Recent Publications

Ouma WZ, Pogacar K, Grotewold E. “Topological and statistical analyses of gene regulatory networks reveal unifying yet quantitatively different emergent properties.” PLoS Comput Biol. (2018) Apr;14(4):e1006098. doi: 10.1371/journal.pcbi.1006098

Friesner J, Assmann SM, Bastow R, Bailey-Serres J, Beynon J, Brendel V, Buell CR, Bucksch A, Busch W, Demura T, Dinneny JR, Doherty CJ, Eveland AL, Falter-Braun P, Gehan MA, Gonzales M, Grotewold E, Gutierrez R, Kramer U, Krouk G, Ma S, Markelz RJC, Megraw M, Meyers BC, Murray JAH, Provart NJ, Rhee S, Smith R, Spalding EP, Taylor C, Teal TK, Torii KU, Town C, Vaughn M, Vierstra R, Ware D, Wilkins O, Williams C, Brady SM. “The Next Generation of Training for Arabidopsis Researchers: Bioinformatics and Quantitative Biology.” Plant Physiol. (2017) Dec;175(4):1499-1509. doi: 10.1104/pp.17.01490

Lindsey BE 3rd, Rivero L, Calhoun CS, Grotewold E, Brkljacic J. “Standardized Method for High-throughput Sterilization of Arabidopsis Seeds.” J Vis Exp. (2017) Oct 17. doi: 10.3791/56587

Feller A, Yuan L, Grotewold E. “The BIF Domain in Plant bHLH Proteins Is an ACT-Like Domain.” Plant Cell. (2017) Aug;29(8):1800-1802. doi: 10.1105/tpc.17.00356

Mukundi E, Gomez-Cano F, Ouma WZ, Grotewold E. “Design of Knowledge Bases for Plant Gene Regulatory Networks.” Methods Mol Biol. (2017) 1629:207-223. doi: 10.1007/978-1-4939-7125-1_14

Casas MI, Vaughan MJ, Bonello P, McSpadden Gardener B, Grotewold E, Alonso AP. “Identification of biochemical features of defective Coffea arabica L. beans.” Food Res Int. (2017) May;95:59-67. doi: 10.1016/j.foodres.2017.02.015

McCluskey K, Boundy-Mills K, Dye G, Ehmke E, Gunnell GF, Kiaris H, Polihronakis Richmond M, Yoder AD, Zeigler DR, Zehr S, Grotewold E. “The challenges faced by living stock collections in the USA.” Elife. (2017) Mar 13;. doi: 10.7554/eLife.24611

Francis D, Finer JJ, Grotewold E. “Challenges and opportunities for improving food quality and nutrition through plant biotechnology.” Curr Opin Biotechnol. (2017) Apr;44:124-129. doi: 10.1016/j.copbio.2016.11.009

Iwase A, Harashima H, Ikeuchi M, Rymen B, Ohnuma M, Komaki S, Morohashi K, Kurata T, Nakata M, Ohme-Takagi M, Grotewold E, Sugimoto K. “WIND1 Promotes Shoot Regeneration through Transcriptional Activation of ENHANCER OF SHOOT REGENERATION1 in Arabidopsis.” Plant Cell. (2017) Jan;29(1):54-69. doi: 10.1105/tpc.16.00623

Yang F, Li W, Jiang N, Yu H, Morohashi K, Ouma WZ, Morales-Mantilla DE, Gomez-Cano FA, Mukundi E, Prada-Salcedo LD, Velazquez RA, Valentin J, Mejía-Guerra MK, Gray J, Doseff AI, Grotewold E. “A Maize Gene Regulatory Network for Phenolic Metabolism.” Mol Plant. (2017) Mar 6;10(3):498-515. doi: 10.1016/j.molp.2016.10.020

Grotewold E, Springer NM. “News from the plant world: Listening to transcription.” Biochim Biophys Acta. (2017) Jan;1860(1):1-2. doi: 10.1016/j.bbagrm.2016.11.004

Chanoca A, Burkel B, Kovinich N, Grotewold E, Eliceiri KW, Otegui MS. “Using fluorescence lifetime microscopy to study the subcellular localization of anthocyanins.” Plant J. (2016) Dec;88(5):895-903. doi: 10.1111/tpj.13297

Yang F, Ouma WZ, Li W, Doseff AI, Grotewold E. “Establishing the Architecture of Plant Gene Regulatory Networks.” Methods Enzymol. (2016) 576:251-304. doi: 10.1016/bs.mie.2016.03.003

Brkljacic J, Grotewold E. “Combinatorial control of plant gene expression.” Biochim Biophys Acta. (2017) Jan;1860(1):31-40. doi: 10.1016/j.bbagrm.2016.07.005

Jiang N, Doseff AI, Grotewold E. “Flavones: From Biosynthesis to Health Benefits.” Plants (Basel). (2016) Jun 21;5:(2). doi: 10.3390/plants5020027

Agarwal T, Grotewold E, Doseff AI, Gray J. “MYB31/MYB42 Syntelogs Exhibit Divergent Regulation of Phenylpropanoid Genes in Maize, Sorghum and Rice.” Sci Rep. (2016) Jun 22;6:28502. doi: 10.1038/srep28502

Casas MI, Falcone-Ferreyra ML, Jiang N, Mejía-Guerra MK, Rodríguez E, Wilson T, Engelmeier J, Casati P, Grotewold E. “Identification and Characterization of Maize salmon silks Genes Involved in Insecticidal Maysin Biosynthesis.” Plant Cell. (2016) Jun;28(6):1297-309. doi: 10.1105/tpc.16.00003

Cardenas H, Arango D, Nicholas C, Duarte S, Nuovo GJ, He W, Voss OH, Gonzalez-Mejia ME, Guttridge DC, Grotewold E, Doseff AI. “Dietary Apigenin Exerts Immune-Regulatory Activity in Vivo by Reducing NF-κB Activity, Halting Leukocyte Infiltration and Restoring Normal Metabolic Function.” Int J Mol Sci. (2016) Mar 1;17(3):323. doi: 10.3390/ijms17030323

Grotewold E. “Flavonols drive plant microevolution.” Nat Genet. (2016) Feb;48(2):112-3. doi: 10.1038/ng.3490

Mejía-Guerra MK, Li W, Galeano NF, Vidal M, Gray J, Doseff AI, Grotewold E. “Core Promoter Plasticity Between Maize Tissues and Genotypes Contrasts with Predominance of Sharp Transcription Initiation Sites.” Plant Cell. (2015) Dec;27(12):3309-20. doi: 10.1105/tpc.15.00630

Wang HZ, Yang KZ, Zou JJ, Zhu LL, Xie ZD, Morita MT, Tasaka M, Friml J, Grotewold E, Beeckman T, Vanneste S, Sack F, Le J. “Transcriptional regulation of PIN genes by FOUR LIPS and MYB88 during Arabidopsis root gravitropism.” Nat Commun. (2015) Nov 18;6:8822. doi: 10.1038/ncomms9822

Chen Q, Liu Y, Maere S, Lee E, Van Isterdael G, Xie Z, Xuan W, Lucas J, Vassileva V, Kitakura S, Marhavý P, Wabnik K, Geldner N, Benková E, Le J, Fukaki H, Grotewold E, Li C, Friml J, Sack F, Beeckman T, Vanneste S. “A coherent transcriptional feed-forward motif model for mediating auxin-sensitive PIN3 expression during lateral root development.” Nat Commun. (2015) Nov 18;6:8821. doi: 10.1038/ncomms9821

Vélez-Bermúdez IC, Salazar-Henao JE, Fornalé S, López-Vidriero I, Franco-Zorrilla JM, Grotewold E, Gray J, Solano R, Schmidt W, Pagés M, Riera M, Caparros-Ruiz D. “A MYB/ZML Complex Regulates Wound-Induced Lignin Genes in Maize.” Plant Cell. (2015) Nov;27(11):3245-59. doi: 10.1105/tpc.15.00545

Provart NJ, Alonso J, Assmann SM, Bergmann D, Brady SM, Brkljacic J, Browse J, Chapple C, Colot V, Cutler S, Dangl J, Ehrhardt D, Friesner JD, Frommer WB, Grotewold E, Meyerowitz E, Nemhauser J, Nordborg M, Pikaard C, Shanklin J, Somerville C, Stitt M, Torii KU, Waese J, Wagner D, McCourt P. “50 years of Arabidopsis research: highlights and future directions.” New Phytol. (2016) Feb;209(3):921-44. doi: 10.1111/nph.13687

Chanoca A, Kovinich N, Burkel B, Stecha S, Bohorquez-Restrepo A, Ueda T, Eliceiri KW, Grotewold E, Otegui MS. “Anthocyanin Vacuolar Inclusions Form by a Microautophagy Mechanism.” Plant Cell. (2015) Sep;27(9):2545-59. doi: 10.1105/tpc.15.00589

Falcone Ferreyra ML, Emiliani J, Rodriguez EJ, Campos-Bermudez VA, Grotewold E, Casati P. “The Identification of Maize and Arabidopsis Type I FLAVONE SYNTHASEs Links Flavones with Hormones and Biotic Interactions.” Plant Physiol. (2015) Oct;169(2):1090-107. doi: 10.1104/pp.15.00515

Kovinich N, Kayanja G, Chanoca A, Otegui MS, Grotewold E. “Abiotic stresses induce different localizations of anthocyanins in Arabidopsis.” Plant Signal Behav. (2015) 10(7):e1027850. doi: 10.1080/15592324.2015.1027850

Ouma WZ, Mejia-Guerra MK, Yilmaz A, Pareja-Tobes P, Li W, Doseff AI, Grotewold E. “Important biological information uncovered in previously unaligned reads from chromatin immunoprecipitation experiments (ChIP-Seq).” Sci Rep. (2015) Mar 2;5:8635. doi: 10.1038/srep08635

Yuan L, Grotewold E. “Metabolic engineering to enhance the value of plants as green factories.” Metab Eng. (2015) Jan;27:83-91. doi: 10.1016/j.ymben.2014.11.005

Casas MI, Duarte S, Doseff AI, Grotewold E. “Flavone-rich maize: an opportunity to improve the nutritional value of an important commodity crop.” Front Plant Sci. (2014) 5:440. doi: 10.3389/fpls.2014.00440

Burdo B, Gray J, Goetting-Minesky MP, Wittler B, Hunt M, Li T, Velliquette D, Thomas J, Gentzel I, dos Santos Brito M, Mejía-Guerra MK, Connolly LN, Qaisi D, Li W, Casas MI, Doseff AI, Grotewold E. “The Maize TFome--development of a transcription factor open reading frame collection for functional genomics.” Plant J. (2014) Oct;80(2):356-66. doi: 10.1111/tpj.12623

Kovinich N, Kayanja G, Chanoca A, Riedl K, Otegui MS, Grotewold E. “Not all anthocyanins are born equal: distinct patterns induced by stress in Arabidopsis.” Planta. (2014) Nov;240(5):931-40. doi: 10.1007/s00425-014-2079-1

Zhiponova MK, Morohashi K, Vanhoutte I, Machemer-Noonan K, Revalska M, Van Montagu M, Grotewold E, Russinova E. “Helix-loop-helix/basic helix-loop-helix transcription factor network represses cell elongation in Arabidopsis through an apparent incoherent feed-forward loop.” Proc Natl Acad Sci U S A. (2014) Feb 18;111(7):2824-9. doi: 10.1073/pnas.1400203111

Eveland AL, Goldshmidt A, Pautler M, Morohashi K, Liseron-Monfils C, Lewis MW, Kumari S, Hiraga S, Yang F, Unger-Wallace E, Olson A, Hake S, Vollbrecht E, Grotewold E, Ware D, Jackson D. “Regulatory modules controlling maize inflorescence architecture.” Genome Res. (2014) Mar;24(3):431-43. doi: 10.1101/gr.166397.113

Li D, Dreher K, Knee E, Brkljacic J, Grotewold E, Berardini TZ, Lamesch P, Garcia-Hernandez M, Reiser L, Huala E. “Arabidopsis database and stock resources.” Methods Mol Biol. (2014) 1062:65-96. doi: 10.1007/978-1-62703-580-4_4

Rivero L, Scholl R, Holomuzki N, Crist D, Grotewold E, Brkljacic J. “Handling Arabidopsis plants: growth, preservation of seeds, transformation, and genetic crosses.” Methods Mol Biol. (2014) 1062:3-25. doi: 10.1007/978-1-62703-580-4_1