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Challenges of Translating Gene Regulatory Information into Agronomic Improvements.

Springer N, de León N, Grotewold E.

Trends Plant Sci. 2019 Jul 31. pii: S1360-1385(19)30167-0. doi: 10.1016/j.tplants.2019.07.004. [Epub ahead of print] Review.


Arabidopsis MATE45 antagonizes local abscisic acid signaling to mediate development and abiotic stress responses.

Kovinich N, Wang Y, Adegboye J, Chanoca AA, Otegui MS, Durkin P, Grotewold E.

Plant Direct. 2018 Oct 12;2(10):e00087. doi: 10.1002/pld3.87. eCollection 2018 Oct.


Arabidopsis EMSY-like (EML) histone readers are necessary for post-fertilization seed development, but prevent fertilization-independent seed formation.

Milutinovic M, Lindsey BE 3rd, Wijeratne A, Hernandez JM, Grotewold N, Fernández V, Grotewold E, Brkljacic J.

Plant Sci. 2019 Aug;285:99-109. doi: 10.1016/j.plantsci.2019.04.007. Epub 2019 Apr 24.


Arabidopsis JMJD5/JMJ30 Acts Independently of LUX ARRHYTHMO Within the Plant Circadian Clock to Enable Temperature Compensation.

Jones MA, Morohashi K, Grotewold E, Harmer SL.

Front Plant Sci. 2019 Feb 1;10:57. doi: 10.3389/fpls.2019.00057. eCollection 2019.


Beyond the wall: High-throughput quantification of plant soluble and cell-wall bound phenolics by liquid chromatography tandem mass spectrometry.

Cocuron JC, Casas MI, Yang F, Grotewold E, Alonso AP.

J Chromatogr A. 2019 Mar 29;1589:93-104. doi: 10.1016/j.chroma.2018.12.059. Epub 2018 Dec 26.


Tomato floral induction and flower development are orchestrated by the interplay between gibberellin and two unrelated microRNA-controlled modules.

Silva GFF, Silva EM, Correa JPO, Vicente MH, Jiang N, Notini MM, Junior AC, De Jesus FA, Castilho P, Carrera E, López-Díaz I, Grotewold E, Peres LEP, Nogueira FTS.

New Phytol. 2019 Feb;221(3):1328-1344. doi: 10.1111/nph.15492. Epub 2018 Oct 19.


Apigenin produced by maize flavone synthase I and II protects plants against UV-B-induced damage.

Righini S, Rodriguez EJ, Berosich C, Grotewold E, Casati P, Falcone Ferreyra ML.

Plant Cell Environ. 2019 Feb;42(2):495-508. doi: 10.1111/pce.13428. Epub 2018 Sep 17.


Genome-Wide TSS Identification in Maize.

Mejia-Guerra MK, Li W, Doseff AI, Grotewold E.

Methods Mol Biol. 2018;1830:239-256. doi: 10.1007/978-1-4939-8657-6_14.


Imaging Vacuolar Anthocyanins with Fluorescence Lifetime Microscopy (FLIM).

Chanoca A, Burkel B, Grotewold E, Eliceiri KW, Otegui MS.

Methods Mol Biol. 2018;1789:131-141. doi: 10.1007/978-1-4939-7856-4_10.


Topological and statistical analyses of gene regulatory networks reveal unifying yet quantitatively different emergent properties.

Ouma WZ, Pogacar K, Grotewold E.

PLoS Comput Biol. 2018 Apr 30;14(4):e1006098. doi: 10.1371/journal.pcbi.1006098. eCollection 2018 Apr.


The Next Generation of Training for Arabidopsis Researchers: Bioinformatics and Quantitative Biology.

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.

Plant Physiol. 2017 Dec;175(4):1499-1509. doi: 10.1104/pp.17.01490. No abstract available.


Standardized Method for High-throughput Sterilization of Arabidopsis Seeds.

Lindsey BE 3rd, Rivero L, Calhoun CS, Grotewold E, Brkljacic J.

J Vis Exp. 2017 Oct 17;(128). doi: 10.3791/56587.


The BIF Domain in Plant bHLH Proteins Is an ACT-Like Domain.

Feller A, Yuan L, Grotewold E.

Plant Cell. 2017 Aug;29(8):1800-1802. doi: 10.1105/tpc.17.00356. Epub 2017 Jul 26. No abstract available.


Design of Knowledge Bases for Plant Gene Regulatory Networks.

Mukundi E, Gomez-Cano F, Ouma WZ, Grotewold E.

Methods Mol Biol. 2017;1629:207-223. doi: 10.1007/978-1-4939-7125-1_14.


Identification of biochemical features of defective Coffea arabica L. beans.

Casas MI, Vaughan MJ, Bonello P, McSpadden Gardener B, Grotewold E, Alonso AP.

Food Res Int. 2017 May;95:59-67. doi: 10.1016/j.foodres.2017.02.015. Epub 2017 Feb 28.


The challenges faced by living stock collections in the USA.

McCluskey K, Boundy-Mills K, Dye G, Ehmke E, Gunnell GF, Kiaris H, Polihronakis Richmond M, Yoder AD, Zeigler DR, Zehr S, Grotewold E.

Elife. 2017 Mar 13;6. pii: e24611. doi: 10.7554/eLife.24611.


Challenges and opportunities for improving food quality and nutrition through plant biotechnology.

Francis D, Finer JJ, Grotewold E.

Curr Opin Biotechnol. 2017 Apr;44:124-129. doi: 10.1016/j.copbio.2016.11.009. Epub 2017 Jan 11. Review.


WIND1 Promotes Shoot Regeneration through Transcriptional Activation of ENHANCER OF SHOOT REGENERATION1 in Arabidopsis.

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.

Plant Cell. 2017 Jan;29(1):54-69. doi: 10.1105/tpc.16.00623. Epub 2016 Dec 23.


A Maize Gene Regulatory Network for Phenolic Metabolism.

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.

Mol Plant. 2017 Mar 6;10(3):498-515. doi: 10.1016/j.molp.2016.10.020. Epub 2016 Nov 19.


News from the plant world: Listening to transcription.

Grotewold E, Springer NM.

Biochim Biophys Acta Gene Regul Mech. 2017 Jan;1860(1):1-2. doi: 10.1016/j.bbagrm.2016.11.004. Epub 2016 Nov 16. No abstract available.


Using fluorescence lifetime microscopy to study the subcellular localization of anthocyanins.

Chanoca A, Burkel B, Kovinich N, Grotewold E, Eliceiri KW, Otegui MS.

Plant J. 2016 Dec;88(5):895-903. doi: 10.1111/tpj.13297. Epub 2016 Sep 17.


Establishing the Architecture of Plant Gene Regulatory Networks.

Yang F, Ouma WZ, Li W, Doseff AI, Grotewold E.

Methods Enzymol. 2016;576:251-304. doi: 10.1016/bs.mie.2016.03.003. Epub 2016 Apr 4.


Combinatorial control of plant gene expression.

Brkljacic J, Grotewold E.

Biochim Biophys Acta Gene Regul Mech. 2017 Jan;1860(1):31-40. doi: 10.1016/j.bbagrm.2016.07.005. Epub 2016 Jul 15. Review.


Flavones: From Biosynthesis to Health Benefits.

Jiang N, Doseff AI, Grotewold E.

Plants (Basel). 2016 Jun 21;5(2). pii: E27. doi: 10.3390/plants5020027. Review.


MYB31/MYB42 Syntelogs Exhibit Divergent Regulation of Phenylpropanoid Genes in Maize, Sorghum and Rice.

Agarwal T, Grotewold E, Doseff AI, Gray J.

Sci Rep. 2016 Jun 22;6:28502. doi: 10.1038/srep28502.


Identification and Characterization of Maize salmon silks Genes Involved in Insecticidal Maysin Biosynthesis.

Casas MI, Falcone-Ferreyra ML, Jiang N, Mejía-Guerra MK, Rodríguez E, Wilson T, Engelmeier J, Casati P, Grotewold E.

Plant Cell. 2016 Jun;28(6):1297-309. doi: 10.1105/tpc.16.00003. Epub 2016 May 24. Erratum in: Plant Cell. 2016 Aug;28(8):1984-7.


Dietary Apigenin Exerts Immune-Regulatory Activity in Vivo by Reducing NF-κB Activity, Halting Leukocyte Infiltration and Restoring Normal Metabolic Function.

Cardenas H, Arango D, Nicholas C, Duarte S, Nuovo GJ, He W, Voss OH, Gonzalez-Mejia ME, Guttridge DC, Grotewold E, Doseff AI.

Int J Mol Sci. 2016 Mar 1;17(3):323. doi: 10.3390/ijms17030323.


Flavonols drive plant microevolution.

Grotewold E.

Nat Genet. 2016 Feb;48(2):112-3. doi: 10.1038/ng.3490.


Core Promoter Plasticity Between Maize Tissues and Genotypes Contrasts with Predominance of Sharp Transcription Initiation Sites.

Mejía-Guerra MK, Li W, Galeano NF, Vidal M, Gray J, Doseff AI, Grotewold E.

Plant Cell. 2015 Dec;27(12):3309-20. doi: 10.1105/tpc.15.00630. Epub 2015 Dec 1.


Transcriptional regulation of PIN genes by FOUR LIPS and MYB88 during Arabidopsis root gravitropism.

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.

Nat Commun. 2015 Nov 18;6:8822. doi: 10.1038/ncomms9822.


A coherent transcriptional feed-forward motif model for mediating auxin-sensitive PIN3 expression during lateral root development.

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.

Nat Commun. 2015 Nov 18;6:8821. doi: 10.1038/ncomms9821.


A MYB/ZML Complex Regulates Wound-Induced Lignin Genes in Maize.

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.

Plant Cell. 2015 Nov;27(11):3245-59. doi: 10.1105/tpc.15.00545. Epub 2015 Nov 13.


50 years of Arabidopsis research: highlights and future directions.

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.

New Phytol. 2016 Feb;209(3):921-44. doi: 10.1111/nph.13687. Epub 2015 Oct 14. Review.


Anthocyanin Vacuolar Inclusions Form by a Microautophagy Mechanism.

Chanoca A, Kovinich N, Burkel B, Stecha S, Bohorquez-Restrepo A, Ueda T, Eliceiri KW, Grotewold E, Otegui MS.

Plant Cell. 2015 Sep;27(9):2545-59. doi: 10.1105/tpc.15.00589. Epub 2015 Sep 4.


The Identification of Maize and Arabidopsis Type I FLAVONE SYNTHASEs Links Flavones with Hormones and Biotic Interactions.

Falcone Ferreyra ML, Emiliani J, Rodriguez EJ, Campos-Bermudez VA, Grotewold E, Casati P.

Plant Physiol. 2015 Oct;169(2):1090-107. doi: 10.1104/pp.15.00515. Epub 2015 Aug 12.


Abiotic stresses induce different localizations of anthocyanins in Arabidopsis.

Kovinich N, Kayanja G, Chanoca A, Otegui MS, Grotewold E.

Plant Signal Behav. 2015;10(7):e1027850. doi: 10.1080/15592324.2015.1027850.


Important biological information uncovered in previously unaligned reads from chromatin immunoprecipitation experiments (ChIP-Seq).

Ouma WZ, Mejia-Guerra MK, Yilmaz A, Pareja-Tobes P, Li W, Doseff AI, Grotewold E.

Sci Rep. 2015 Mar 2;5:8635. doi: 10.1038/srep08635.


Metabolic engineering to enhance the value of plants as green factories.

Yuan L, Grotewold E.

Metab Eng. 2015 Jan;27:83-91. doi: 10.1016/j.ymben.2014.11.005. Epub 2014 Nov 20. Review.


Flavone-rich maize: an opportunity to improve the nutritional value of an important commodity crop.

Casas MI, Duarte S, Doseff AI, Grotewold E.

Front Plant Sci. 2014 Sep 8;5:440. doi: 10.3389/fpls.2014.00440. eCollection 2014.


The Maize TFome--development of a transcription factor open reading frame collection for functional genomics.

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.

Plant J. 2014 Oct;80(2):356-66. doi: 10.1111/tpj.12623. Epub 2014 Aug 26.


Not all anthocyanins are born equal: distinct patterns induced by stress in Arabidopsis.

Kovinich N, Kayanja G, Chanoca A, Riedl K, Otegui MS, Grotewold E.

Planta. 2014 Nov;240(5):931-40. doi: 10.1007/s00425-014-2079-1. Epub 2014 Jun 6.


Helix-loop-helix/basic helix-loop-helix transcription factor network represses cell elongation in Arabidopsis through an apparent incoherent feed-forward loop.

Zhiponova MK, Morohashi K, Vanhoutte I, Machemer-Noonan K, Revalska M, Van Montagu M, Grotewold E, Russinova E.

Proc Natl Acad Sci U S A. 2014 Feb 18;111(7):2824-9. doi: 10.1073/pnas.1400203111. Epub 2014 Feb 6.


Regulatory modules controlling maize inflorescence architecture.

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.

Genome Res. 2014 Mar;24(3):431-43. doi: 10.1101/gr.166397.113. Epub 2013 Dec 4.


Arabidopsis database and stock resources.

Li D, Dreher K, Knee E, Brkljacic J, Grotewold E, Berardini TZ, Lamesch P, Garcia-Hernandez M, Reiser L, Huala E.

Methods Mol Biol. 2014;1062:65-96. doi: 10.1007/978-1-62703-580-4_4.


Handling Arabidopsis plants: growth, preservation of seeds, transformation, and genetic crosses.

Rivero L, Scholl R, Holomuzki N, Crist D, Grotewold E, Brkljacic J.

Methods Mol Biol. 2014;1062:3-25. doi: 10.1007/978-1-62703-580-4_1.


Identification of a bifunctional maize C- and O-glucosyltransferase.

Falcone Ferreyra ML, Rodriguez E, Casas MI, Labadie G, Grotewold E, Casati P.

J Biol Chem. 2013 Nov 1;288(44):31678-88. doi: 10.1074/jbc.M113.510040. Epub 2013 Sep 17.


Turning over a new leaf in plant genomics.

Caccamo M, Grotewold E.

Genome Biol. 2013 Jun 27;14(6):403. doi: 10.1186/gb-2013-14-6-403. No abstract available.


Molecular basis for the action of a dietary flavonoid revealed by the comprehensive identification of apigenin human targets.

Arango D, Morohashi K, Yilmaz A, Kuramochi K, Parihar A, Brahimaj B, Grotewold E, Doseff AI.

Proc Natl Acad Sci U S A. 2013 Jun 11;110(24):E2153-62. doi: 10.1073/pnas.1303726110. Epub 2013 May 22.


Flavonols protect Arabidopsis plants against UV-B deleterious effects.

Emiliani J, Grotewold E, Falcone Ferreyra ML, Casati P.

Mol Plant. 2013 Jul;6(4):1376-9. doi: 10.1093/mp/sst021. Epub 2013 Jan 31. No abstract available.


A chemical complementation approach reveals genes and interactions of flavonoids with other pathways.

Pourcel L, Irani NG, Koo AJ, Bohorquez-Restrepo A, Howe GA, Grotewold E.

Plant J. 2013 May;74(3):383-97. doi: 10.1111/tpj.12129. Epub 2013 Mar 29.

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