Research Output

2020

A Select and Resequence Approach Reveals Strain-Specific Effects of Medicago Nodule-Specific PLAT-Domain Genes

Burghardt, L. T., Trujillo, D. I., Epstein, B., Tiffin, P. & Young, N. D., Jan 1 2020, In : Plant physiology. 182, 1, p. 463-471 9 p.

Research output: Contribution to journalArticle

Open Access

Author Correction: Widespread long-range cis-regulatory elements in the maize genome (Nature Plants, (2019), 5, 12, (1237-1249), 10.1038/s41477-019-0547-0)

Ricci, W. A., Lu, Z., Ji, L., Marand, A. P., Ethridge, C. L., Murphy, N. G., Noshay, J. M., Galli, M., Mejía-Guerra, M. K., Colomé-Tatché, M., Johannes, F., Rowley, M. J., Corces, V. G., Zhai, J., Scanlon, M. J., Buckler, E. S., Gallavotti, A., Springer, N. M., Schmitz, R. J. & Zhang, X., Mar 1 2020, In : Nature plants. 6, 3, 1 p.

Research output: Contribution to journalComment/debate

Open Access

Carbon and nitrogen recycling during cyanoHABs in dreissenid-invaded and non-invaded US midwestern lakes and reservoirs

Hamilton, T. L., Corman, J. R. & Havig, J. R., Feb 1 2020, In : Hydrobiologia. 847, 3, p. 939-965 27 p.

Research output: Contribution to journalArticle

Open Access

Context dependence of local adaptation to abiotic and biotic environments: A quantitative and qualitative synthesis

Runquist, R. D. B., Gorton, A. J., Yoder, J. B., Deacon, N. J., Grossman, J. J., Kothari, S., Lyons, M. P., Sheth, S. N., Tiffin, P. & Moeller, D. A., Mar 1 2020, In : American Naturalist. 195, 3, p. 412-431 20 p.

Research output: Contribution to journalArticle

Decelerated carbon cycling by ectomycorrhizal fungi is controlled by substrate quality and community composition

Fernandez, C. W., See, C. R. & Kennedy, P. G., Apr 1 2020, In : New Phytologist. 226, 2, p. 569-582 14 p.

Research output: Contribution to journalArticle

1 Scopus citations

Functional convergence in the decomposition of fungal necromass in soil and wood

Maillard, F., Schilling, J., Andrews, E., Schreiner, K. M. & Kennedy, P., Feb 1 2020, In : FEMS microbiology ecology. 96, 2

Research output: Contribution to journalArticle

Fungal functional ecology: bringing a trait-based approach to plant-associated fungi

Zanne, A. E., Abarenkov, K., Afkhami, M. E., Aguilar-Trigueros, C. A., Bates, S., Bhatnagar, J. M., Busby, P. E., Christian, N., Cornwell, W. K., Crowther, T. W., Flores-Moreno, H., Floudas, D., Gazis, R., Hibbett, D., Kennedy, P., Lindner, D. L., Maynard, D. S., Milo, A. M., Nilsson, R. H., Powell, J. & 3 others, Schildhauer, M., Schilling, J. & Treseder, K. K., Apr 1 2020, In : Biological Reviews. 95, 2, p. 409-433 25 p.

Research output: Contribution to journalArticle

1 Scopus citations

Gene Expression Modularity Reveals Footprints of Polygenic Adaptation in Theobroma cacao

Hämälä, T., Guiltinan, M. J., Marden, J. H., Maximova, S. N., Depamphilis, C. W. & Tiffin, P., Jan 1 2020, In : Molecular biology and evolution. 37, 1, p. 110-123 14 p.

Research output: Contribution to journalArticle

Inorganic carbon addition stimulates snow algae primary productivity

Hamilton, T. L. & Havig, J. R., Mar 1 2020, In : ISME Journal. 14, 3, p. 857-860 4 p.

Research output: Contribution to journalArticle

3 Scopus citations

Interactions between soil properties, fungal communities, the soybean cyst nematode, and crop yield under continuous corn and soybean monoculture

Strom, N., Hu, W., Haarith, D., Chen, S. & Bushley, K., Mar 2020, In : Applied Soil Ecology. 147, 103388.

Research output: Contribution to journalArticle

Open Access

The pseudoomphalina kalchbrenneri complex in north America

Voitk, A., Saar, I., Lebeuf, R. & Kennedy, P., Jan 1 2020, In : Botany. 98, 2, p. 91-101 11 p.

Research output: Contribution to journalArticle

Variation and Inheritance of Small RNAs in Maize Inbreds and F1 Hybrids

Crisp, P. A., Hammond, R., Zhou, P., Vaillancourt, B., Lipzen, A., Daum, C., Barry, K., de Leon, N., Buell, C. R., Kaeppler, S. M., Meyers, B. C., Hirsch, C. N. & Springer, N. M., Jan 1 2020, In : Plant physiology. 182, 1, p. 318-331 14 p.

Research output: Contribution to journalArticle

Open Access

Widely distributed variation in tolerance to Phytophthora palmivora in four genetic groups of cacao

Fister, A. S., Leandro-Muñoz, M. E., Zhang, D., Marden, J. H., Tiffin, P., dePamphilis, C., Maximova, S. & Guiltinan, M. J., Feb 1 2020, In : Tree Genetics and Genomes. 16, 1, 1.

Research output: Contribution to journalArticle

2019

A genome-wide algal mutant library and functional screen identifies genes required for eukaryotic photosynthesis

Li, X., Patena, W., Fauser, F., Jinkerson, R. E., Saroussi, S., Meyer, M. T., Ivanova, N., Robertson, J. M., Yue, R., Zhang, R., Vilarrasa-Blasi, J., Wittkopp, T. M., Ramundo, S., Blum, S. R., Goh, A., Laudon, M., Srikumar, T., Lefebvre, P. A., Grossman, A. R. & Jonikas, M. C., Apr 1 2019, In : Nature Genetics. 51, 4, p. 627-635 9 p.

Research output: Contribution to journalLetter

10 Scopus citations

Anoxygenic phototrophs span geochemical gradients and diverse morphologies in terrestrial geothermal springs

Hamilton, T. L., Bennett, A. C., Murugapiran, S. K. & Havig, J. R., Jan 1 2019, In : mSystems. 4, 6, e00498.

Research output: Contribution to journalArticle

Open Access

Biotic interactions contribute to the geographic range limit of an annual plant: Herbivory and phenology mediate fitness beyond a range margin

Benning, J. W., Eckhart, V. M., Geber, M. A. & Moeller, D. A., Jun 1 2019, In : American Naturalist. 193, 6, p. 786-797 12 p.

Research output: Contribution to journalArticle

4 Scopus citations

BRASSINOSTEROID-SIGNALING KINASE 3, a plasma membrane-associated scaffold protein involved in early brassinosteroid signaling

Ren, H., Willige, B. C., Jaillais, Y., Geng, S., Park, M., Gray, W. M. & Chory, J., Jan 1 2019, In : PLoS genetics. 15, 1, e1007904.

Research output: Contribution to journalArticle

Open Access
6 Scopus citations

Carbohydrate metabolism and signaling in squash nectaries and nectar throughout floral maturation

Solhaug, E. M., Johnson, E. & Carter, C. J., Aug 2019, In : Plant physiology. 180, 4, p. 1930-1946 17 p.

Research output: Contribution to journalArticle

Open Access

Challenges of Translating Gene Regulatory Information into Agronomic Improvements

Springer, N., de León, N. & Grotewold, E., Dec 2019, In : Trends in Plant Science. 24, 12, p. 1075-1082 8 p.

Research output: Contribution to journalReview article

Characterization of a semidominant dwarfing PROCERA allele identified in a screen for CRISPR/Cas9-induced suppressors of loss-of-function alleles

Zhu, Z., Kang, X., Lor, V. S., Weiss, D. & Olszewski, N., Feb 1 2019, In : Plant Biotechnology Journal. 17, 2, p. 319-321 3 p.

Research output: Contribution to journalLetter

1 Scopus citations

Chromosome rearrangements shape the diversification of secondary metabolism in the cyclosporin producing fungus Tolypocladium inflatum

Olarte, R., Menke, J. R., Zhang, Y., Sullivan, S., Slot, J. C., Huang, Y., Badalamenti, J., Quandt, A. C., Spatafora, J. W. & Bushley, K. E., Feb 7 2019, In : BMC Genomics. 20, 1, 120.

Research output: Contribution to journalArticle

2 Scopus citations

Classifying cold-stress responses of inbred maize seedlings using RGB imaging

Enders, T. A., St. Dennis, S., Oakland, J., Callen, S. T., Gehan, M. A., Miller, N. D., Spalding, E. P., Springer, N. M. & Hirsch, C. D., Jan 2019, In : Plant Direct. 3, 1, e00104.

Research output: Contribution to journalArticle

Open Access

Climate change is predicted to disrupt patterns of local adaptation in wild and cultivated maize

Aguirre-Liguori, J. A., Ramírez-Barahona, S., Tiffin, P. & Eguiarte, L. E., Jul 10 2019, In : Proceedings of the Royal Society B: Biological Sciences. 286, 1906

Research output: Contribution to journalArticle

1 Scopus citations

Complete genome sequence of a previously undescribed badnavirus occurring in Polyscias fruticosa L. (Ming aralia)

Alvarez-Quinto, R. A., Lockhart, B. E. L. & Olszewski, N., Sep 1 2019, In : Archives of Virology. 164, 9, p. 2371-2374 4 p.

Research output: Contribution to journalArticle

Continuous monoculture shapes root and rhizosphere fungal communities of corn and soybean in soybean cyst nematode-infested soil

Strom, N., Hu, W., Chen, S. & Bushley, K., Jan 1 2019, In : Phytobiomes Journal. 3, 4, p. 300-314 15 p.

Research output: Contribution to journalArticle

Open Access

Correction: Genotype-by-environment interactions affecting heterosis in maize (PLoS ONE (2018) 13:1 (e0191321) DOI: 10.1371/journal.pone)

Li, Z., Coffey, L., Garfin, J., Miller, N. D., White, M. R., Spalding, E. P., de Leon, N., Kaeppler, S. M., Schnable, P. S., Springer, N. M. & Hirsch, C. N., Jan 1 2019, In : PloS one. 14, 8, e0219528.

Research output: Contribution to journalComment/debate

Open Access
Open Access
1 Scopus citations

Cytosine, but not adenine, base editors induce genome-wide off-target mutations in rice

Jin, S., Zong, Y., Gao, Q., Zhu, Z., Wang, Y., Qin, P., Liang, C., Wang, D., Qiu, J. L., Zhang, F. & Gao, C., Jan 1 2019, In : Science. 364, 6437, p. 292-295 4 p.

Research output: Contribution to journalArticle

79 Scopus citations

Deployment of SNP (CAPS and KASP) markers for allelic discrimination and easy access to functional variants for brown midrib genes bmr6 and bmr12 in Sorghum bicolor

Burow, G., Chopra, R., Sattler, S., Burke, J., Acosta-Martinez, V. & Xin, Z., Aug 1 2019, In : Molecular Breeding. 39, 8, 115.

Research output: Contribution to journalArticle

1 Scopus citations

Determinants of Piper (Piperaceae) climber composition in a lowland tropical rainforest in New Guinea

Lisner, A., Kaina, G., Sisol, M., Fibich, P., Novotný, V., Weiblen, G. D. & Lepš, J., Jan 1 2019, In : Folia Geobotanica.

Research output: Contribution to journalArticle

Direct and indirect effects of climate on richness drive the latitudinal diversity gradient in forest trees

Chu, C., Lutz, J. A., Král, K., Vrška, T., Yin, X., Myers, J. A., Abiem, I., Alonso, A., Bourg, N., Burslem, D. F. R. P., Cao, M., Chapman, H., Condit, R., Fang, S., Fischer, G. A., Gao, L., Hao, Z., Hau, B. C. H., He, Q., Hector, A. & 53 others, Hubbell, S. P., Jiang, M., Jin, G., Kenfack, D., Lai, J., Li, B., Li, X., Li, Y., Lian, J., Lin, L., Liu, Y., Liu, Y., Luo, Y., Ma, K., McShea, W., Memiaghe, H., Mi, X., Ni, M., O'Brien, M. J., de Oliveira, A. A., Orwig, D. A., Parker, G. G., Qiao, X., Ren, H., Reynolds, G., Sang, W., Shen, G., Su, Z., Sui, X., Sun, I. F., Tian, S., Wang, B., Wang, X., Wang, X., Wang, Y., Weiblen, G. D., Wen, S., Xi, N., Xiang, W., Xu, H., Xu, K., Ye, W., Zhang, B., Zhang, J., Zhang, X., Zhang, Y., Zhu, K., Zimmerman, J., Storch, D., Baltzer, J. L., Anderson-Teixeira, K. J., Mittelbach, G. G. & He, F., Feb 2019, In : Ecology letters. 22, 2, p. 245-255 11 p.

Research output: Contribution to journalLetter

1 Scopus citations

Does adaptation to historical climate shape plant responses to future rainfall patterns? A rainfall manipulation experiment with common ragweed

Gorton, A. J., Tiffin, P. & Moeller, D. A., Aug 1 2019, In : Oecologia. 190, 4, p. 941-953 13 p.

Research output: Contribution to journalArticle

Domestication in real time: The curious case of a trigenomic sunflower population

Ekar, J. M., Betts, K. J., Herman, A. C., Stupar, R. M., Wyse, D. L., Brandvain, Y. & Kantar, M. B., Oct 31 2019, In : Agronomy. 9, 11, 9110704.

Research output: Contribution to journalArticle

Open Access

Dynamic Patterns of Gene Expression Additivity and Regulatory Variation throughout Maize Development

Zhou, P., Hirsch, C. N., Briggs, S. P. & Springer, N. M., Mar 4 2019, In : Molecular Plant. 12, 3, p. 410-425 16 p.

Research output: Contribution to journalArticle

Open Access
3 Scopus citations

Dynamic patterns of transcript abundance of transposable element families in maize

Anderson, S. N., Stitzer, M. C., Zhou, P., Ross-Ibarra, J., Hirsch, C. D. & Springer, N. M., Nov 1 2019, In : G3: Genes, Genomes, Genetics. 9, 11, p. 3673-3682 10 p.

Research output: Contribution to journalArticle

Open Access

Environmental Association Identifies Candidates for Tolerance to Low Temperature and Drought

Lei, L., Poets, A. M., Liu, C., Wyant, S. R., Hoffman, P. J., Carter, C. K., Shaw, B. G., Li, X., Muehlbauer, G. J., Katagiri, F. & Morrell, P. L., Oct 7 2019, In : G3 (Bethesda, Md.). 9, 10, p. 3423-3438 16 p.

Research output: Contribution to journalArticle

Open Access
1 Scopus citations

Evolution of Portulacineae Marked by Gene Tree Conflict and Gene Family Expansion Associated with Adaptation to Harsh Environments

Wang, N., Yang, Y., Moore, M. J., Brockington, S. F., Walker, J. F., Brown, J. W., Liang, B., Feng, T., Edwards, C., Mikenas, J., Olivieri, J., Hutchison, V., Timoneda, A., Stoughton, T., Puente, R., Majure, L. C., Eggli, U. & Smith, S. A., Jan 1 2019, In : Molecular biology and evolution. 36, 1, p. 112-126 15 p.

Research output: Contribution to journalArticle

5 Scopus citations

Evolution of substrate-specific gene expression and RNA editing in brown rot wood-decaying fungi

Wu, B., Gaskell, J., Zhang, J., Toapanta, C., Ahrendt, S., Grigoriev, I. V., Blanchette, R. A., Schilling, J. S., Master, E., Cullen, D. & Hibbett, D. S., Jun 1 2019, In : ISME Journal. 13, 6, p. 1391-1403 13 p.

Research output: Contribution to journalArticle

FAD2 gene radiation and positive selection contributed to polyacetylene metabolism evolution in campanulids

Feng, T., Yang, Y., Busta, L., Cahoon, E. B., Wang, H. & Lü, S., Jan 1 2019, In : Plant physiology. 181, 2, p. 714-728 15 p.

Research output: Contribution to journalArticle

Open Access

Faster speciation of fig-wasps than their host figs leads to decoupled speciation dynamics: Snapshots across the speciation continuum

Souto-Vilarós, D., Machac, A., Michalek, J., Darwell, C. T., Sisol, M., Kuyaiva, T., Isua, B., Weiblen, G. D., Novotny, V. & Segar, S. T., Sep 1 2019, In : Molecular ecology. 28, 17, p. 3958-3976 19 p.

Research output: Contribution to journalArticle

Fertility of pedicellate spikelets in sorghum is controlled by a jasmonic acid regulatory module

Gladman, N., Jiao, Y., Lee, Y. K., Zhang, L., Chopra, R., Regulski, M., Burow, G., Hayes, C., Christensen, S. A., Dampanaboina, L., Chen, J., Burke, J., Ware, D. & Xin, Z., Oct 1 2019, In : International journal of molecular sciences. 20, 19, 4951.

Research output: Contribution to journalArticle

Open Access
2 Scopus citations

Field and greenhouse evaluations of soil suppressiveness to Heterodera glycines in the Midwest corn-soybean production systems

Hu, W., Kidane, E., Neher, D. A. & Chen, S., Jan 1 2019, In : Journal of Nematology. 51, 1

Research output: Contribution to journalArticle

Gene regulation shifts shed light on fungal adaption in plant biomass decomposers

Zhang, J., Silverstein, K. A. T., Castaño, J. D., Figueroa, M. & Schilling, J. S., Nov 1 2019, In : mBio. 10, 6, e02176-19.

Research output: Contribution to journalArticle

Open Access

Genetic architecture of chilling tolerance in sorghum dissected with a nested association mapping population

Marla, S. R., Burow, G., Chopra, R., Hayes, C., Olatoye, M. O., Felderhoff, T., Hu, Z., Raymundo, R., Perumal, R. & Morris, G. P., Jan 1 2019, In : G3: Genes, Genomes, Genetics. 9, 12, p. 4045-4057 13 p.

Research output: Contribution to journalArticle

Open Access

Genetic diversity of field pennycress (Thlaspi arvense) reveals untapped variability and paths toward selection for domestication

Frels, K., Chopra, R., Dorn, K. M., Wyse, D. L., Marks, M. D. & Anderson, J. A., Jan 1 2019, In : Agronomy. 9, 6, 302.

Research output: Contribution to journalArticle

Open Access

Genome-based estimates of fungal rDNA copy number variation across phylogenetic scales and ecological lifestyles

Lofgren, L. A., Uehling, J. K., Branco, S., Bruns, T. D., Martin, F. & Kennedy, P. G., Feb 1 2019, In : Molecular ecology. 28, 4, p. 721-730 10 p.

Research output: Contribution to journalArticle

7 Scopus citations

Genome-wide nucleotide patterns and potential mechanisms of genome divergence following domestication in maize and soybean

Wang, J., Li, X., Do Kim, K., Scanlon, M. J., Jackson, S. A., Springer, N. M. & Yu, J., Apr 25 2019, In : Genome biology. 20, 1, 74.

Research output: Contribution to journalArticle

Open Access

Genomic Dissection of Nonhost Resistance to Wheat Stem Rust in Brachypodium distachyon

Coletta, R. D., Hirsch, C. N., Rouse, M. N., Lorenz, A. & Garvin, D. F., Apr 2019, In : Molecular Plant-Microbe Interactions. 32, 4, p. 392-400 9 p.

Research output: Contribution to journalArticle