Research Output

2018

Nested cell strainers: An alternative method of preparing palynomorphs and charcoal

Urban, M. A., Romero, I. C., Sivaguru, M. & Punyasena, S. W., Jun 2018, In : Review of Palaeobotany and Palynology. 253, p. 101-109 9 p.

Research output: Contribution to journalArticle

New insights into the evolution and functional divergence of the SWEET family in Saccharum based on comparative genomics

Hu, W., Hua, X., Zhang, Q., Wang, J., Shen, Q., Zhang, X., Wang, K., Yu, Q., Lin, Y. R., Ming, R. & Zhang, J., Nov 7 2018, In : BMC Plant Biology. 18, 1, 270.

Research output: Contribution to journalArticle

Optimizing photorespiration for improved crop productivity

South, P. F., Cavanagh, A. P., Lopez-Calcagno, P. E., Raines, C. A. & Ort, D. R., Dec 2018, In : Journal of Integrative Plant Biology. 60, 12, p. 1217-1230 14 p.

Research output: Contribution to journalReview article

Ozone effects on crops and consideration in crop models

Emberson, L. D., Pleijel, H., Ainsworth, E. A., van den Berg, M., Ren, W., Osborne, S., Mills, G., Pandey, D., Dentener, F., Büker, P., Ewert, F., Koeble, R. & Van Dingenen, R., Oct 2018, In : European Journal of Agronomy. 100, p. 19-34 16 p.

Research output: Contribution to journalArticle

Ozone pollution will compromise efforts to increase global wheat production

Mills, G., Sharps, K., Simpson, D., Pleijel, H., Broberg, M., Uddling, J., Jaramillo, F., Davies, W. J., Dentener, F., Van den Berg, M., Agrawal, M., Agrawal, SB., Ainsworth, E. A., Büker, P., Emberson, L., Feng, Z., Harmens, H., Hayes, F., Kobayashi, K., Paoletti, E. & 1 others, Van Dingenen, R., Aug 2018, In : Global change biology. 24, 8, p. 3560-3574 15 p.

Research output: Contribution to journalArticle

Papain-like cysteine proteases in Carica papaya: Lineage-specific gene duplication and expansion

Liu, J., Sharma, A., Niewiara, M. J., Singh, R., Ming, R. & Yu, Q., Jan 6 2018, In : BMC genomics. 19, 1, 26.

Research output: Contribution to journalArticle

PGD: Pineapple Genomics Database

Xu, H., Yu, Q., Shi, Y., Hua, X., Tang, H., Yang, L., Ming, R. & Zhang, J., Dec 1 2018, In : Horticulture Research. 5, 1, 66.

Research output: Contribution to journalArticle

Phloem function: a key to understanding and manipulating plant responses to rising atmospheric [CO2]?

Ainsworth, E. A. & Lemonnier, P., Jun 2018, In : Current opinion in plant biology. 43, p. 50-56 7 p.

Research output: Contribution to journalReview article

Photosystem II Subunit S overexpression increases the efficiency of water use in a field-grown crop

Głowacka, K., Kromdijk, J., Kucera, K., Xie, J., Cavanagh, A. P., Leonelli, L., Leakey, A. D. B., Ort, D. R., Niyogi, K. K. & Long, S. P., Dec 1 2018, In : Nature communications. 9, 1, 868.

Research output: Contribution to journalArticle

Pioneer species

Dalling, J. W., Jan 1 2018, Encyclopedia of Ecology. Elsevier, p. 181-184 4 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Preface: Valedictory from a Gadfly Grammarian

Berenbaum, M. R., Jan 7 2018, In : Annual Review of Entomology. 63, p. v-ix

Research output: Contribution to journalReview article

Quantifying species extinction risk under temporal environmental variance

Fung, T., O'Dwyer, J. P. & Chisholm, R. A., May 2018, In : Ecological Complexity. 34, p. 139-146 8 p.

Research output: Contribution to journalArticle

Rampant polyphyly in the Arracacia clade (Apiaceae) and an assessment of the phylogenetic utility of 20 noncoding plastid loci

Danderson, C. A., Downie, S. R. & Hermann, M., Jan 2018, In : Molecular Phylogenetics and Evolution. 118, p. 286-305 20 p.

Research output: Contribution to journalArticle

Reality bites

Berenbaum, M., Jan 1 2018, In : American Entomologist. 64, 3, p. 134-137 4 p.

Research output: Contribution to journalArticle

Reduced arctic tundra productivity linked with landform and climate change interactions

Lara, M. J., Nitze, I., Grosse, G., Martin, P. & David McGuire, A., Dec 1 2018, In : Scientific Reports. 8, 1, 2345.

Research output: Contribution to journalArticle

Open Access

Revisiting paradigms of Ca2+ signaling protein kinase regulation in plants

Bender, K. W., Zielinski, R. E. & Huber, S. C., Jan 15 2018, In : Biochemical Journal. 475, 1, p. 207-223 17 p.

Research output: Contribution to journalReview article

Seasonal and ENSO Influences on the Stable Isotopic Composition of Galápagos Precipitation

Martin, N. J., Conroy, J. L., Noone, D., Cobb, K. M., Konecky, B. L. & Rea, S., Jan 16 2018, In : Journal of Geophysical Research: Atmospheres. 123, 1, p. 261-275 15 p.

Research output: Contribution to journalArticle

Shared genes but not shared genetic variation: Legume colonization by two belowground symbionts

Ossler, J. N. & Heath, K. D., Mar 2018, In : American Naturalist. 191, 3, p. 395-406 12 p.

Research output: Contribution to journalArticle

Similar photosynthetic response to elevated carbon dioxide concentration in species with different phloem loading strategies

Bishop, K. A., Lemonnier, P., Quebedeaux, J. C., Montes, C. M., Leakey, A. D. B. & Ainsworth, E. A., Sep 1 2018, In : Photosynthesis research. 137, 3, p. 453-464 12 p.

Research output: Contribution to journalArticle

Stability criteria for complex microbial communities

Butler, S. & O’Dwyer, J. P., Dec 1 2018, In : Nature communications. 9, 1, 2970.

Research output: Contribution to journalArticle

Sun-Induced Chlorophyll Fluorescence, Photosynthesis, and Light Use Efficiency of a Soybean Field from Seasonally Continuous Measurements

Miao, G., Guan, K., Yang, X., Bernacchi, C. J., Berry, J. A., DeLucia, E. H., Wu, J., Moore, C. E., Meacham, K., Cai, Y., Peng, B., Kimm, H. & Masters, M. D., Feb 2018, In : Journal of Geophysical Research: Biogeosciences. 123, 2, p. 610-623 14 p.

Research output: Contribution to journalArticle

Temporal transcriptional logic of dynamic regulatory networks underlying nitrogen signaling and use in plants

Varala, K., Marshall-Colón, A., Cirrone, J., Brooks, M. D., Pasquino, A. V., Léran, S., Mittal, S., Rock, T. M., Edwards, M. B., Kim, G. J., Ruffel, S., Richard McCombie, W., Shasha, D. & Coruzzi, G. M., Jun 19 2018, In : Proceedings of the National Academy of Sciences of the United States of America. 115, 25, p. 6494-6499 6 p.

Research output: Contribution to journalArticle

The critical role of local refugia in postglacial colonization of Chinese pine: joint inferences from DNA analyses, pollen records, and species distribution modeling

Hao, Q., de Lafontaine, G., Guo, D., Gu, H., Hu, F. S., Han, Y., Song, Z. & Liu, H., Apr 2018, In : Ecography. 41, 4, p. 592-606 15 p.

Research output: Contribution to journalArticle

The impacts of fluctuating light on crop performance

Slattery, R. A., Walker, B. J., Weber, A. P. M. & Ort, D. R., Feb 2018, In : Plant physiology. 176, 2, p. 990-1003 14 p.

Research output: Contribution to journalArticle

The impacts of four potential bioenergy crops on soil carbon dynamics as shown by biomarker analyses and DRIFT spectroscopy

Zhu, X., Liang, C., Masters, M. D., Kantola, I. B. & DeLucia, E. H., Jul 2018, In : GCB Bioenergy. 10, 7, p. 489-500 12 p.

Research output: Contribution to journalArticle

The important but weakening maize yield benefit of grain filling prolongation in the US Midwest

Zhu, P., Jin, Z., Zhuang, Q., Ciais, P., Bernacchi, C., Wang, X., Makowski, D. & Lobell, D., Oct 2018, In : Global change biology. 24, 10, p. 4718-4730 13 p.

Research output: Contribution to journalArticle

The superposition principle

Berenbaum, M., Jan 1 2018, In : American Entomologist. 64, 4, p. 204-206 3 p.

Research output: Contribution to journalArticle

Transcriptomic analysis of transgressive segregants revealed the central role of photosynthetic capacity and efficiency in biomass accumulation in sugarcane

Singh, R., Jones, T., Wai, C. M., Jifon, J., Nagai, C., Ming, R. & Yu, Q., Dec 1 2018, In : Scientific reports. 8, 1, 4415.

Research output: Contribution to journalArticle

Translucent windows: how uncertainty in competitive interactions impacts detection of community pattern

D'Andrea, R., Ostling, A. & O'Dwyer, J. P., Jun 2018, In : Ecology Letters. 21, 6, p. 826-835 10 p.

Research output: Contribution to journalLetter

Try Tri again? Resolving species boundaries in the Lomatium triternatum (Apiaceae) complex

Smith, J. F., Mansfield, D. H., Stevens, M., Sosa, E., Feist, M. A. E., Downie, S. R., Plunkett, G. M. & Darrach, M., May 2018, In : Journal of Systematics and Evolution. 56, 3, p. 218-230 13 p.

Research output: Contribution to journalArticle

Tundra landform and vegetation productivity trend maps for the arctic coastal plain of Northern Alaska

Lara, M. J., Nitze, I., Grosse, G. & David McGuire, A., Apr 10 2018, In : Scientific Data. 5, 180058.

Research output: Contribution to journalArticle

Open Access

Using phylogenetic analysis to investigate Eukaryotic gene origin

Zhang, D., Kan, X., Huss, S. E., Jiang, L., Chen, L. Q. & Hu, Y., Aug 14 2018, In : Journal of Visualized Experiments. 2018, 138, e56684.

Research output: Contribution to journalArticle

Variable selection in omics data: A practical evaluation of small sample sizes

Kirpich, A., Ainsworth, E. A., Wedow, J. M., Newman, J. R. B., Michailidis, G. & McIntyre, L. M., Jun 2018, In : PloS one. 13, 6, e0197910.

Research output: Contribution to journalArticle

Whence Lotka-Volterra? Conservation laws and integrable systems in ecology

O’Dwyer, J. P., Dec 1 2018, In : Theoretical Ecology. 11, 4, p. 441-452 12 p.

Research output: Contribution to journalArticle

Wood decomposition in aquatic and terrestrial ecosystems in the tropics: Contrasting biotic and abiotic processes

Jones, J. M., Heath, K. D., Ferrer, A., Brown, S. P., Canam, T. & Dalling, J. W., Nov 18 2018, In : FEMS microbiology ecology. 95, 1, fiy223.

Research output: Contribution to journalArticle

2019

A Comparative Analysis of Anthropogenic CO2 Emissions at City Level Using OCO-2 Observations: A Global Perspective

Fu, P., Xie, Y., Moore, C. E., Myint, S. W. & Bernacchi, C. J., Sep 1 2019, In : Earth's Future. 7, 9, p. 1058-1070 13 p.

Research output: Contribution to journalArticle

Open Access

A comparative analysis of complete plastid genomes from Prangos fedtschenkoi and Prangos lipskyi (Apiaceae)

Mustafina, F. U., Yi, D. K., Choi, K., Shin, C. H., Tojibaev, K. S. & Downie, S. R., Jan 2019, In : Ecology and Evolution. 9, 1, p. 364-377 14 p.

Research output: Contribution to journalArticle

Alder distribution and expansion across a tundra hillslope: implications for local N cycling

Salmon, V. G., Breen, A. L., Kumar, J., Lara, M. J., Thornton, P. E., Wullschleger, S. D. & Iversen, C. M., Oct 16 2019, In : Frontiers in Plant Science. 10

Research output: Contribution to journalArticle

Open Access

Ammonia flux measurements above a corn canopy using relaxed eddy accumulation and a flux gradient system

Nelson, A. J., Lichiheb, N., Koloutsou-Vakakis, S., Rood, M. J., Heuer, M., Myles, L. T., Joo, E., Miller, J. & Bernacchi, C., Jan 15 2019, In : Agricultural and Forest Meteorology. 264, p. 104-113 10 p.

Research output: Contribution to journalArticle

Analysis of genetic diversity of lychee (Litchi chinensis Sonn.) and wild forest relatives in the Sapindaceae from Vietnam using microsatellites

Tran, H., Kanzaki, S., Triest, L., Hormaza, I., Kuk, N. J., Ming, R., Bousquet, J., Khasa, D. & Van Damme, P., Dec 1 2019, In : Genetic Resources and Crop Evolution. 66, 8, p. 1653-1669 17 p.

Research output: Contribution to journalArticle

A physical model-based method for retrieving urban land surface temperatures under cloudy conditions

Fu, P., Xie, Y., Weng, Q., Myint, S., Meacham-Hensold, K. & Bernacchi, C., Sep 1 2019, In : Remote Sensing of Environment. 230, 111191.

Research output: Contribution to journalArticle

Are we approaching a water ceiling to maize yields in the United States?

Delucia, E. H., Chen, S., Guan, K., Peng, B., Li, Y., Gomez-Casanovas, N., Kantola, I. B., Bernacchi, C., Huang, Y., Long, S. P. & Ort, D. R., Jun 18 2019, In : Ecosphere. 10, 6, e02773.

Research output: Contribution to journalArticle

Open Access

Assembling and analysis of sanicula orthacantha chloroplast genome

Chen, Z., Yao, X., Downie, S. R. & Wang, Q., Apr 2019, In : Biodiversity Science. 27, 4, p. 366-372 7 p.

Research output: Contribution to journalArticle

Assembly of allele-aware, chromosomal-scale autopolyploid genomes based on Hi-C data

Zhang, X., Zhang, S., Zhao, Q., Ming, R. & Tang, H., Aug 1 2019, In : Nature plants. 5, 8, p. 833-845 13 p.

Research output: Contribution to journalArticle

Assembly of the 373k gene space of the polyploid sugarcane genome reveals reservoirs of functional diversity in the world's leading biomass crop

Souza, G. M., Van Sluys, M. A., Lembke, C. G., Lee, H., Margarido, G. R. A., Hotta, C. T., Gaiarsa, J. W., Diniz, A. L., Oliveira, M. D. M., Ferreira, S. D. S., Nishiyama, M. Y., Ten-Caten, F., Ragagnin, G. T., Andrade, P. D. M., De Souza, R. F., Nicastro, G. G., Pandya, R., Kim, C., Guo, H., Durham, A. M. & 9 others, Carneiro, M. S., Zhang, J., Zhang, X., Zhang, Q., Ming, R., Schatz, M. C., Davidson, B., Paterson, A. H. & Heckerman, D., Dec 6 2019, In : GigaScience. 8, 12, giz129.

Research output: Contribution to journalArticle

Open Access