De Kauwe, M. G., Ainsworth, E. A., & Jiang, C. (2020). Interannual variability of ecosystem iso/anisohydry is regulated by environmental dryness. The New phytologist

Lin, Z., Zhou, P., Ma, X., Deng, Y., Liao, Z., Li, R., & Ming, R. (2020). Comparative analysis of chloroplast genomes in Vasconcellea pubescens A.DC. and Carica papaya L. Scientific reports10(1), [15799].

Qin, G., Liu, C., Li, J., Qi, Y., Gao, Z., Zhang, X., Yi, X., Pan, H., Ming, R., & Xu, Y. (2020). Diversity of metabolite accumulation patterns in inner and outer seed coats of pomegranate: exploring their relationship with genetic mechanisms of seed coat development. Horticulture Research7(1), [10].

Zhou, P., Zhang, X., Fatima, M., Ma, X., Fang, H., Yan, H., & Ming, R. (2020). DNA methylome and transcriptome landscapes revealed differential characteristics of dioecious flowers in papaya. Horticulture Research7(1), [81].

Mitros, T., Session, A. M., James, B. T., Wu, G. A., Belaffif, M. B., Clark, L. V., Shu, S., Dong, H., Barling, A., Holmes, J. R., Mattick, J. E., Bredeson, J. V., Liu, S., Farrar, K., Głowacka, K., Jeżowski, S., Barry, K., Chae, W. B., Juvik, J. A., ... Rokhsar, D. S. (2020). Genome biology of the paleotetraploid perennial biomass crop Miscanthus. Nature communications11(1), [5442].

Chen, L. Y., Xin, Y., Wai, C. M., Liu, J., & Ming, R. (2020). The role of cis-elements in the evolution of crassulacean acid metabolism photosynthesis. Horticulture Research7(1), [5].

Viswanathan, M. B., Park, K., Cheng, M. H., Cahoon, E. B., Dweikat, I., Clemente, T., & Singh, V. (2020). Variability in structural carbohydrates, lipid composition, and cellulosic sugar production from industrial hemp varieties. Industrial Crops and Products157, [112906].

Kunz, L. Y., Redekop, P., Ort, D. R., R. Grossman, A., Cargnello, M., & Majumdar, A. (2020). A phytophotonic approach to enhanced photosynthesis. Energy and Environmental Science13(12), 4794-4807.

Xiao, N., Wang, H., Yao, W., Zhang, M., Ming, R., & Zhang, J. (2020). Development and Evaluation of SSR Markers Based on Large Scale Full-Length Transcriptome Sequencing in Sugarcane. Tropical Plant Biology13(4), 343-352.

Fatima, M., Zhang, X., Lin, J., Zhou, P., Zhou, D., & Ming, R. (2020). Expression profiling of MADS-box gene family revealed its role in vegetative development and stem ripening in S. spontaneum. Scientific reports10(1), [20536].

De La Harpe, M., Paris, M., Hess, J., Barfuss, M. H. J., Serrano-Serrano, M. L., Ghatak, A., Chaturvedi, P., Weckwerth, W., Till, W., Salamin, N., Wai, C. M., Ming, R., & Lexer, C. (2020). Genomic footprints of repeated evolution of CAM photosynthesis in a Neotropical species radiation. Plant Cell and Environment43(12), 2987-3001.

Cheng, M. H., Kadhum, H. J., Murthy, G. S., Dien, B. S., & Singh, V. (2020). High solids loading biorefinery for the production of cellulosic sugars from bioenergy sorghum. Bioresource Technology318, [124051].

Liao, L. H., Pearlstein, D. J., Wu, W. Y., Kelley, A. G., Montag, W. M., Hsieh, E. M., & Berenbaum, M. R. (2020). Increase in longevity and amelioration of pesticide toxicity by natural levels of dietary phytochemicals in the honey bee, Apis mellifera. PloS one15(12 December), [e0243364].

Choquette, N. E., Ainsworth, E. A., Bezodis, W., & Cavanagh, A. P. (2020). Ozone tolerant maize hybrids maintain Rubisco content and activity during long-term exposure in the field. Plant Cell and Environment43(12), 3033-3047.

Liao, Q., Du, R., Gou, J., Guo, L., Shen, H., Liu, H., Nguyen, J. K., Ming, R., Yin, T., Huang, S., & Yan, J. (2020). The genomic architecture of the sex-determining region and sex-related metabolic variation in Ginkgo biloba. Plant Journal104(5), 1399-1409.

Li, S., Moller, C. A., Mitchell, N. G., Lee, D., & Ainsworth, E. A. (2020). Bioenergy sorghum maintains photosynthetic capacity in elevated ozone concentrations. Plant, Cell & Environment

Chen, D., Zhang, Q., Tang, W., Huang, Z., Wang, G., Wang, Y., Shi, J., Xu, H., Lin, L., Li, Z., Chi, W., Huang, L., Xia, J., Zhang, X., Guo, L., Wang, Y., Ma, P., Tang, J., Zhou, G., ... Zhang, J. (2020). The evolutionary origin and domestication history of goldfish (Carassius auratus). Proceedings of the National Academy of Sciences of the United States of America117(47), 29775-29785.

Jia, Y., Kumar, D., Winkler-Moser, J. K., Dien, B., & Singh, V. (2020). Recoveries of Oil and Hydrolyzed Sugars from Corn Germ Meal by Hydrothermal Pretreatment: A Model Feedstock for Lipid-Producing Energy Crops. Energies13(22), [6022].

Diene, S. M., Pinault, L., Armstrong, N., Azza, S., Keshri, V., Khelaifia, S., Chabrière, E., Caetano-Anolles, G., Rolain, J. M., Pontarotti, P., & Raoult, D. (2020). Dual RNase and β-lactamase Activity of a Single Enzyme Encoded in Archaea. Life10(11), 1-12. [280].

Zhang, X., Wang, G., Zhang, S., Chen, S., Wang, Y., Wen, P., Ma, X., Shi, Y., Qi, R., Yang, Y., Liao, Z., Lin, J., Lin, J., Xu, X., Chen, X., Xu, X., Deng, F., Zhao, L., Lee, Y. L., ... Ming, R. (2020). Genomes of the Banyan Tree and Pollinator Wasp Provide Insights into Fig-Wasp Coevolution. Cell183(4), 875-889.e17.

Wedow, J. M., Burroughs, C. H., Acosta, L. R., Leakey, A., & Ainsworth, E. A. (2020). Age-dependent increase in α-tocopherol and phytosterols in maize leaves exposed to elevated ozone pollution. Unknown Journal

Acevedo-Siaca, L., Coe, R., Quick, W. P., & Long, S. P. (2020). Variation between rice accessions in photosynthetic induction in flag leaves and underlying mechanisms. Journal of experimental botany

Juneja, A., Kumar, D., Singh, V. K., Yadvika, & Singh, V. K. (2020). Chemical Free Two-Step Hydrothermal Pretreatment to Improve Sugar Yields from Energy Cane. Energies13(21), [5805].

Joshi, G., Virdi, J., & Chowdhary, G. (2020). Asynchronous deep model reference adaptive control. Unknown Journal.

Calla, B., Demkovich, M., Siegel, J. P., Viana, J. P. G., Walden, K. K. O., Robertson, H. M., & Berenbaum, M. R. (2020). Selective sweeps in a nutshell: the genomic footprint of rapid insecticide resistance evolution in the almond agroecosystem. Genome biology and evolution

Taylor, S. H., Orr, D. J., Carmo-Silva, E., & Long, S. P. (2020). During photosynthetic induction, biochemical and stomatal limitations differ between Brassica crops. Plant Cell and Environment43(11), 2623-2636.

Pignon, C. P., & Long, S. P. (2020). Retrospective analysis of biochemical limitations to photosynthesis in 49 species: C4 crops appear still adapted to pre-industrial atmospheric [CO2]. Plant Cell and Environment43(11), 2606-2622.

Moore, C. E., Berardi, D. M., Blanc-Betes, E., Dracup, E. C., Egenriether, S., Gomez-Casanovas, N., Hartman, M. D., Hudiburg, T., Kantola, I., Masters, M. D., Parton, W. J., Van Allen, R., von Haden, A. C., Yang, W. H., DeLucia, E. H., & Bernacchi, C. J. (2020). The carbon and nitrogen cycle impacts of reverting perennial bioenergy switchgrass to an annual maize crop rotation. GCB Bioenergy12(11), 941-954.

Zhu, X., Jackson, R. D., DeLucia, E. H., Tiedje, J. M., & Liang, C. (2020). The soil microbial carbon pump: From conceptual insights to empirical assessments. Global change biology26(11), 6032-6039.

Digrado, A., Mitchell, N. G., Montes, C. M., Dirvanskyte, P., & Ainsworth, E. A. (2020). Assessing diversity in canopy architecture, photosynthesis, and water-use efficiency in a cowpea magic population. Food and Energy Security9(4), [e236].

Zerpa, D., Li, J., & Ming, R. (2020). Genomic and morphological analyses of Sapindaceae species. Acta Horticulturae1293, 125-128.

Tomaszewski, T., DeVries, R. S., Dong, M., Bhatia, G., Norsworthy, M. D., Zheng, X., & Caetano-Anollés, G. (2020). New Pathways of Mutational Change in SARS-CoV-2 Proteomes Involve Regions of Intrinsic Disorder Important for Virus Replication and Release. Evolutionary Bioinformatics16

Hsieh, E. M., Berenbaum, M. R., & Dolezal, A. G. (2020). Ameliorative Effects of Phytochemical Ingestion on Viral Infection in Honey Bees. Insects11(10), 1-18. [698].

Ruiz-vera, U. M., De Souza, A. P., Ament, M. R., Gleadow, R. M., & Ort, D. R. (2020). High Sink-Strength Prevents Photosynthetic Down-Regulation in Cassava Grown at Elevated Co2 Concentration. Journal of experimental botany

Berardi, D., Brzostek, E., Blanc-Betes, E., Davison, B., DeLucia, E. H., Hartman, M. D., Kent, J., Parton, W. J., Saha, D., & Hudiburg, T. W. (2020). 21st-century biogeochemical modeling: Challenges for Century-based models and where do we go from here? GCB Bioenergy12(10), 774-788.

Dove, N. C., Arogyaswamy, K., Billings, S. A., Botthoff, J. K., Carey, C. J., Cisco, C., Deforest, J. L., Fairbanks, D., Fierer, N., Gallery, R. E., Kaye, J. P., Lohse, K. A., Maltz, M. R., Mayorga, E., Pett-Ridge, J., Yang, W. H., Hart, S. C., & Aronson, E. L. (2020). Continental-scale patterns of extracellular enzyme activity in the subsoil: An overlooked reservoir of microbial activity. Environmental Research Letters15(10), [1040A1].

Mughal, F., Nasir, A., & Caetano-Anollés, G. (2020). The origin and evolution of viruses inferred from fold family structure. Archives of Virology165(10), 2177-2191.

Berenbaum, M. R. (2020). Crabby Days. American Entomologist66(3), 10-13.

Naughton, N., Sun, J., Tekinalp, A., Chowdhary, G., & Gazzola, M. (2020). Elastica: A compliant mechanics environment for soft robotic control. Unknown Journal.

Wang, S., Guan, K., Wang, Z., Ainsworth, E. A., Zheng, T., Townsend, P. A., Li, K., Moller, C., Wu, G., & Jiang, C. (Accepted/In press). Unique contributions of chlorophyll and nitrogen to predict crop photosynthetic capacity from leaf spectroscopy. Journal of experimental botany, [eraa432].

Yu, L., Liu, C., Li, J., Jia, B., Qi, X., Ming, R., & Qin, G. (2020). Identification of Candidate Auxin Response Factors Involved in Pomegranate Seed Coat Development. Frontiers in Plant Science11, [536530].

Ma, P., Zhang, X., Chen, L., Zhao, Q., Zhang, Q., Hua, X., Wang, Z., Tang, H., Yu, Q., Zhang, M., Ming, R., & Zhang, J. (2020). Comparative analysis of sucrose phosphate synthase (SPS) gene family between Saccharum officinarum and Saccharum spontaneum. BMC Plant Biology20(1), 422. [422].

Song, Q., Srinivasan, V., Long, S. P., & Zhu, X. G. (2020). Decomposition analysis on soybean productivity increase under elevated CO2using 3-D canopy model reveals synergestic effects of CO2and light in photosynthesis. Annals of botany126(4), 601-614.

Field, J. L., Richard, T. L., Smithwick, E. A. H., Cai, H., Laser, M. S., LeBauer, D. S., Long, S. P., Paustian, K., Qin, Z., Sheehan, J. J., Smith, P., Wang, M. Q., & Lynd, L. R. (2020). Robust paths to net greenhouse gas mitigation and negative emissions via advanced biofuels. Proceedings of the National Academy of Sciences of the United States of America117(36), 21968-21977.

Kim, S. Y., Stessman, D. J., Wright, D. A., Spalding, M. H., Huber, S. C., & Ort, D. R. (2020). Arabidopsis plants expressing only the redox-regulated Rca-α isoform have constrained photosynthesis and plant growth. Plant Journal103(6), 2250-2262.

Kumar, D., Jansen, M., Basu, R., & Singh, V. (2020). Enhancing ethanol yields in corn dry grind process by reducing glycerol production. Cereal Chemistry97(5), 1026-1036.

Zhang, Z., Kayacan, E., Thompson, B., & Chowdhary, G. (2020). High precision control and deep learning-based corn stand counting algorithms for agricultural robot. Autonomous Robots44(7), 1289-1302.

Zeri, M., Yang, W. H., Cunha-Zeri, G., Gibson, C. D., & Bernacchi, C. J. (2020). Nitrous oxide fluxes over establishing biofuel crops: Characterization of temporal variability using the cross-wavelet analysis. GCB Bioenergy12(9), 756-770.

Kenchanmane Raju, S. K., Adkins, M., Enersen, A., Santana de Carvalho, D., Studer, A. J., Ganapathysubramanian, B., Schnable, P. S., & Schnable, J. C. (2020). Leaf Angle eXtractor: A high-throughput image processing framework for leaf angle measurements in maize and sorghum. Applications in Plant Sciences8(8), [e11385].

Zhang, L., Xu, Y., Zhang, X., Ma, X., Zhang, L., Liao, Z., Zhang, Q., Wan, X., Cheng, Y., Zhang, J., Li, D., Zhang, L., Xu, J., Tao, A., Lin, L., Fang, P., Chen, S., Qi, R., Xu, X., ... Ming, R. (2020). The genome of kenaf (Hibiscus cannabinus L.) provides insights into bast fibre and leaf shape biogenesis. Plant Biotechnology Journal18(8), 1796-1809.

Acevedo-Siaca, L. G., Coe, R., Wang, Y., Kromdijk, J., Quick, W. P., & Long, S. P. (2020). Variation in photosynthetic induction between rice accessions and its potential for improving productivity. New Phytologist227(4), 1097-1108.

Berenbaum, M. R. (2020). PNAS and prejudice. Proceedings of the National Academy of Sciences of the United States of America117(29), 16710-16712.

Long, S. P. (2020). Bioenergy—The slope of enlightenment. GCB Bioenergy12(7), 462-463.

Benes, B., Guan, K., Lang, M., Long, S. P., Lynch, J. P., Marshall-Colón, A., Peng, B., Schnable, J., Sweetlove, L. J., & Turk, M. J. (2020). Multiscale computational models can guide experimentation and targeted measurements for crop improvement. Plant Journal103(1), 21-31.

von Haden, A. C., Yang, W. H., & DeLucia, E. H. (2020). Soils' dirty little secret: Depth-based comparisons can be inadequate for quantifying changes in soil organic carbon and other mineral soil properties. Global change biology26(7), 3759-3770.

Parajuli, S., Kannan, B., Karan, R., Sanahuja, G., Liu, H., Garcia-Ruiz, E., Kumar, D., Singh, V., Zhao, H., Long, S., Shanklin, J., & Altpeter, F. (2020). Towards oilcane: Engineering hyperaccumulation of triacylglycerol into sugarcane stems. GCB Bioenergy12(7), 476-490.

Olatoye, M. O., Clark, L. V., Labonte, N. R., Dong, H., Dwiyanti, M. S., Anzoua, K. G., Brummer, J. E., Ghimire, B. K., Dzyubenko, E., Dzyubenko, N., Bagmet, L., Sabitov, A., Chebukin, P., Głowacka, K., Heo, K., Jin, X., Nagano, H., Peng, J., Yu, C. Y., ... Lipka, A. E. (2020). Training population optimization for genomic selection in miscanthus. G3: Genes, Genomes, Genetics10(7), 2465-2476.

Cheng, M. H., Sun, L., Jin, Y. S., Dien, B., & Singh, V. (2020). Production of xylose enriched hydrolysate from bioenergy sorghum and its conversion to β-carotene using an engineered Saccharomyces cerevisiae. Bioresource Technology308, [123275].

Deng, Y., Zhang, X., Xie, B., Lin, L., Hsiang, T., Lin, X., Lin, Y., Zhang, X., Ma, Y., Miao, W., & Ming, R. (2020). Intra-specific comparison of mitochondrial genomes reveals host gene fragment exchange via intron mobility in Tremella fuciformis. BMC genomics21(1), [426].

Collison, R. F., Raven, E. C., Pignon, C. P., & Long, S. P. (2020). Light, Not Age, Underlies the Maladaptation of Maize and Miscanthus Photosynthesis to Self-Shading. Frontiers in Plant Science11, [783].

Drag, D. W., Slattery, R., Siebers, M., Delucia, E. H., Ort, D. R., & Bernacchi, C. J. (2020). Soybean photosynthetic and biomass responses to carbon dioxide concentrations ranging from pre-industrial to the distant future. Journal of experimental botany71(12), 3690-3700.

Kimm, H., Guan, K., Gentine, P., Wu, J., Bernacchi, C. J., Sulman, B. N., Griffis, T. J., & Lin, C. (2020). Redefining droughts for the U.S. Corn Belt: The dominant role of atmospheric vapor pressure deficit over soil moisture in regulating stomatal behavior of Maize and Soybean. Agricultural and Forest Meteorology287, [107930].

Fang, J., Fang, J., Fang, J., Fang, J., Wood, A. M., Chen, Y., Chen, Y., Yue, J., Ming, R., & Ming, R. (2020). Genomic variation between PRSV resistant transgenic SunUp and its progenitor cultivar Sunset. BMC genomics21(1), [398].

Qureshi, N., Lin, X., Liu, S., Saha, B. C., Mariano, A. P., Polaina, J., Ezeji, T. C., Friedl, A., Maddox, I. S., Klasson, K. T., Dien, B. S., & Singh, V. (2020). Global View of Biofuel Butanol and Economics of Its Production by Fermentation from Sweet Sorghum Bagasse, Food Waste, and Yellow Top Presscake: Application of Novel Technologies. Fermentation6(2), [6020058].

Paul, R. F., Cai, Y., Peng, B., Yang, W. H., Guan, K., & DeLucia, E. H. (2020). Spatiotemporal derivation of intermittent ponding in a maize-soybean landscape from planet labs cubesat images. Remote Sensing12(12), [1942].

Hanisch, P. E., Drager, K., Yang, W. H., Tubaro, P. L., & Suarez, A. V. (2020). Intra- and interspecific variation in trophic ecology of ‘predatory’ ants in the subfamily Ponerinae. Ecological Entomology45(3), 444-455.

Berenbaum, M. R. (2020). PNAS and the pandemic. Proceedings of the National Academy of Sciences of the United States of America117(18), 9650-9651.

Bharath, S., Borer, E. T., Biederman, L. A., Blumenthal, D. M., Fay, P. A., Gherardi, L. A., Knops, J. M. H., Leakey, A. D. B., Yahdjian, L., & Seabloom, E. W. (2020). Nutrient addition increases grassland sensitivity to droughts. Ecology101(5), [e02981].

Van Stolen, N., Hyun Kim, S., Tran, H. T., & Chowdhary, G. (2020). Evaluating Adaptation Performance of Hierarchical Deep Reinforcement Learning. In 2020 IEEE International Conference on Robotics and Automation, ICRA 2020 (pp. 11457-11463). [9197052] (Proceedings - IEEE International Conference on Robotics and Automation). Institute of Electrical and Electronics Engineers Inc..

Chee-Sanford, J. C., Connor, L., Krichels, A., Yang, W. H., & Sanford, R. A. (2020). Hierarchical detection of diverse Clade II (atypical) nosZ genes using new primer sets for classical- and multiplex PCR array applications. Journal of Microbiological Methods172, [105908].

Wang, C., Guan, K., Peng, B., Chen, M., Jiang, C., Zeng, Y., Wu, G., Wang, S., Wu, J., Yang, X., Frankenberg, C., Köhler, P., Berry, J., Bernacchi, C., Zhu, K., Alden, C., & Miao, G. (2020). Satellite footprint data from OCO-2 and TROPOMI reveal significant spatio-temporal and inter-vegetation type variabilities of solar-induced fluorescence yield in the U.S. Midwest. Remote Sensing of Environment241, [111728].

Berenbaum, M. R. (2020). On Mr. Hyslop’s prediction, content archives, and preprint servers. Proceedings of the National Academy of Sciences of the United States of America117(17), 9131-9134.

Chang, H. S., Halder, U., Shih, C. H., Tekinalp, A., Parthasarathy, T., Gribkova, E., Chowdhary, G., Gillette, R., Gazzola, M., & Mehta, P. G. (2020). Energy shaping control of a CyberOctopus soft arm. Unknown Journal.

Zhu, X. G., Ort, D. R., Parry, M. A. J., & Von Caemmerer, S. (2020). A wish list for synthetic biology in photosynthesis research. Journal of experimental botany71(7), 2219-2225.

Meacham-Hensold, K., Fu, P., Wu, J., Serbin, S., Montes, C. M., Ainsworth, E., Guan, K., Dracup, E., Pederson, T., Driever, S., & Bernacchi, C. (2020). Plot-level rapid screening for photosynthetic parameters using proximal hyperspectral imaging. Journal of experimental botany71(7), 2312-2328.

Mishra, P. K., Wang, T., Gazzola, M., & Chowdhary, G. (2020). Centralized model predictive control with distributed adaptation. Unknown Journal.

Fisher, J. B., Lee, B., Purdy, A. J., Halverson, G. H., Dohlen, M. B., Cawse-Nicholson, K., Wang, A., Anderson, R. G., Aragon, B., Arain, M. A., Baldocchi, D. D., Baker, J. M., Barral, H., Bernacchi, C. J., Bernhofer, C., Biraud, S. C., Bohrer, G., Brunsell, N., Cappelaere, B., ... Hook, S. (2020). ECOSTRESS: NASA's Next Generation Mission to Measure Evapotranspiration From the International Space Station. Water Resources Research56(4), [e2019WR026058].

Peng, B., Guan, K., Tang, J., Ainsworth, E. A., Asseng, S., Bernacchi, C. J., Cooper, M., Delucia, E. H., Elliott, J. W., Ewert, F., Grant, R. F., Gustafson, D. I., Hammer, G. L., Jin, Z., Jones, J. W., Kimm, H., Lawrence, D. M., Li, Y., Lombardozzi, D. L., ... Zhou, W. (2020). Towards a multiscale crop modelling framework for climate change adaptation assessment. Nature Plants6(4), 338-348.

Berkelhammer, M., Alsip, B., Matamala, R., Cook, D., Whelan, M. E., Joo, E., Bernacchi, C., Miller, J., & Meyers, T. (2020). Seasonal Evolution of Canopy Stomatal Conductance for a Prairie and Maize Field in the Midwestern United States from Continuous Carbonyl Sulfide Fluxes. Geophysical Research Letters47(6), [e2019GL085652].

Bokhari, R. H., Amirjan, N., Jeong, H., Kim, K. M., Caetano-Anollés, G., Nasir, A., & Bapteste, E. (2020). Bacterial Origin and Reductive Evolution of the CPR Group. Genome biology and evolution12(3), 103-121.

Kimm, H., Guan, K., Jiang, C., Peng, B., Gentry, L. F., Wilkin, S., Wang, S., Cai, Y., Bernacchi, C. J., Peng, J., & Luo, Y. (2020). Deriving high-spatiotemporal-resolution leaf area index for agroecosystems in the U.S. Corn Belt using Planet Labs CubeSat and STAIR fusion data. Remote Sensing of Environment239, [111615].

Berenbaum, M. (2020). Weed Whackers. American Entomologist66(1), 10-13.

Cortes-Peña, Y., Kumar, D., Singh, V., & Guest, J. S. (2020). BioSTEAM: A Fast and Flexible Platform for the Design, Simulation, and Techno-Economic Analysis of Biorefineries under Uncertainty. ACS Sustainable Chemistry and Engineering8(8), 3302-3310.

Thackeray, S. J., Robinson, S. A., Smith, P., Bruno, R., Kirschbaum, M. U. F., Bernacchi, C., Byrne, M., Cheung, W., Cotrufo, M. F., Gienapp, P., Hartley, S., Janssens, I., Hefin Jones, T., Kobayashi, K., Luo, Y., Penuelas, J., Sage, R., Suggett, D. J., Way, D., & Long, S. (2020). Civil disobedience movements such as School Strike for the Climate are raising public awareness of the climate change emergency. Global change biology26(3), 1042-1044.

Li, Z., Hua, X., Zhong, W., Yuan, Y., Wang, Y., Wang, Z., Ming, R., & Zhang, J. (2020). Genome-wide identification and expression profile analysis of WRKY family genes in the autopolyploid saccharum spontaneum. Plant and Cell Physiology61(3), 616-630.

De Souza, A. P., Wang, Y., Orr, D. J., Carmo-Silva, E., & Long, S. P. (2020). Photosynthesis across African cassava germplasm is limited by Rubisco and mesophyll conductance at steady state, but by stomatal conductance in fluctuating light. New Phytologist225(6), 2498-2512.

Wang, Y., Singh, R., Tong, E., Tang, M., Zheng, L., Fang, H., Li, R., Guo, L., Song, J., Srinivasan, R., Sharma, A., Lin, L., Trujillo, J. A., Manshardt, R., Chen, L. Y., Ming, R., & Yu, Q. (2020). Positional cloning and characterization of the papaya diminutive mutant reveal a truncating mutation in the CpMMS19 gene. New Phytologist225(5), 2006-2021.

Gomez-Casanovas, N., DeLucia, N. J., DeLucia, E. H., Blanc-Betes, E., Boughton, E. H., Sparks, J., & Bernacchi, C. J. (2020). Seasonal Controls of CO2 and CH4 Dynamics in a Temporarily Flooded Subtropical Wetland. Journal of Geophysical Research: Biogeosciences125(3), [e2019JG005257].

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Heath, K. D., Podowski, J. C., Heniff, S., Klinger, C. R., Burke, P. V., Weese, D. J., Yang, W. H., & Lau, J. A. (2020). Light availability and rhizobium variation interactively mediate the outcomes of legume–rhizobium symbiosis. American journal of botany107(2), 229-238.

Dos Santos, J. P. R., Fernandes, S. B., McCoy, S., Lozano, R., Brown, P. J., Leakey, A. D. B., Buckler, E. S., Garcia, A. A. F., & Gore, M. A. (2020). Novel bayesian networks for genomic prediction of developmental traits in biomass sorghum. G3: Genes, Genomes, Genetics10(2), 769-781.

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Calla, B., Wu, W. Y., Dean, C. A. E., Schuler, M. A., & Berenbaum, M. R. (2020). Substrate-specificity of cytochrome P450-mediated detoxification as an evolutionary strategy for specialization on furanocoumarin-containing hostplants: CYP6AE89 in parsnip webworms. Insect Molecular Biology29(1), 112-123.

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Juneja, A., Cusick, R., & Singh, V. (Accepted/In press). Recovering phosphorus as a coproduct from corn dry grind plants: A techno-economic evaluation. Cereal Chemistry

Ainsworth, E. A., Lemonnier, P., & Wedow, J. M. (2020). The influence of rising tropospheric carbon dioxide and ozone on plant productivity. Plant Biology22(S1), 5-11.

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Zhang, Q., Hua, X., Liu, H., Yuan, Y., Shi, Y., Wang, Z., Zhang, M., Ming, R., & Zhang, J. (Accepted/In press). Evolutionary expansion and functional divergence of sugar transporters in Saccharum (S. spontaneum and S. officinarum). Plant Journal

Santiago, T. R., Lopes, C. A., Caetano-Anollés, G., & Mizubuti, E. S. G. (2020). Genetic Structure of Ralstonia solanacearum and Ralstonia pseudosolanacearum in Brazil. Plant disease104(4), 1019-1025.

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Higuti, V. A. H., Velasquez, A. E. B., Magalhaes, D. V., Becker, M., & Chowdhary, G. (2019). Under canopy light detection and ranging-based autonomous navigation. Journal of Field Robotics, 36(3), 547-567.

Berenbaum, M. R. (2019). Speaking of gender bias. Proceedings of the National Academy of Sciences of the United States of America, 116(17), 8086-8088.

Caetano-Anollés, D., Nasir, A., Kim, K. M., & Caetano-Anollés, G. (2019). Testing Empirical Support for Evolutionary Models that Root the Tree of Life. Journal of Molecular Evolution, 87(2-3), 131-142.

Li, S., Courbet, G., Ourry, A., & Ainsworth, E. (2019). Elevated Ozone Concentration Reduces Photosynthetic Carbon Gain but Does Not Alter Leaf Structural Traits, Nutrient Composition or Biomass in Switchgrass. Plants, 8(4), [85].,

Wedow, J. M., Yendrek, C. R., Mello, T. R., Creste, S., Martinez, C. A., & Ainsworth, E. A. (2019). Metabolite and transcript profiling of Guinea grass (Panicum maximum Jacq) response to elevated [CO 2 ] and temperature Metabolomics, 15(4), [51].

Conlan, B., Birch, R., Kelso, C., Holland, S., De Souza, A. P., Long, S. P., ... Whitney, S. M. (2019). BSD2 is a Rubisco-specific assembly chaperone, forms intermediary hetero-oligomeric complexes, and is nonlimiting to growth in tobacco. Plant Cell and Environment, 42(4), 1287-1301.

Argueso, C. T., Assmann, S. M., Birnbaum, K. D., Chen, S., Dinneny, J. R., Doherty, C. J., ... Williams, C. M. (2019). Directions for research and training in plant omics: Big Questions and Big Data. Plant Direct, 3(4), [e00133].

Joshi, G., & Chowdhary, G. (2019). Hybrid direct-indirect adaptive control of nonlinear system with unmatched uncertainty. In 2019 6th International Conference on Control, Decision and Information Technologies, CoDIT 2019 (pp. 127-132). [8820301] (2019 6th International Conference on Control, Decision and Information Technologies, CoDIT 2019). Institute of Electrical and Electronics Engineers Inc..

Suriyavirun, N., Krichels, A. H., Kent, A. D., & Yang, W. H. (2019). Microtopographic differences in soil properties and microbial community composition at the field scale. Soil Biology and Biochemistry, 131, 71-80.

Leakey, A., Ferguson, J. N., Pignon, C. P., Wu, A., Jin, Z., Hammer, G. L., & Lobell, D. B. (2019). Water Use Efficiency as a Constraint and Target for Improving the Resilience and Productivity of C 3 and C 4 Crops Annual Review of Plant Biology, 70, 781-808.

Berenbaum, M. R. (2019). Out of Order. American Entomologist, 65(1), 3-5.

Baek, Y. S., Goodrich, L. V., Brown, P. J., James, B. T., Moose, S. P., Lambert, K. N., & Riechers, D. E. (2019). Transcriptome profiling and genome-wide association studies reveal Gsts and other defense genes involved in multiple signaling pathways induced by herbicide safener in grain sorghum. Frontiers in Plant Science, 10, [192].

Kumar, D., & Singh, V. (2019). Improving dry-fractionated corn fermentation by supplementation of corn germ meal and pasta mill feed from agro-food industries. Cereal Chemistry, 96(2), 243-251.

Pereira, I. S., do Nascimento, H. E. M., Vicari, M. B., Disney, M., DeLucia, E. H., Domingues, T., ... Hofhansl, F. (2019). Performance of laser-based electronic devices for structural analysis of Amazonian terra-firme forests. Remote Sensing, 11(5), [510].

Jaiswal, D., De Souza, A. P., Larsen, S., LeBauer, D. S., Miguez, F. E., Sparovek, G., ... Long, S. P. (2019). Reply to: Brazilian ethanol expansion subject to limitations. Nature Climate Change, 9(3), 211-212.

Juneja, A., Sharma, N., Cusick, R., & Singh, V. (2019). Techno-economic feasibility of phosphorus recovery as a coproduct from corn wet milling plants. Cereal Chemistry, 96(2), 380-390.

Juneja, A., Zhang, G., Jin, Y-S., & Singh, V. (2019). Bioprocessing and technoeconomic feasibility analysis of simultaneous production of D-psicose and ethanol using engineered yeast strain KAM-2GD. Bioresource Technology, 275, 27-34.

Valluru, R., Gazave, E. E., Fernandes, S. B., Ferguson, J. N., Lozano, R., Hirannaiah, P., ... Bandillo, N. (2019). Deleterious mutation burden and its association with complex traits in sorghum (Sorghum bicolor). Genetics, 211(3), 1075-1087.

Cheng, M. H., Dien, B. S., & Singh, V. (2019). Economics of plant oil recovery: A review. Biocatalysis and Agricultural Biotechnology, 18, [101056].

Köhler, I. H., Huber, S. C., Bernacchi, C. J., & Baxter, I. R. (2019). Increased temperatures may safeguard the nutritional quality of crops under future elevated CO2 concentrations. Plant Journal, 97(5), 872-886.

Bai, J., Sun, F., Wang, M., Su, L., Li, R., & Caetano-Anolles, G. (2019). Correction to: Genome-wide analysis of the MYB-CC gene family of maize (Genetica, (2019), 147, 1, (1-9), 10.1007/s10709-018-0042-y). Genetica, 147(1).

Bai, J., Sun, F., Wang, M., Su, L., Li, R., & Caetano-Anolles, G. (2019). Genome-wide analysis of the MYB-CC gene family of maize. Genetica, 147(1).

Krichels, A., Delucia, E. H., Sanford, R. A., Chee-Sanford, J., & Yang, W. (2019). Historical soil drainage mediates the response of soil greenhouse gas emissions to intense precipitation events. Biogeochemistry, 142(3), 425-442.

Kolbe, A. R., Studer, A. J., Cornejo, O. E., & Cousins, A. B. (2019). Insights from transcriptome profiling on the non-photosynthetic and stomatal signaling response of maize carbonic anhydrase mutants to low CO2. BMC genomics, 20(1), [138].

Yang, X., Song, J., Todd, J., Peng, Z., Paudel, D., Luo, Z., ... Wang, J. (2019). Target enrichment sequencing of 307 germplasm accessions identified ancestry of ancient and modern hybrids and signatures of adaptation and selection in sugarcane (Saccharum spp.), a ‘sweet’ crop with ‘bitter’ genomes. Plant Biotechnology Journal, 17(2), 488-498.

Wang, Y., Hua, X., Xu, J., Chen, Z., Fan, T., Zeng, Z., ... Zhang, J. (2019). Comparative genomics revealed the gene evolution and functional divergence of magnesium transporter families in Saccharum. BMC genomics, 20(1), [5437].

Joshi, G., & Chowdhary, G. (2019). Adaptive Control using Gaussian-Process with Model Reference Generative Network. In 2018 IEEE Conference on Decision and Control, CDC 2018 (pp. 237-243). [8619431] (Proceedings of the IEEE Conference on Decision and Control; Vol. 2018-December). Institute of Electrical and Electronics Engineers Inc..

Maske, H., & Chowdhary, G. (2019). Likelihood Rate Based Estimation of Nonstationary Markov Models. In 2018 IEEE Conference on Decision and Control, CDC 2018 (pp. 4759-4766). [8619316] (Proceedings of the IEEE Conference on Decision and Control; Vol. 2018-December). Institute of Electrical and Electronics Engineers Inc..

Jin, Z., Pagilla, P. R., Maske, H., & Chowdhary, G. (2019). Methods for Blended Shared Control of Hydraulic Excavators with Learning and Prediction. In 2018 IEEE Conference on Decision and Control, CDC 2018 (pp. 1973-1978). [8619826] (Proceedings of the IEEE Conference on Decision and Control; Vol. 2018-December). Institute of Electrical and Electronics Engineers Inc..

Jin, Z., Pagilla, P., Maske, H., & Chowdhary, G. (2019). Blended Shared Control with Subgoal Adjustment. In Proceedings - 2018 IEEE International Conference on Systems, Man, and Cybernetics, SMC 2018 (pp. 2724-2729). [8616461] (Proceedings - 2018 IEEE International Conference on Systems, Man, and Cybernetics, SMC 2018). Institute of Electrical and Electronics Engineers Inc..

Shen, Y. H., Yang, F. Y., Lu, B. G., Zhao, W. W., Jiang, T., Feng, L., ... Ming, R. (2019). Exploring the differential mechanisms of carotenoid biosynthesis in the yellow peel and red flesh of papaya. BMC genomics, 20(1), [49].

Nelson, A. J., Lichiheb, N., Koloutsou-Vakakis, S., Rood, M. J., Heuer, M., Myles, L. T., ... Bernacchi, C. (2019). Ammonia flux measurements above a corn canopy using relaxed eddy accumulation and a flux gradient system. Agricultural and Forest Meteorology, 264, 104-113.

Berenbaum, M. R. (2019). Proceedings of the national academy of sciences—its evolution and adaptation. Proceedings of the National Academy of Sciences of the United States of America, 116(3), 704-706.

South, P. F., Cavanagh, A. P., Liu, H. W., & Ort, D. R. (2019). Synthetic glycolate metabolism pathways stimulate crop growth and productivity in the field. Science, 363(6422), [eaat9077].

Axelrod, A., & Chowdhary, G. (2019). A dynamic risk form of entropic value at risk. In AIAA Scitech 2019 Forum (AIAA Scitech 2019 Forum). American Institute of Aeronautics and Astronautics Inc, AIAA.

Pignon, C. P., Lundgren, M. R., Osborne, C. P., & Long, S. P. (2019). Bundle sheath chloroplast volume can house sufficient Rubisco to avoid limiting C4 photosynthesis during chilling. Journal of experimental botany, 70(1), 357-365.

Krichels, A. H., & Yang, W. H. (Accepted/In press). Dynamic Controls on Field-Scale Soil Nitrous Oxide Hot Spots and Hot Moments Across a Microtopographic Gradient. Journal of Geophysical Research: Biogeosciences.

Caetano-Anollés, G., Aziz, M. F., Mughal, F., Gräter, F., Koç, I., Caetano-Anollés, K., & Caetano-Anollés, D. (2019). Emergence of Hierarchical Modularity in Evolving Networks Uncovered by Phylogenomic Analysis. Evolutionary Bioinformatics, 15.

Ngumbi, E. N., Hanks, L. M., Suarez, A. V., Millar, J. G., & Berenbaum, M. R. (Accepted/In press). Factors Associated with Variation in Cuticular Hydrocarbon Profiles in the Navel Orangeworm, Amyelois transitella (Lepidoptera: Pyralidae). Journal of Chemical Ecology.

Quindlen, J. F., Topcu, U., Chowdhary, G., & How, J. P. (2019). Failure-adverse closed-loop statistical verification. In AIAA Scitech 2019 Forum (AIAA Scitech 2019 Forum). American Institute of Aeronautics and Astronautics Inc, AIAA.

Berenbaum, M. R., & Liao, L. H. (Accepted/In press). Honey Bees and Environmental Stress: Toxicologic Pathology of a Superorganism. Toxicologic Pathology.

Challa, G. S., & Marshall-Colon, A. (2019). In silico crops and multi-omic approaches to meet agricultural challenges. CAB Reviews: Perspectives in Agriculture, Veterinary Science, Nutrition and Natural Resources, 14, [005].

Hanisch, P. E., Drager, K., Yang, W. H., Tubaro, P. L., & Suarez, A. V. (Accepted/In press). Intra- and interspecific variation in trophic ecology of ‘predatory’ ants in the subfamily Ponerinae. Ecological Entomology.

Jatt, T., Markhand, G. S., Rayburn, L., Ming, R., Jatoi, M. A., & Mirbahar, A. A. (2019). Karyotype variations among date palm (Phoenix dactylifera L.) cultivars of Sindh, Pakistan. Sarhad Journal of Agriculture, 35(3), 708-718.

Denisov, I. G., Schuler, M. A., & Sligar, S. (2019). Nanodiscs as a New Tool to Examine Lipid–Protein Interactions. In Methods in Molecular Biology (pp. 645-671). (Methods in Molecular Biology; Vol. 2003). Humana Press Inc..

Zerpa-Catanho, D. P., & Ming, R. (2019). Papaya sex chromosome evolution and domestication. Acta Horticulturae, 1250, 129-137.

Haschek, W. M., Berenbaum, M., Hinton, D. E., Cora, M., Chernoff, N., Travlos, G., ... Law, M. (Accepted/In press). Pathology in Ecological Research With Implications for One Health: Session Summary. Toxicologic Pathology.

Taylor, S. H., & Long, S. P. (2019). Phenotyping photosynthesis on the limit - a critical examination of RACiR. The New phytologist, 221(2), 621-624.

De Souza, A. P., Wang, Y., Orr, D. J., Carmo-Silva, E., & Long, S. P. (Accepted/In press). Photosynthesis across African cassava germplasm is limited by Rubisco and mesophyll conductance at steady state, but by stomatal conductance in fluctuating light. New Phytologist.

Calla, B., Wu, W. Y., Dean, C. A. E., Schuler, M. A., & Berenbaum, M. R. (2019). Substrate-specificity of cytochrome P450-mediated detoxification as an evolutionary strategy for specialization on furanocoumarin-containing hostplants: CYP6AE89 in parsnip webworms. Insect Molecular Biology.

Nguyen, J. K., & Ming, R. (2019). The papaya genome project: Fruitful insights, a decade later. Acta Horticulturae, 1250, 111-121.

Wolz, K. J., & DeLucia, E. H. (2019). Black walnut alley cropping is economically competitive with row crops in the Midwest USA. Ecological Applications, 29(1), [e01829].

Gog, L., Berenbaum, M. R., & Delucia, E. H. (2019). Mediation of Impacts of Elevated CO2 and Light Environment on Arabidopsis thaliana (L.) Chemical Defense against Insect Herbivory Via Photosynthesis. Journal of Chemical Ecology.

Zhang, J., Zhang, Q., Li, L., Tang, H., Zhang, Q., Chen, Y., ... Ming, R. (2019). Recent polyploidization events in three Saccharum founding species. Plant Biotechnology Journal, 17(1), 264-274.

Kumar, D., Hager, A-S., Sun, A., Debyser, W., Javier Guagliano, B., & Singh, V. (2019). Improving Fermentation Rate during Use of Corn Grits in Beverage Alcohol Production. Beverages, 5(1).

McAllister, W., Osipychev, D., Chowdhary, G., & Davis, A. (2018). Multi-Agent Planning for Coordinated Robotic Weed Killing. In 2018 IEEE/RSJ International Conference on Intelligent Robots and Systems, IROS 2018 (pp. 7955-7960). [8593429] (IEEE International Conference on Intelligent Robots and Systems). Institute of Electrical and Electronics Engineers Inc..

Dien, B. S., Mitchell, R. B., Bowman, M. J., Jin, V. L., Quarterman, J., Schmer, M. R., ... Slininger, P. J. (2018). Bioconversion of pelletized big bluestem, switchgrass, and low-diversity grass mixtures into sugars and bioethanol. Frontiers in Energy Research, 6(DEC), [129].

Bush, D. S., Siegel, J. P., & Berenbaum, M. R. (2018). Accelerated Development and Toxin Tolerance of the Navel Orangeworm Amyelois transitella (Lepidoptera: Pyralidae) in the Presence of Aspergillus flavus. Journal of Chemical Ecology, 44(12), 1170-1177.

Pradyawong, S., Juneja, A., Bilal Sadiq, M., Noomhorm, A., & Singh, V. (2018). Comparison of cassava starch with corn as a feedstock for bioethanol production. Energies, 11(12), [3476].

Zhang, J., Zhang, X., Tang, H., Zhang, Q., Hua, X., Ma, X., ... Ming, R. (2018). Erratum to: Allele-defined genome of the autopolyploid sugarcane Saccharum spontaneum L. (Nature Genetics, (2018), 50, 11, (1565-1573), 10.1038/s41588-018-0237-2). Nature Genetics, 50(12).

Xu, H., Yu, Q., Shi, Y., Hua, X., Tang, H., Yang, L., ... Zhang, J. (2018). PGD: Pineapple Genomics Database. Horticulture Research, 5(1), [66].

Głowacka, K., Kromdijk, J., Kucera, K., Xie, J., Cavanagh, A. P., Leonelli, L., ... Long, S. P. (2018). Photosystem II Subunit S overexpression increases the efficiency of water use in a field-grown crop. Nature communications, 9(1), [868].

Tran, D., Do, H. M., Sheng, W., Bai, H., & Chowdhary, G. (2018). Real-time detection of distracted driving based on deep learning. IET Intelligent Transport Systems, 12(10), 1210-1219.

Singh, R., Jones, T., Wai, C. M., Jifon, J., Nagai, C., Ming, R. R., & Yu, Q. (2018). Transcriptomic analysis of transgressive segregants revealed the central role of photosynthetic capacity and efficiency in biomass accumulation in sugarcane. Scientific reports, 8(1), [4415].

Ruiz-Vera, U. M., Siebers, M. H., Jaiswal, D., Ort, D. R., & Bernacchi, C. J. (2018). Canopy warming accelerates development in soybean and maize, offsetting the delay in soybean reproductive development by elevated CO2 concentrations. Plant Cell and Environment, 41(12), 2806-2820.

Kurambhatti, C. V., Kumar, D., Rausch, K. D., Tumbleson, M. E., & Singh, V. (2018). Increasing ethanol yield through fiber conversion in corn dry grind process. Bioresource Technology, 270, 742-745.

South, P. F., Cavanagh, A. P., Lopez-Calcagno, P. E., Raines, C. A., & Ort, D. R. (2018). Optimizing photorespiration for improved crop productivity. Journal of Integrative Plant Biology, 60(12), 1217-1230.

Colson, P., Levasseur, A., Scola, B. L., Sharma, V., Nasir, A., Pontarotti, P., ... Raoult, D. (2018). Ancestrality and mosaicism of giant viruses supporting the definition of the fourth TRUC of microbes. Frontiers in Microbiology, 9(NOV), [2668].

Hu, W., Hua, X., Zhang, Q., Wang, J., Shen, Q., Zhang, X., ... Zhang, J. (2018). New insights into the evolution and functional divergence of the SWEET family in Saccharum based on comparative genomics. BMC Plant Biology, 18(1), [270].

Zhang, J., Zhang, X., Tang, H., Zhang, Q., Hua, X., Ma, X., ... Ming, R. (2018). Allele-defined genome of the autopolyploid sugarcane Saccharum spontaneum L. Nature Genetics, 50(11), 1565-1573.

Wong, M. J., Liao, L. H., & Berenbaum, M. R. (2018). Biphasic concentration-dependent interaction between imidacloprid and dietary phytochemicals in honey bees (Apis mellifera). PloS one, 13(11), [e0206625].

Seong, K. M., Coates, B. S., Berenbaum, M. R., Clark, J. M., & Pittendrigh, B. R. (2018). Comparative CYP‐omic analysis between the DDT‐susceptible and ‐resistant Drosophila melanogaster strains 91‐C and 91‐R. Pest Management Science, 74(11), 2530-2543.

Kurambhatti, C. V., Kumar, D., Rausch, K. D., Tumbleson, M. E., & Singh, V. (2018). Ethanol production from corn fiber separated after liquefaction in the dry grind process. Energies, 11(11), [2921].

Caetano-Anollés, D., Caetano-Anollés, K., & Caetano-Anollés, G. (2018). Evolution of macromolecular structure: a 'double tale' of biological accretion and diversification. Science progress, 101(4), 360-383.

Caetano-Anolles, G., Nasir, A., Kim, K. M., & Caetano-Anollés, D. (2018). Rooting Phylogenies and the Tree of Life While Minimizing Ad Hoc and Auxiliary Assumptions. Evolutionary Bioinformatics, 14.

Calla, B., MacLean, M., Liao, L. H., Dhanjal, I., Tittiger, C., Blomquist, G. J., & Berenbaum, M. R. (2018). Functional characterization of CYP4G11—a highly conserved enzyme in the western honey bee Apis mellifera. Insect Molecular Biology, 27(5), 661-674.

Liu, M., Chowdhary, G., Castra Da Silva, B., Liu, S. Y., & How, J. P. (2018). Gaussian Processes for Learning and Control: A Tutorial with Examples. IEEE Control Systems, 38(5), 53-86. [8467518].

Kayacan, E., Young, S. N., Peschel, J. M., & Chowdhary, G. (2018). High-precision control of tracked field robots in the presence of unknown traction coefficients. Journal of Field Robotics, 35(7), 1050-1062.

Emberson, L. D., Pleijel, H., Ainsworth, E. A., van den Berg, M., Ren, W., Osborne, S., ... Van Dingenen, R. (2018). Ozone effects on crops and consideration in crop models. European Journal of Agronomy, 100, 19-34.

Zhu, P., Jin, Z., Zhuang, Q., Ciais, P., Bernacchi, C., Wang, X., ... Lobell, D. (2018). The important but weakening maize yield benefit of grain filling prolongation in the US Midwest. Global change biology, 24(10), 4718-4730.

Sharma, A., Song, J., Lin, Q., Singh, R., Ramos, N., Wang, K., ... Yu, Q. (2018). Comparative analysis of homologous sequences of saccharum officinarum and saccharum spontaneum reveals independent polyploidization events. Frontiers in Plant Science, 9, [1414].

Koç, I., Yuksel, I., & Caetano-Anollés, G. (2018). Metabolite-centric reporter pathway and tripartite network analysis of Arabidopsis under cold stress. Frontiers in Bioengineering and Biotechnology, 6(SEP), [121].

Deng, Y., Hsiang, T., Li, S., Lin, L., Wang, Q., Chen, Q., ... Ming, R. (2018). Comparison of the mitochondrial genome sequences of six Annulohypoxylon stygium isolates suggests short fragment insertions as a potential factor leading to larger genomic size. Frontiers in Microbiology, 9(SEP), [2079].

Joshi, G., & Chowdhary, G. (2018). Cross-Domain Transfer in Reinforcement Learning Using Target Apprentice. In 2018 IEEE International Conference on Robotics and Automation, ICRA 2018 (pp. 7525-7532). [8462977] (Proceedings - IEEE International Conference on Robotics and Automation). Institute of Electrical and Electronics Engineers Inc..

Maske, H., Kieson, E., Chowdhary, G., & Abramson, C. (2018). Learning Task-Based Instructional Policy for Excavator-Like Robots. In 2018 IEEE International Conference on Robotics and Automation, ICRA 2018 (pp. 1962-1969). [8462923] (Proceedings - IEEE International Conference on Robotics and Automation). Institute of Electrical and Electronics Engineers Inc..

Wadlington, W. H., & Ming, R. R. (2018). Development of an X-specific marker and identification of YY individuals in spinach. Theoretical and Applied Genetics, 131(9), 1987-1994.

Bishop, K. A., Lemonnier, P., Quebedeaux, J. C., Montes, C. M., Leakey, A., & Ainsworth, E. (2018). Similar photosynthetic response to elevated carbon dioxide concentration in species with different phloem loading strategies. Photosynthesis research, 137(3), 453-464.

Quindlen, J. F., Topcu, U., Chowdhary, G., & How, J. P. (2018). Active Sampling for Closed-Loop Statistical Verification of Uncertain Nonlinear Systems. In 2018 Annual American Control Conference, ACC 2018 (pp. 6259-6265). [8431662] (Proceedings of the American Control Conference; Vol. 2018-June). Institute of Electrical and Electronics Engineers Inc..

Quindlen, J. F., Topcu, U., Chowdhary, G., & How, J. P. (2018). Closed-Loop Statistical Verification of Stochastic Nonlinear Systems Subject to Parametric Uncertainties. In 2018 Annual American Control Conference, ACC 2018 (Vol. 2018-June, pp. 5460-5466). [8431742] Institute of Electrical and Electronics Engineers Inc..

Maske, H., Kingravi, H. A., & Chowdhary, G. (2018). Sensor Selection via Observability Analysis in Feature Space. In 2018 Annual American Control Conference, ACC 2018 (pp. 1058-1064). [8431625] (Proceedings of the American Control Conference; Vol. 2018-June). Institute of Electrical and Electronics Engineers Inc..

Johnson, R. M., Harpur, B. A., Dogantzis, K. A., Zayed, A., & Berenbaum, M. R. (2018). Genomic footprint of evolution of eusociality in bees: floral food use and CYPome “blooms”. Insectes Sociaux, 65(3), 445-454.

Staley, J. T., & Caetano-Anolles, G. (2018). Archaea-First and the Co-Evolutionary Diversification of Domains of Life. BioEssays, 40(8), [1800036].

Wang, Z., Dien, B. S., Rausch, K. D., Tumbleson, M. E., & Singh, V. (2018). Fermentation of undetoxified sugarcane bagasse hydrolyzates using a two stage hydrothermal and mechanical refining pretreatment. Bioresource Technology, 261, 313-321.

Mills, G., Sharps, K., Simpson, D., Pleijel, H., Broberg, M., Uddling, J., ... Van Dingenen, R. (2018). Ozone pollution will compromise efforts to increase global wheat production. Global change biology, 24(8), 3560-3574.

Alkhalifah, N., Campbell, D. A., Falcon, C. M., Gardiner, J. M., Miller, N. D., Romay, M. C., ... Lawrence-Dill, C. J. (2018). Maize Genomes to Fields: 2014 and 2015 field season genotype, phenotype, environment, and inbred ear image datasets. BMC Research Notes, 11(1), [452].

Liu, J., Chatham, L., Aryal, R., Yu, Q., & Ming, R. R. (2018). Differential methylation and expression of HUA1 ortholog in three sex types of papaya. Plant Science, 272, 99-106.

Edwards, J. D., Pittelkow, C. M., Kent, A. D., & Yang, W. (2018). Dynamic biochar effects on soil nitrous oxide emissions and underlying microbial processes during the maize growing season. Soil Biology and Biochemistry, 122, 81-90.

Zhu, X., Liang, C., Masters, M. D., Kantola, I. B., & Delucia, E. H. (2018). The impacts of four potential bioenergy crops on soil carbon dynamics as shown by biomarker analyses and DRIFT spectroscopy. GCB Bioenergy, 10(7), 489-500.

Varala, K., Marshall-Colón, A., Cirrone, J., Brooks, M. D., Pasquino, A. V., Léran, S., ... Coruzzi, G. M. (2018). Temporal transcriptional logic of dynamic regulatory networks underlying nitrogen signaling and use in plants. Proceedings of the National Academy of Sciences of the United States of America, 115(25), 6494-6499.

Berenbaum, M. R. (2018). Cinema-tick experience. American Entomologist, 64(2), 67-70.

Wu, J., Wang, Y., Xu, J., Korban, S. S., Fei, Z., Tao, S., ... Zhang, S. (2018). Diversification and independent domestication of Asian and European pears. Genome biology, 19(1), [77].

Beerling, D. J., Leake, J. R., Long, S. P., Scholes, J. D., Ton, J., Nelson, P. N., ... Hansen, J. (2018). Erratum: Farming with crops and rocks to address global climate, food and soil security (Nature Plants (2018), DOI: 10.1038/s41477-018-0108-y). Nature Plants, 4(6).

Demkovich, M. R., Siegel, J. P., Walse, S. S., & Berenbaum, M. R. (2018). Impact of agricultural adjuvants on the toxicity of the diamide insecticides chlorantraniliprole and flubendiamide on different life stages of the navel orangeworm (Amyelois transitella). Journal of Pest Science, 91(3), 1127-1136.

Kolbe, A. R., Brutnell, T. P., Cousins, A. B., & Studer, A. J. (2018). Carbonic anhydrase mutants in zea mays have altered stomatal responses to environmental signals. Plant physiology, 177(3), 980-989.

Caetano-Anollés, K., Caetano-Anollés, D., Nasir, A., Kim, K. M., & Caetano-Anolles, G. (2018). Order and polarity in character state transformation models that root the tree of life. Biochimie, 149, 135-136.

Ainsworth, E., & Lemonnier, P. (2018). Phloem function: a key to understanding and manipulating plant responses to rising atmospheric [CO2]? Current opinion in plant biology, 43, 50-56.

Kirpich, A., Ainsworth, E. A., Wedow, J. M., Newman, J. R. B., Michailidis, G., & McIntyre, L. M. (2018). Variable selection in omics data: A practical evaluation of small sample sizes. PloS one, 13(6), [e0197910].

Christensen, A. J., Srinivasan, V., Hart, J. C., & Marshall-Colon, A. (2018). Use of computational modeling combined with advanced visualization to develop strategies for the design of crop ideotypes to address food security. Nutrition reviews, 76(5), 332-347.

Kumar, D., Juneja, A., & Singh, V. (2018). Fermentation technology to improve productivity in dry grind corn process for bioethanol production. Fuel Processing Technology, 173, 66-74.

Somavat, P., Kumar, D., & Singh, V. (2018). Techno-economic feasibility analysis of blue and purple corn processing for anthocyanin extraction and ethanol production using modified dry grind process. Industrial Crops and Products, 115, 78-87.

De Souza, A. P., & Long, S. P. (2018). Toward improving photosynthesis in cassava: Characterizing photosynthetic limitations in four current African cultivars. Food and Energy Security, 7(2), [e00130].

Petronikolou, N., Hollatz, A. J., Schuler, M. A., & Nair, S. K. (2018). Loganic Acid Methyltransferase: Insights into the Specificity of Methylation on an Iridoid Glycoside. ChemBioChem, 19(8), 784-788.

Wolz, K. J., Branham, B. E., & Delucia, E. H. (2018). Reduced nitrogen losses after conversion of row crop agriculture to alley cropping with mixed fruit and nut trees. Agriculture, Ecosystems and Environment, 258, 172-181.

Berenbaum, M. (2018). Damselflies in Distress. American Entomologist, 64(1), 3-6.

Meng, Z., Hu, X., Zhang, Z., Li, Z., Lin, Q., Yang, M., ... Wang, K. (2018). Chromosome Nomenclature and Cytological Characterization of Sacred Lotus. Cytogenetic and Genome Research, 153(4), 223-231.

Beerling, D. J., Leake, J. R., Long, S. P., Scholes, J. D., Ton, J., Nelson, P. N., ... Hansen, J. (2018). Farming with crops and rocks to address global climate, food and soil security /631/449 /706/1143 /704/47 /704/106 perspective. Nature Plants, 4(3), 138-147.

Wang, Z., Sharma, V., Dien, B. S., & Singh, V. (2018). High-conversion hydrolysates and corn sweetener production in dry-grind corn process: Cereal Chemistry, 95(2), 302-311.

Whitaker, J., Field, J. L., Bernacchi, C. J., Cerri, C. E. P., Ceulemans, R., Davies, C. A., ... McNamara, N. P. (2018). Consensus, uncertainties and challenges for perennial bioenergy crops and land use. GCB Bioenergy, 10(3), 150-164.

Wolz, K. J., Lovell, S. T., Branham, B. E., Eddy, W. C., Keeley, K., Revord, R. S., ... Delucia, E. H. (2018). Frontiers in alley cropping: Transformative solutions for temperate agriculture. Global change biology, 24(3), 883-894.

Gomez-Casanovas, N., Delucia, N. J., Bernacchi, C., Boughton, E. H., Sparks, J. P., Chamberlain, S. D., & Delucia, E. H. (2018). Grazing alters net ecosystem C fluxes and the global warming potential of a subtropical pasture. Ecological Applications, 28(2), 557-572.

Kumar, D., Long, S. P., & Singh, V. (2018). Biorefinery for combined production of jet fuel and ethanol from lipid-producing sugarcane: a techno-economic evaluation. GCB Bioenergy, 10(2), 92-107.

Banan, D., Paul, R. E., Feldman, M. J., Holmes, M. W., Schlake, H., Baxter, I., ... Leakey, A. D. B. (2018). High-fidelity detection of crop biomass quantitative trait loci from low-cost imaging in the field. Plant Direct, 2(2), [e00041].

Jin, Z., Ainsworth, E., Leakey, A., & Lobell, D. B. (2018). Increasing drought and diminishing benefits of elevated carbon dioxide for soybean yields across the US Midwest. Global change biology, 24(2), e522-e533.

Walker, B. J., Drewry, D. T., Slattery, R. A., VanLoocke, A., Cho, Y. B., & Ort, D. R. (2018). Chlorophyll can be reduced in crop canopies with little penalty to photosynthesis. Plant physiology, 176(2), 1215-1232.

Miao, G., Guan, K., Yang, X., Bernacchi, C. J., Berry, J. A., DeLucia, E. H., ... Masters, M. D. (2018). Sun-Induced Chlorophyll Fluorescence, Photosynthesis, and Light Use Efficiency of a Soybean Field from Seasonally Continuous Measurements. Journal of Geophysical Research: Biogeosciences, 123(2), 610-623.

Slattery, R. A., Walker, B. J., Weber, A. P. M., & Ort, D. R. (2018). The impacts of fluctuating light on crop performance. Plant physiology, 176(2), 990-1003.

Wolz, K. J., & Delucia, E. H. (2018). Alley cropping: Global patterns of species composition and function. Agriculture, Ecosystems and Environment, 252, 61-68.

Bender, K. W., Zielinski, R. E., & Huber, S. C. (2018). Revisiting paradigms of Ca2+ signaling protein kinase regulation in plants. Biochemical Journal, 475(1), 207-223.

Berenbaum, M. R. (2018). Preface: Valedictory from a Gadfly Grammarian. Annual Review of Entomology, 63, v-ix.

Liu, J., Sharma, A., Niewiara, M. J., Singh, R., Ming, R. R., & Yu, Q. (2018). Papain-like cysteine proteases in Carica papaya: Lineage-specific gene duplication and expansion. BMC genomics, 19(1), [26].

Quindlen, J. F., Topcu, U., Chowdhary, G., & How, J. P. (2018). Active sampling-based binary verification of dynamical systems. In AIAA Guidance, Navigation, and Control (210039 ed.). (AIAA Guidance, Navigation, and Control Conference, 2018; No. 210039). American Institute of Aeronautics and Astronautics Inc, AIAA.

Kolbe, A. R., Studer, A. J., & Cousins, A. B. (2018). Biochemical and transcriptomic analysis of maize diversity to elucidate drivers of leaf carbon isotope composition. Functional Plant Biology, 45(5), 489-500.

Kim, S. M., Lee, D., Thapa, S., Dien, B. S., Tumbleson, M. E., Rausch, K. D., & Singh, V. (2018). Cellulosic ethanol potential of feedstocks grown on marginal lands. Transactions of the ASABE, 61(6), 1775-1782.

Ramchandran, D., Hojilla-Evangelista, M. P., Moose, S. P., Rausch, K. D., Tumbleson, M. E., & Singh, V. (Accepted/In press). Changes in Corn Protein Content During Storage and Their Relationship with Dry Grind Ethanol Production. JAOCS, Journal of the American Oil Chemists' Society.

Caddell, D. F., Wei, T., Sharma, S., Oh, M. H., Park, C. J., Canlas, P., ... Ronald, P. C. (2018). 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(12), [e6074].

Orozco-Arias, S., Liu, J., Tabares-Soto, R., Ceballos, D., Domingues, D. S., Garavito, A., ... Guyot, R. (2018). Inpactor, integrated and parallel analyzer and classifier of LTR retrotransposons and ITS application for pineapple LTR retrotransposons diversity and dynamics. Biology, 7(2), [32].

Larson, T. H., Balikian, R. J., Ruiz-Vera, U., & Ort, D. R. (2018). In-situ cassava root size measurement using ground penetrating radar (GPR). Proceedings of the Symposium on the Application of Geophyics to Engineering and Environmental Problems, SAGEEP, 2018-March.

Twohey, R. J., Roberts, L. M., & Studer, A. J. (Accepted/In press). Leaf stable carbon isotope composition reflects transpiration efficiency in Zea mays. Plant Journal.

Berenbaum, M. R. (2018). Reality bites. American Entomologist, 64(3), 134-137.

Shamshiri, R. R., Weltzien, C., Hameed, I. A., Yule, I. J., Grift, T. E., Balasundram, S. K., ... Chowdhary, G. (2018). Research and development in agricultural robotics: A perspective of digital farming. International Journal of Agricultural and Biological Engineering, 11(4), 1-14.

Pattanaik, A., Tang, Z., Liu, S., Bommannan, G., & Chowdhary, G. (2018). Robust Deep Reinforcement Learning with adversarial attacks. In 17th International Conference on Autonomous Agents and Multiagent Systems, AAMAS 2018 (Vol. 3, pp. 2040-2042). International Foundation for Autonomous Agents and Multiagent Systems (IFAAMAS).

Shamshiri, R. R., Hameed, I. A., Pitonakova, L., Weltzien, C., Balasundram, S. K., Yule, I. J., ... Chowdhary, G. (2018). Simulation software and virtual environments for acceleration of agricultural robotics: Features highlights and performance comparison. International Journal of Agricultural and Biological Engineering, 11(4), 15-31.

Berenbaum, M. R. (2018). The superposition principle. American Entomologist, 64(4), 204-206.

LeBauer, D. S., Kooper, R., Mulrooney, P., Rohde, S., Wang, D., Long, S. P., & Dietze, M. C. (2018). BETYdb: a yield, trait, and ecosystem service database applied to second-generation bioenergy feedstock production. GCB Bioenergy, 10(1), 61-71.

Gomez-Casanovas, N., DeLucia, N. J., Hudiburg, T. W., Bernacchi, C., & Delucia, E. H. (2018). Conversion of grazed pastures to energy cane as a biofuel feedstock alters the emission of GHGs from soils in Southeastern United States. Biomass and Bioenergy, 108, 312-322.