Research Output 1975 2020

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)

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., Dec 1 2018, In : Nature Genetics. 50, 12, 1 p.

Research output: Contribution to journalComment/debate

Saccharum
Alleles
Genome
Molecular Sequence Annotation
Databases

Evolution in a community context: Trait responses to multiple species interactions

Terhorst, C. P., Zee, P. C., Heath, K. D., Miller, T. E., Pastore, A. I., Patel, S., Schreiber, S. J., Wade, M. J. & Walsh, M. R., Mar 2018, In : American Naturalist. 191, 3, p. 368-380 13 p.

Research output: Contribution to journalArticle

genetic correlation
trajectories
trajectory
effect

Farming with crops and rocks to address global climate, food and soil security /631/449 /706/1143 /704/47 /704/106 perspective

Beerling, D. J., Leake, J. R., Long, S. P., Scholes, J. D., Ton, J., Nelson, P. N., Bird, M., Kantzas, E., Taylor, L. L., Sarkar, B., Kelland, M., DeLucia, E., Kantola, I., Müller, C., Rau, G. & Hansen, J., Mar 1 2018, In : Nature Plants. 4, 3, p. 138-147 10 p.

Research output: Contribution to journalArticle

farming systems
rocks
silicates
climate
crops

Fossil pollen and spores in paleoecology

Mander, L. & Punyasena, S. W., Jan 1 2018, Vertebrate Paleobiology and Paleoanthropology. Springer, p. 215-234 20 p. (Vertebrate Paleobiology and Paleoanthropology).

Research output: Chapter in Book/Report/Conference proceedingChapter

paleoecology
spore
pollen
fossils
spores

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

Caddell, D. F., Wei, T., Sharma, S., Oh, M. H., Park, C. J., Canlas, P., Huber, S. C. & Ronald, P. C., Jan 1 2018, In : PeerJ. 2018, 12, e6074.

Research output: Contribution to journalArticle

Xanthomonas
Xanthomonas oryzae pv. oryzae
Tyrosine
tyrosine
rice

Frontiers in alley cropping: Transformative solutions for temperate agriculture

Wolz, K. J., Lovell, S. T., Branham, B. E., Eddy, W. C., Keeley, K., Revord, R. S., Wander, M. M., Yang, W. H. & DeLucia, E. H., Mar 2018, In : Global change biology. 24, 3, p. 883-894 12 p.

Research output: Contribution to journalComment/debate

alley cropping
Agriculture
Crops
Land use
Climate change

Functional characterization of CYP4G11—a highly conserved enzyme in the western honey bee Apis mellifera

Calla, B., MacLean, M., Liao, L. H., Dhanjal, I., Tittiger, C., Blomquist, G. J. & Berenbaum, M. R., Oct 2018, In : Insect Molecular Biology. 27, 5, p. 661-674 14 p.

Research output: Contribution to journalArticle

Desiccation
Honey
Waxes
Bees
desiccation (plant physiology)

Genome-wide searches and molecular analyses highlight the unique evolutionary path of flavone synthase i (FNSI) in Apiaceae

Wang, Q. Z., Downie, S. R., Chen, Z. X. & McIntyre, C. L., Jan 1 2018, In : Genome. 61, 2, p. 103-109 7 p.

Research output: Contribution to journalArticle

flavone
Apiaceae
Genome
Genes

Genomic footprint of evolution of eusociality in bees: floral food use and CYPome “blooms”

Johnson, R. M., Harpur, B. A., Dogantzis, K. A., Zayed, A. & Berenbaum, M. R., Aug 1 2018, In : Insectes Sociaux. 65, 3, p. 445-454 10 p.

Research output: Contribution to journalArticle

eusociality
bee
footprint
Apoidea
genomics

Grazing alters net ecosystem C fluxes and the global warming potential of a subtropical pasture

Gomez-Casanovas, N., Delucia, N. J., Bernacchi, C., Boughton, E. H., Sparks, J. P., Chamberlain, S. D. & Delucia, E. H., Mar 2018, In : Ecological Applications. 28, 2, p. 557-572 16 p.

Research output: Contribution to journalArticle

global warming
pasture
grazing
ecosystem
soil emission

High-fidelity detection of crop biomass quantitative trait loci from low-cost imaging in the field

Banan, D., Paul, R. E., Feldman, M. J., Holmes, M. W., Schlake, H., Baxter, I., Jiang, H. & Leakey, A. D. B., Feb 1 2018, In : Plant Direct. 2, 2, e00041.

Research output: Contribution to journalArticle

Open Access
Quantitative Trait Loci
Biomass
Crops
biomass production
quantitative trait loci

Highstands and overflow history of glacial Lake Chicago and downstream impacts on Gulf of Mexico δ18O values

Curry, B. B., Bruegger, A. R. & Conroy, J., Jul 1 2018, In : Geology. 46, 7, p. 667-670 4 p.

Research output: Contribution to journalArticle

glacial lake
highstand
meltwater
lake
history
Amyelois transitella
adjuvants
insecticides
toxicity
pesticide application

Increasing drought and diminishing benefits of elevated carbon dioxide for soybean yields across the US Midwest

Jin, Z., Ainsworth, E., Leakey, A. & Lobell, D. B., Feb 1 2018, In : Global change biology. 24, 2, p. e522-e533

Research output: Contribution to journalArticle

Drought
Carbon Dioxide
Transpiration
soybean
carbon dioxide

Inpactor, integrated and parallel analyzer and classifier of LTR retrotransposons and ITS application for pineapple LTR retrotransposons diversity and dynamics

Orozco-Arias, S., Liu, J., Tabares-Soto, R., Ceballos, D., Domingues, D. S., Garavito, A., Ming, R. & Guyot, R., Jan 1 2018, In : Biology. 7, 2, 32.

Research output: Contribution to journalArticle

Ananas
Retroelements
terminal repeat sequences
Terminal Repeat Sequences
retrotransposons
cassava
ground penetrating radar
Radar
plots
radar data

Invoking adaptation to decipher the genetic legacy of past climate change

de Lafontaine, G., Napier, J. D., Petit, R. J. & Hu, F. S., Jul 2018, In : Ecology. 99, 7, p. 1530-1546 17 p.

Research output: Contribution to journalArticle

climate change
natural selection
alleles
climate
allele

Last glacial loess deposition in central Illinois abruptly slows at ca. 18,750 cal yr BP in response to the Kankakee Torrent

Curry, B. B., Wang, H., Lowell, T. V., Bates, B., Norris, N. & Conroy, J. L., 2018, p. Paper-No.25-4.

Research output: Contribution to conferencePaper

torrent
Last Glacial
loess
lake
silty clay loam

Last Millennium Meridional Shifts in Hydroclimate in the Central Tropical Pacific

Higley, M. C., Conroy, J. & Schmitt, S., Jan 1 2018, (Accepted/In press) In : Paleoceanography and Paleoclimatology.

Research output: Contribution to journalArticle

Medieval
intertropical convergence zone
anomaly
climate
Little Ice Age

Loganic Acid Methyltransferase: Insights into the Specificity of Methylation on an Iridoid Glycoside

Petronikolou, N., Hollatz, A. J., Schuler, M. A. & Nair, S. K., Apr 16 2018, In : ChemBioChem. 19, 8, p. 784-788 5 p.

Research output: Contribution to journalArticle

Iridoid Glycosides
Methylation
Methyltransferases
Secologanin Tryptamine Alkaloids
Indole Alkaloids

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

charcoal
pollen
sieves
centrifugation
cells

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. R. & Zhang, J., Nov 7 2018, In : BMC Plant Biology. 18, 1, 270.

Research output: Contribution to journalArticle

Saccharum
transporters
sugars
genomics
Saccharum spontaneum

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

photorespiration
Crops
ribulose 1,5-diphosphate
Productivity
Oxygenases

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

crop models
ozone
crop
crops
growth models

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

Ozone
Pollution
wheat
ozone
pollution
Last Glacial
paleoclimate
gastropod
loess
Last Glacial Maximum

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

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

Research output: Contribution to journalArticle

Carica
Gene Duplication
Papain
Cysteine Proteases
Genes

PGD: Pineapple Genomics Database

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

Research output: Contribution to journalArticle

Ananas
Prostaglandins D
pineapples
Genomics
Databases

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

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

Research output: Contribution to journalReview article

phloem
plant response
carbon dioxide
phloem loading
sucrose

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

Photosystem II Protein Complex
crops
Crops
Water
water

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

entomology

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

extinction risk
extinction
Markov chain
environmental effect
species richness

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

Arracacia
Apiaceae
polyphyly
Plastids
plastid

Reality bites

Berenbaum, M. R., 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
Climate Change
Carbon
Lakes
Climate
Atmosphere
nut trees
alley cropping
nut
fruit trees
fruit
Last Glacial Maximum
paleoclimate
quarry
gastropod
loess

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

Protein Kinases
Chemical activation
Calcineurin
Phosphotransferases
Sensors

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

Martin, N. J., Conroy, J., 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

warm season
vapors
Isotopes
El Nino-Southern Oscillation
stable isotopes

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

symbiont
symbionts
genetic variation
pleiotropy
colonization

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. & Ainsworth, E., Sep 1 2018, In : Photosynthesis research. 137, 3, p. 453-464 12 p.

Research output: Contribution to journalArticle

phloem loading
Phloem
Carbon Monoxide
Carbon Dioxide
carbon dioxide

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

Symbiosis
Stability criteria
Ecology
resources
microorganisms

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

light use efficiency
soybeans
photosynthesis
Photosynthesis
chlorophylls

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

Nitrogen
Gene Regulatory Networks
Transcription Factors
Genes
Genome

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

Pinus tabuliformis
refugium
refuge habitats
Postglacial
pollen

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

Light
Photosynthesis
crops
canopy
C4 photosynthesis

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

energy crops
bioenergy
Biomarkers
soil carbon
soil organic carbon

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

maize
food security
Crops
Drought
crop yield

The superposition principle

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

Research output: Contribution to journalArticle

Manihot
cassava
Photosynthesis
Carboxylation
cultivar