Research Output

2015

Is there potential to adapt soybean (Glycine max Merr.) to future [CO2]? An analysis of the yield response of 18 genotypes in free-air CO2 enrichment

Bishop, K. A., Betzelberger, A. M., Long, S. P. & Ainsworth, E. A., Sep 1 2015, In : Plant, Cell and Environment. 38, 9, p. 1765-1774 10 p.

Research output: Contribution to journalArticle

Late-Holocene climate variability and ecosystem responses in Alaska inferred from high-resolution multiproxy sediment analyses at Grizzly Lake

Tinner, W., Beer, R., Bigler, C., Clegg, B. F., Jones, R. T., Kaltenrieder, P., van Raden, U. J., Gilli, A. & Hu, F. S., Oct 15 2015, In : Quaternary Science Reviews. 126, p. 41-56 16 p.

Research output: Contribution to journalArticle

Long-term nitrogen addition causes the evolution of less-cooperative mutualists

Weese, D. J., Heath, K. D., Dentinger, B. T. M. & Lau, J. A., Mar 1 2015, In : Evolution. 69, 3, p. 631-642 12 p.

Research output: Contribution to journalArticle

Mechanism of resistance acquisition and potential associated fitness costs in Amyelois transitella (Lepidoptera: Pyralidae) exposed to pyrethroid insecticides

Demkovich, M., Siegel, J. P., Higbee, B. S. & Berenbaum, M. R., Jun 1 2015, In : Environmental entomology. 44, 3, p. 855-863 9 p.

Research output: Contribution to journalArticle

Meeting the global food demand of the future by engineering crop photosynthesis and yield potential

Long, S. P., Marshall-Colon, A. & Zhu, X. G., Mar 26 2015, In : Cell. 161, 1, p. 56-66 11 p., 8102.

Research output: Contribution to journalReview article

Microbially mediated nitrogen retention and loss in a salt marsh soil http://www.esajournals.org/doi/pdf/10.1890/ES14-00179.1

Yang, W. H., Traut, B. H. & Silver, W. L., Jan 1 2015, In : Ecosphere. 6, 1, 7.

Research output: Contribution to journalArticle

Molecular phylogeography and ecological niche modelling of a widespread herbaceous climber, Tetrastigma hemsleyanum (Vitaceae): Insights into Plio-Pleistocene range dynamics of evergreen forest in subtropical China

Wang, Y. H., Jiang, W. M., Comes, H. P., Hu, F. S., Qiu, Y. X. & Fu, C. X., Apr 1 2015, In : New Phytologist. 206, 2, p. 852-867 16 p.

Research output: Contribution to journalArticle

Origin and domestication of papaya Yh chromosome

VanBuren, R., Zeng, F., Chen, C., Zhang, J., Wai, C. M., Han, J., Aryal, R., Gschwend, A. R., Wang, J., Na, J. K., Huang, L., Zhang, L., Miao, W., Gou, J., Arro, J., Guyot, R., Moore, R. C., Wang, M. L., Zee, F., Charlesworth, D. & 3 others, Moore, P. H., Yu, Q. & Ming, R., Apr 1 2015, In : Genome Research. 25, 4, p. 524-533 10 p.

Research output: Contribution to journalArticle

P450s in plants, insects, and their fungal pathogens

Schuler, M. A., Jan 1 2015, Cytochrome P450: Structure, Mechanism, and Biochemistry, Fourth Edition. Springer International Publishing, p. 409-449 41 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

PASTA: Ultra-large multiple sequence alignment for nucleotide and amino-acid sequences

Mirarab, S., Nguyen, N., Guo, S., Wang, L. S., Kim, J. & Warnow, T., May 1 2015, In : Journal of Computational Biology. 22, 5, p. 377-386 10 p.

Research output: Contribution to journalArticle

Patterns of Genetic Diversity in the Globally Invasive Species Wild Parsnip (Pastinaca sativa)

Jogesh, T., Peery, R., Downie, S. R. & Berenbaum, M. R., Oct 1 2015, In : Invasive Plant Science and Management. 8, 4, p. 415-429 15 p.

Research output: Contribution to journalArticle

Pharaoh's Dream Revisited: An Integrated US Midwest Field Research Network for Climate Adaptation

Gustafson, D., Hayes, M., Janssen, E., Lobell, D. B., Long, S., Nelson, G. C., Pakrasi, H. B., Raven, P., Robertson, G. P., Robertson, R. & Wuebbles, D., Dec 30 2015, In : BioScience. 66, 1, p. 80-85 6 p.

Research output: Contribution to journalArticle

Photosynthetic energy conversion efficiency: Setting a baseline for gauging future improvements in important food and biofuel crops

Slattery, R. A. & Ort, D. R., 2015, In : Plant physiology. 168, 2, p. 383-392 10 p.

Research output: Contribution to journalArticle

Photosynthetic terpene hydrocarbon production for fuels and chemicals

Wang, X., Ort, D. R. & Yuan, J. S., Feb 1 2015, In : Plant Biotechnology Journal. 13, 2, p. 137-146 10 p.

Research output: Contribution to journalReview article

Progress towards establishing collection standards for semi-automated pollen classification in forensic geo-historical location applications

Riley, K. C., Woodard, J. P., Hwang, G. M. & Punyasena, S. W., Oct 1 2015, In : Review of Palaeobotany and Palynology. 221, p. 117-127 11 p.

Research output: Contribution to journalArticle

Redesigning photosynthesis to sustainably meet global food and bioenergy demand

Ort, D. R., Merchant, S. S., Alric, J., Barkan, A., Blankenship, R. E., Bock, R., Croce, R., Hanson, M. R., Hibberd, J. M., Long, S. P., Moore, T. A., Moroney, J., Niyogi, K. K., Parry, M. A. J., Peralta-Yahya, P. P., Prince, R. C., Redding, K. E., Spalding, M. H., Van Wijk, K. J., Vermaas, W. F. J. & 5 others, Von Caemmerer, S., Weber, A. P. M., Yeates, T. O., Yuan, J. S. & Zhu, X. G., Jul 14 2015, In : Proceedings of the National Academy of Sciences of the United States of America. 112, 28, p. 8529-8536 8 p.

Research output: Contribution to journalReview article

Response to Comment on "Whole-genome analyses resolve early branches in the tree of life of modern birds"

Cracraft, J., Houde, P., Ho, S. Y. W., Mindell, D. P., Fjeldså, J., Lindow, B., Edwards, S. V., Rahbek, C., Mirarab, S., Warnow, T., Gilbert, M. T. P., Zhang, G., Braun, E. L. & Jarvis, E. D., Sep 25 2015, In : Science. 349, 6255, p. 1460-b

Research output: Contribution to journalComment/debate

Revisiting the Jules Geosol and gastropod paleoecology in last glacial maximum loess, western Illinois

Grimley, D. A., Nash, Jr., T. A., Conroy, J., Wang, H., Miao, X. & Curry, B., 2015, Abstracts with Programs - Geological Society of America. 7 ed. Vol. 47. p. 716

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Road Worrier

Berenbaum, M., Mar 1 2015, In : American Entomologist. 61, 1, p. 5-8 4 p.

Research output: Contribution to journalArticle

Short-termfertilizer application alters phenotypic traits of symbiotic nitrogen fixing bacteria

Simonsen, A. K., Han, S., Rekret, P., Rentschler, C. S., Heath, K. D. & Stinchcombe, J. R., 2015, In : PeerJ. 2015, 10, e1291.

Research output: Contribution to journalArticle

Sisal/agave

Davis, S. C. & Long, S. P., Jan 1 2015, Industrial Crops: Breeding for Bioenergy and Bioproducts. Springer New York, p. 335-349 15 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Spatiotemporal patterns of tundra fires: Late-Quaternary charcoal records from Alaska

Chipman, M. L., Hudspith, V., Higuera, P. E., Duffy, P. A., Kelly, R., Oswald, W. W. & Hu, F. S., Jul 3 2015, In : Biogeosciences. 12, 13, p. 4017-4027 11 p.

Research output: Contribution to journalArticle

Task-related differential expression of four cytochrome P450 genes in honeybee appendages

Mao, W., Schuler, M. A. & Berenbaum, M. R., Oct 1 2015, In : Insect Molecular Biology. 24, 5, p. 582-588 7 p.

Research output: Contribution to journalArticle

Terrestrial ecosystems in a changing environment: A dominant role for water

Bernacchi, C. J. & Vanloocke, A., Apr 29 2015, In : Annual Review of Plant Biology. 66, p. 599-622 24 p.

Research output: Contribution to journalArticle

The butterfly plant arms-race escalated by gene and genome duplications

Edger, P. P., Heidel-Fischer, H. M., Bekaert, M., Rota, J., Glöckner, G., Platts, A. E., Heckel, D. G., Der, J. P., Wafula, E. K., Tang, M., Hofberger, J. A., Smithson, A., Hall, J. C., Blanchette, M., Bureau, T. E., Wright, S. I., DePamphilis, C. W., Schranz, M. E., Barker, M. S., Conant, G. C. & 5 others, Wahlberg, N., Vogel, H., Pires, J. C., Wheat, C. W. & Berenbaum, M. R., Jul 7 2015, In : Proceedings of the National Academy of Sciences of the United States of America. 112, 27, p. 8362-8366 5 p.

Research output: Contribution to journalArticle

The influence of photosynthetic acclimation to rising CO2 and warmer temperatures on leaf and canopy photosynthesis models

Bagley, J., Rosenthal, D. M., Ruiz-Vera, U. M., Siebers, M. H., Kumar, P., Ort, D. R. & Bernacchi, C. J., Feb 2015, In : Global Biogeochemical Cycles. 29, 2, p. 194-206 13 p.

Research output: Contribution to journalArticle

The pineapple genome and the evolution of CAM photosynthesis

Ming, R., VanBuren, R., Wai, C. M., Tang, H., Schatz, M. C., Bowers, J. E., Lyons, E., Wang, M. L., Chen, J., Biggers, E., Zhang, J., Huang, L., Zhang, L., Miao, W., Zhang, J., Ye, Z., Miao, C., Lin, Z., Wang, H., Zhou, H. & 50 others, Yim, W. C., Priest, H. D., Zheng, C., Woodhouse, M., Edger, P. P., Guyot, R., Guo, H. B., Guo, H., Zheng, G., Singh, R., Sharma, A., Min, X., Zheng, Y., Lee, H., Gurtowski, J., Sedlazeck, F. J., Harkess, A., McKain, M. R., Liao, Z., Fang, J., Liu, J., Zhang, X., Zhang, Q., Hu, W., Qin, Y., Wang, K., Chen, L. Y., Shirley, N., Lin, Y. R., Liu, L. Y., Hernandez, A. G., Wright, C. L., Bulone, V., Tuskan, G. A., Heath, K., Zee, F., Moore, P. H., Sunkar, R., Leebens-Mack, J. H., Mockler, T., Bennetzen, J. L., Freeling, M., Sankoff, D., Paterson, A. H., Zhu, X., Yang, X., Smith, J. A. C., Cushman, J. C., Paull, R. E. & Yu, Q., Dec 1 2015, In : Nature Genetics. 47, 12, p. 1435-1442 8 p.

Research output: Contribution to journalArticle

Toward systems-level analysis of agricultural production from crassulacean acid metabolism (CAM): Scaling from cell to commercial production

Davis, S. C., Ming, R. R., LeBauer, D. S. & Long, S. P., Oct 1 2015, In : New Phytologist. 208, 1, p. 66-72 7 p.

Research output: Contribution to journalReview article

Transport of sugars

Chen, L. Q., Cheung, L. S., Feng, L., Tanner, W. & Frommer, W. B., Jun 2 2015, In : Annual review of biochemistry. 84, p. 865-894 30 p.

Research output: Contribution to journalReview article

Tripartite mutualism: facilitation or trade-offs between rhizobial and mycorrhizal symbionts of legume hosts

Ossler, J. N., Zielinski, C. A. & Heath, K. D., Aug 1 2015, In : American journal of botany. 102, 8, p. 1332-1341 10 p.

Research output: Contribution to journalArticle

Ultra-large alignments using phylogeny-aware profiles

Nguyen, N. P. D., Mirarab, S., Kumar, K. & Warnow, T., Jun 16 2015, In : Genome biology. 16, 1, 124.

Research output: Contribution to journalArticle

Ultra oil-producing

Huang, H., Long, S. P. & Singh, V., May 1 2015, International News on Fats, Oils and Related Materials, 26, 5, p. 278-282 5 p.

Research output: Contribution to specialist publicationArticle

Variability in potential to exploit different soil organic phosphorus compounds among tropical montane tree species

Steidinger, B. S., Turner, B. L., Corrales, A. & Dalling, J. W., Jan 1 2015, In : Functional Ecology. 29, 1, p. 121-130 10 p.

Research output: Contribution to journalArticle

Variation in canopy litterfall along a precipitation and soil fertility gradient in a panamanian lower montane forest

Heineman, K. D., Caballero, P., Morris, A., Velasquez, C., Serrano, K., Ramos, N., Gonzalez, J., Mayorga, L., Corre, M. D. & Dalling, J. W., May 1 2015, In : Biotropica. 47, 3, p. 300-309 10 p.

Research output: Contribution to journalArticle

Who'll stomp the rain?

Berenbaum, M. R., Jan 1 2015, In : American Entomologist. 61, 3, p. 133-135 3 p.

Research output: Contribution to journalComment/debate

Xenobiotic detoxification pathways in honey bees

Berenbaum, M. R. & Johnson, R. M., May 16 2015, In : Current Opinion in Insect Science. 10, p. 51-58 8 p.

Research output: Contribution to journalReview article

XX-rated entomologists in the Movies

Berenbaum, M. R., Dec 1 2015, In : American Entomologist. 61, 4, p. 204-206 3 p.

Research output: Contribution to journalArticle

2014

A bacterial tyrosine phosphatase inhibits plant pattern recognition receptor activation

Macho, A. P., Schwessinger, B., Ntoukakis, V., Brutus, A., Segonzac, C., Roy, S., Kadota, Y., Oh, M. H., Sklenar, J., Derbyshire, P., Lozano-Durań, R., Malinovsky, F. G., Monaghan, J., Menke, F. L., Huber, S. C., He, S. Y. & Zipfel, C., Jan 1 2014, In : Science. 343, 6178, p. 1509-1512 4 p.

Research output: Contribution to journalArticle

Accumulation of interspersed and sex-specific repeats in the non-recombining region of papaya sex chromosomes

Na, J. K., Wang, J. & Ming, R., May 4 2014, In : BMC genomics. 15, 1, 335.

Research output: Contribution to journalArticle

Accuracy and consistency of grass pollen identification by human analysts using electron micrographs of surface ornamentation

Mander, L., Baker, S. J., Belcher, C. M., Haselhorst, D. S., Rodriguez, J., Thorn, J. L., Tiwari, S., Urrego, D. H., Wesseln, C. J. & Punyasena, S. W., Aug 2014, In : Applications in Plant Sciences. 2, 8, 1400031.

Research output: Contribution to journalArticle

A footprint of past climate change on the diversity and population structure of Miscanthus sinensis

Clark, L. V., Brummer, J. E., Głowacka, K., Hall, M. C., Heo, K., Peng, J., Yamada, T., Yoo, J. H., Yu, C. Y., Zhao, H., Long, S. P. & Sacks, E. J., Jul 2014, In : Annals of botany. 114, 1, p. 97-107 11 p.

Research output: Contribution to journalArticle

A mean field model for competition: From neutral ecology to the Red Queen

O'Dwyer, J. P. & Chisholm, R., Aug 2014, In : Ecology Letters. 17, 8, p. 961-969 9 p.

Research output: Contribution to journalArticle

Amplify the signal: Graduate training in broader impacts of scientific research

Heath, K. D., Bagley, E., Berkey, A. J. M., Birlenbach, D. M., Carr-Markell, M. K., Crawford, J. W., Duennes, M. A., Han, J. O., Haus, M. J., Hellert, S. M., Holmes, C. J., Mommer, B. C., Ossler, J., Peery, R., Powers, L., Scholes, D. R., Silliman, C. A., Stein, L. R. & Wesseln, C. J., Jun 2014, In : BioScience. 64, 6, p. 517-523 7 p.

Research output: Contribution to journalArticle

A neotropical miocene pollen database employing image-based search and semantic modeling

Han, J. G., Cao, H., Barb, A., Punyasena, S. W., Jaramillo, C. & Shyu, C. R., Aug 2014, In : Applications in Plant Sciences. 2, 8, 1400030.

Research output: Contribution to journalArticle

Approaches to advance scientific understanding of macrosystems ecology

Levy, O., Ball, B. A., Bond-Lamberty, B., Cheruvelil, K. S., Finley, A. O., Lottig, N. R., Punyasena, S. W., Xiao, J., Zhou, J., Buckley, L. B., Filstrup, C. T., Keitt, T. H., Kellner, J. R., Knapp, A. K., Richardson, A. D., Tcheng, D., Toomey, M., Vargas, R., Voordeckers, J. W., Wagner, T. & 1 others, Williams, J. W., Feb 2014, In : Frontiers in Ecology and the Environment. 12, 1, p. 15-23 9 p.

Research output: Contribution to journalArticle

BBCA: Improving the scalability of *BEAST using random binning

Zimmermann, T., Mirarab, S. & Warnow, T., Oct 17 2014, In : BMC genomics. 15, 6, S11.

Research output: Contribution to journalArticle

Bioinformatic and biometric methods in plant morphology

Punyasena, S. W. & Smith, S. Y., Aug 2014, In : Applications in Plant Sciences. 2, 8, 1400071.

Research output: Contribution to journalArticle