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Maize genomes to fields (G2F): 2014-2017 field seasons: genotype, phenotype, climatic, soil, and inbred ear image datasets.

McFarland BA, AlKhalifah N, Bohn M, Bubert J, Buckler ES, Ciampitti I, Edwards J, Ertl D, Gage JL, Falcon CM, Flint-Garcia S, Gore MA, Graham C, Hirsch CN, Holland JB, Hood E, Hooker D, Jarquin D, Kaeppler SM, Knoll J, Kruger G, Lauter N, Lee EC, Lima DC, Lorenz A, Lynch JP, McKay J, Miller ND, Moose SP, Murray SC, Nelson R, Poudyal C, Rocheford T, Rodriguez O, Romay MC, Schnable JC, Schnable PS, Scully B, Sekhon R, Silverstein K, Singh M, Smith M, Spalding EP, Springer N, Thelen K, Thomison P, Tuinstra M, Wallace J, Walls R, Wills D, Wisser RJ, Xu W, Yeh CT, de Leon N.

BMC Res Notes. 2020 Feb 12;13(1):71. doi: 10.1186/s13104-020-4922-8.


Switching the Direction of Stem Gravitropism by Altering Two Amino Acids in AtLAZY1.

Yoshihara T, Spalding EP.

Plant Physiol. 2020 Feb;182(2):1039-1051. doi: 10.1104/pp.19.01144. Epub 2019 Dec 9.


Predicting Zea mays Flowering Time, Yield, and Kernel Dimensions by Analyzing Aerial Images.

Wu G, Miller ND, de Leon N, Kaeppler SM, Spalding EP.

Front Plant Sci. 2019 Oct 11;10:1251. doi: 10.3389/fpls.2019.01251. eCollection 2019.


Correction: Genotype-by-environment interactions affecting heterosis in maize.

Li Z, Coffey L, Garfin J, Miller ND, White MR, Spalding EP, Leon N, Kaeppler SM, Schnable PS, Springer NM, Hirsch CN.

PLoS One. 2019 Aug 5;14(8):e0219528. doi: 10.1371/journal.pone.0219528. eCollection 2019.


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

Enders TA, St Dennis S, Oakland J, Callen ST, Gehan MA, Miller ND, Spalding EP, Springer NM, Hirsch CD.

Plant Direct. 2019 Jan 2;3(1):e00104. doi: 10.1002/pld3.104. eCollection 2019 Jan.


Genome-wide association analysis of stalk biomass and anatomical traits in maize.

Mazaheri M, Heckwolf M, Vaillancourt B, Gage JL, Burdo B, Heckwolf S, Barry K, Lipzen A, Ribeiro CB, Kono TJY, Kaeppler HF, Spalding EP, Hirsch CN, Robin Buell C, de Leon N, Kaeppler SM.

BMC Plant Biol. 2019 Jan 31;19(1):45. doi: 10.1186/s12870-019-1653-x.


A machine vision platform for measuring imbibition of maize kernels: quantification of genetic effects and correlations with germination.

Miller ND, Stelpflug SC, Kaeppler SM, Spalding EP.

Plant Methods. 2018 Dec 21;14:115. doi: 10.1186/s13007-018-0383-7. eCollection 2018.


An Automated Image Analysis Pipeline Enables Genetic Studies of Shoot and Root Morphology in Carrot (Daucus carota L.).

Turner SD, Ellison SL, Senalik DA, Simon PW, Spalding EP, Miller ND.

Front Plant Sci. 2018 Nov 27;9:1703. doi: 10.3389/fpls.2018.01703. eCollection 2018.


Regulation of Root Angle and Gravitropism.

Toal TW, Ron M, Gibson D, Kajala K, Splitt B, Johnson LS, Miller ND, Slovak R, Gaudinier A, Patel R, de Lucas M, Provart NJ, Spalding EP, Busch W, Kliebenstein DJ, Brady SM.

G3 (Bethesda). 2018 Dec 10;8(12):3841-3855. doi: 10.1534/g3.118.200540.


Maize Genomes to Fields: 2014 and 2015 field season genotype, phenotype, environment, and inbred ear image datasets.

AlKhalifah N, Campbell DA, Falcon CM, Gardiner JM, Miller ND, Romay MC, Walls R, Walton R, Yeh CT, Bohn M, Bubert J, Buckler ES, Ciampitti I, Flint-Garcia S, Gore MA, Graham C, Hirsch C, Holland JB, Hooker D, Kaeppler S, Knoll J, Lauter N, Lee EC, Lorenz A, Lynch JP, Moose SP, Murray SC, Nelson R, Rocheford T, Rodriguez O, Schnable JC, Scully B, Smith M, Springer N, Thomison P, Tuinstra M, Wisser RJ, Xu W, Ertl D, Schnable PS, De Leon N, Spalding EP, Edwards J, Lawrence-Dill CJ.

BMC Res Notes. 2018 Jul 9;11(1):452. doi: 10.1186/s13104-018-3508-1.


Distribution of Endogenous NO Regulates Early Gravitropic Response and PIN2 Localization in Arabidopsis Roots.

París R, Vazquez MM, Graziano M, Terrile MC, Miller ND, Spalding EP, Otegui MS, Casalongué CA.

Front Plant Sci. 2018 Apr 20;9:495. doi: 10.3389/fpls.2018.00495. eCollection 2018.


Genotype-by-environment interactions affecting heterosis in maize.

Li Z, Coffey L, Garfin J, Miller ND, White MR, Spalding EP, de Leon N, Kaeppler SM, Schnable PS, Springer NM, Hirsch CN.

PLoS One. 2018 Jan 17;13(1):e0191321. doi: 10.1371/journal.pone.0191321. eCollection 2018. Erratum in: PLoS One. 2019 Aug 5;14(8):e0219528.


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.


LAZY Genes Mediate the Effects of Gravity on Auxin Gradients and Plant Architecture.

Yoshihara T, Spalding EP.

Plant Physiol. 2017 Oct;175(2):959-969. doi: 10.1104/pp.17.00942. Epub 2017 Aug 18.


Morphological Plant Modeling: Unleashing Geometric and Topological Potential within the Plant Sciences.

Bucksch A, Atta-Boateng A, Azihou AF, Battogtokh D, Baumgartner A, Binder BM, Braybrook SA, Chang C, Coneva V, DeWitt TJ, Fletcher AG, Gehan MA, Diaz-Martinez DH, Hong L, Iyer-Pascuzzi AS, Klein LL, Leiboff S, Li M, Lynch JP, Maizel A, Maloof JN, Markelz RJC, Martinez CC, Miller LA, Mio W, Palubicki W, Poorter H, Pradal C, Price CA, Puttonen E, Reese JB, Rellán-Álvarez R, Spalding EP, Sparks EE, Topp CN, Williams JH, Chitwood DH.

Front Plant Sci. 2017 Jun 9;8:900. doi: 10.3389/fpls.2017.00900. eCollection 2017. Review.


Jasmonoyl-L-Tryptophan Disrupts IAA Activity through the AUX1 Auxin Permease.

Staswick P, Rowe M, Spalding EP, Splitt BL.

Front Plant Sci. 2017 May 8;8:736. doi: 10.3389/fpls.2017.00736. eCollection 2017.


Spontaneous polyploidization in cucumber.

Ramírez-Madera AO, Miller ND, Spalding EP, Weng Y, Havey MJ.

Theor Appl Genet. 2017 Jul;130(7):1481-1490. doi: 10.1007/s00122-017-2903-7. Epub 2017 Apr 13.


TIPS: a system for automated image-based phenotyping of maize tassels.

Gage JL, Miller ND, Spalding EP, Kaeppler SM, de Leon N.

Plant Methods. 2017 Mar 31;13:21. doi: 10.1186/s13007-017-0172-8. eCollection 2017.


Constitutive Expression of Arabidopsis SMALL AUXIN UP RNA19 (SAUR19) in Tomato Confers Auxin-Independent Hypocotyl Elongation.

Spartz AK, Lor VS, Ren H, Olszewski NE, Miller ND, Wu G, Spalding EP, Gray WM.

Plant Physiol. 2017 Feb;173(2):1453-1462. doi: 10.1104/pp.16.01514. Epub 2016 Dec 20.


A robust, high-throughput method for computing maize ear, cob, and kernel attributes automatically from images.

Miller ND, Haase NJ, Lee J, Kaeppler SM, de Leon N, Spalding EP.

Plant J. 2017 Jan;89(1):169-178. doi: 10.1111/tpj.13320. Epub 2016 Nov 19.


Role of SKD1 Regulators LIP5 and IST1-LIKE1 in Endosomal Sorting and Plant Development.

Buono RA, Paez-Valencia J, Miller ND, Goodman K, Spitzer C, Spalding EP, Otegui MS.

Plant Physiol. 2016 May;171(1):251-64. doi: 10.1104/pp.16.00240. Epub 2016 Mar 16.


ABCB19-mediated polar auxin transport modulates Arabidopsis hypocotyl elongation and the endoreplication variant of the cell cycle.

Wu G, Carville JS, Spalding EP.

Plant J. 2016 Jan;85(2):209-18. doi: 10.1111/tpj.13095. Epub 2016 Jan 5.


Mapping Quantitative Trait Loci Underlying Function-Valued Traits Using Functional Principal Component Analysis and Multi-Trait Mapping.

Kwak IY, Moore CR, Spalding EP, Broman KW.

G3 (Bethesda). 2015 Nov 3;6(1):79-86. doi: 10.1534/g3.115.024133.


Image analysis of anatomical traits in stalk transections of maize and other grasses.

Heckwolf S, Heckwolf M, Kaeppler SM, de Leon N, Spalding EP.

Plant Methods. 2015 Apr 9;11:26. doi: 10.1186/s13007-015-0070-x. eCollection 2015.


Block of ATP-binding cassette B19 ion channel activity by 5-nitro-2-(3-phenylpropylamino)-benzoic acid impairs polar auxin transport and root gravitropism.

Cho M, Henry EM, Lewis DR, Wu G, Muday GK, Spalding EP.

Plant Physiol. 2014 Dec;166(4):2091-9. doi: 10.1104/pp.114.250860. Epub 2014 Oct 16.


The receptor-like kinase FERONIA is required for mechanical signal transduction in Arabidopsis seedlings.

Shih HW, Miller ND, Dai C, Spalding EP, Monshausen GB.

Curr Biol. 2014 Aug 18;24(16):1887-92. doi: 10.1016/j.cub.2014.06.064. Epub 2014 Aug 7.


A simple regression-based method to map quantitative trait loci underlying function-valued phenotypes.

Kwak IY, Moore CR, Spalding EP, Broman KW.

Genetics. 2014 Aug;197(4):1409-16. doi: 10.1534/genetics.114.166306. Epub 2014 Jun 14.


Phenotypic and Transcriptional Analysis of Divergently Selected Maize Populations Reveals the Role of Developmental Timing in Seed Size Determination.

Sekhon RS, Hirsch CN, Childs KL, Breitzman MW, Kell P, Duvick S, Spalding EP, Buell CR, de Leon N, Kaeppler SM.

Plant Physiol. 2014 Jun;165(2):658-669. Epub 2014 Apr 7.


Advanced imaging techniques for the study of plant growth and development.

Sozzani R, Busch W, Spalding EP, Benfey PN.

Trends Plant Sci. 2014 May;19(5):304-10. doi: 10.1016/j.tplants.2013.12.003. Epub 2014 Jan 13. Review.


High-throughput computer vision introduces the time axis to a quantitative trait map of a plant growth response.

Moore CR, Johnson LS, Kwak IY, Livny M, Broman KW, Spalding EP.

Genetics. 2013 Nov;195(3):1077-86. doi: 10.1534/genetics.113.153346. Epub 2013 Aug 26.


Interacting glutamate receptor-like proteins in Phloem regulate lateral root initiation in Arabidopsis.

Vincill ED, Clarin AE, Molenda JN, Spalding EP.

Plant Cell. 2013 Apr;25(4):1304-13. doi: 10.1105/tpc.113.110668. Epub 2013 Apr 16.


Image analysis is driving a renaissance in growth measurement.

Spalding EP, Miller ND.

Curr Opin Plant Biol. 2013 Feb;16(1):100-4. doi: 10.1016/j.pbi.2013.01.001. Epub 2013 Jan 23. Review.


AtLAZY1 is a signaling component required for gravitropism of the Arabidopsis thaliana inflorescence.

Yoshihara T, Spalding EP, Iino M.

Plant J. 2013 Apr;74(2):267-79. doi: 10.1111/tpj.12118. Epub 2013 Feb 18.


Mapping quantitative trait loci affecting Arabidopsis thaliana seed morphology features extracted computationally from images.

Moore CR, Gronwall DS, Miller ND, Spalding EP.

G3 (Bethesda). 2013 Jan;3(1):109-18. doi: 10.1534/g3.112.003806. Epub 2013 Jan 1.


Diverting the downhill flow of auxin to steer growth during tropisms.

Spalding EP.

Am J Bot. 2013 Jan;100(1):203-14. doi: 10.3732/ajb.1200420. Review.


Ca(2+) conduction by an amino acid-gated ion channel related to glutamate receptors.

Vincill ED, Bieck AM, Spalding EP.

Plant Physiol. 2012 May;159(1):40-6. doi: 10.1104/pp.112.197509. Epub 2012 Mar 23. No abstract available.


The ins and outs of cellular Ca(2+) transport.

Spalding EP, Harper JF.

Curr Opin Plant Biol. 2011 Dec;14(6):715-20. doi: 10.1016/j.pbi.2011.08.001. Epub 2011 Aug 22. Review.


AUXIN UP-REGULATED F-BOX PROTEIN1 regulates the cross talk between auxin transport and cytokinin signaling during plant root growth.

Zheng X, Miller ND, Lewis DR, Christians MJ, Lee KH, Muday GK, Spalding EP, Vierstra RD.

Plant Physiol. 2011 Aug;156(4):1878-93. doi: 10.1104/pp.111.179812. Epub 2011 Jun 8.


The iPlant Collaborative: Cyberinfrastructure for Plant Biology.

Goff SA, Vaughn M, McKay S, Lyons E, Stapleton AE, Gessler D, Matasci N, Wang L, Hanlon M, Lenards A, Muir A, Merchant N, Lowry S, Mock S, Helmke M, Kubach A, Narro M, Hopkins N, Micklos D, Hilgert U, Gonzales M, Jordan C, Skidmore E, Dooley R, Cazes J, McLay R, Lu Z, Pasternak S, Koesterke L, Piel WH, Grene R, Noutsos C, Gendler K, Feng X, Tang C, Lent M, Kim SJ, Kvilekval K, Manjunath BS, Tannen V, Stamatakis A, Sanderson M, Welch SM, Cranston KA, Soltis P, Soltis D, O'Meara B, Ane C, Brutnell T, Kleibenstein DJ, White JW, Leebens-Mack J, Donoghue MJ, Spalding EP, Vision TJ, Myers CR, Lowenthal D, Enquist BJ, Boyle B, Akoglu A, Andrews G, Ram S, Ware D, Stein L, Stanzione D.

Front Plant Sci. 2011 Jul 25;2:34. doi: 10.3389/fpls.2011.00034. eCollection 2011.


The ER-localized TWD1 immunophilin is necessary for localization of multidrug resistance-like proteins required for polar auxin transport in Arabidopsis roots.

Wu G, Otegui MS, Spalding EP.

Plant Cell. 2010 Oct;22(10):3295-304. doi: 10.1105/tpc.110.078360. Epub 2010 Oct 22.


Separating parental environment from seed size effects on next generation growth and development in Arabidopsis.

Elwell AL, Gronwall DS, Miller ND, Spalding EP, Brooks TL.

Plant Cell Environ. 2011 Feb;34(2):291-301. doi: 10.1111/j.1365-3040.2010.02243.x. Epub 2010 Nov 12.


Detection of a gravitropism phenotype in glutamate receptor-like 3.3 mutants of Arabidopsis thaliana using machine vision and computation.

Miller ND, Durham Brooks TL, Assadi AH, Spalding EP.

Genetics. 2010 Oct;186(2):585-93. doi: 10.1534/genetics.110.118711. Epub 2010 Jul 20.


The inside view on plant growth.

Spalding EP.

Nat Methods. 2010 Jul;7(7):506-7. doi: 10.1038/nmeth0710-506. No abstract available.


A role for ABCB19-mediated polar auxin transport in seedling photomorphogenesis mediated by cryptochrome 1 and phytochrome B.

Wu G, Cameron JN, Ljung K, Spalding EP.

Plant J. 2010 Apr;62(2):179-91. doi: 10.1111/j.1365-313X.2010.04137.x. Epub 2010 Jan 18.


Plasticity of Arabidopsis root gravitropism throughout a multidimensional condition space quantified by automated image analysis.

Brooks TL, Miller ND, Spalding EP.

Plant Physiol. 2010 Jan;152(1):206-16. doi: 10.1104/pp.109.145292. Epub 2009 Nov 18.


Computer vision as a tool to study plant development.

Spalding EP.

Methods Mol Biol. 2009;553:317-26. doi: 10.1007/978-1-60327-563-7_16. Review.


Auxin transport into cotyledons and cotyledon growth depend similarly on the ABCB19 Multidrug Resistance-like transporter.

Lewis DR, Wu G, Ljung K, Spalding EP.

Plant J. 2009 Oct;60(1):91-101. doi: 10.1111/j.1365-313X.2009.03941.x. Epub 2009 Jun 5.


HYPOTrace: image analysis software for measuring hypocotyl growth and shape demonstrated on Arabidopsis seedlings undergoing photomorphogenesis.

Wang L, Uilecan IV, Assadi AH, Kozmik CA, Spalding EP.

Plant Physiol. 2009 Apr;149(4):1632-7. doi: 10.1104/pp.108.134072. Epub 2009 Feb 11.


Glutamate receptor subtypes evidenced by differences in desensitization and dependence on the GLR3.3 and GLR3.4 genes.

Stephens NR, Qi Z, Spalding EP.

Plant Physiol. 2008 Feb;146(2):529-38. Epub 2007 Dec 27.


Separate functions for nuclear and cytoplasmic cryptochrome 1 during photomorphogenesis of Arabidopsis seedlings.

Wu G, Spalding EP.

Proc Natl Acad Sci U S A. 2007 Nov 20;104(47):18813-8. Epub 2007 Nov 14.

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