Publications

Submitted or Under Review

-none-

 

2017

Sparks EE and Benfey PN, “The contribution of root systems to plant nutrient acquisition” Plant macro-nutrient use efficiency: molecular and genomic perspectives. Plant macro-nutrient use efficiency: molecular and genomic perspectives2017, Eds. Mohammad Anwar Hossain, Takehiro Kamiya, David J. Burrit, Toru Fujiwara and Lam-Son Phan Tran. Elsevier Book.

Drapek C, Sparks EE and Benfey PN, “Uncovering gene regulatory networks controlling plant cell differentiation” Trends in Genetics http://www.cell.com/trends/genetics/fulltext/S0168-9525(17)30083-5

Bucksch A, Atta-Boateng A, Azihou AF, Battogtokh D, Baumgartner A, Binder B, Braybrook SA, Chang C, Coneva V, DeWitt TJ, Fletcher AG, Gehan MA, Diaz-Martinez DH, Hong L, Iyer-Pascuzzi A, Klein LL, Leiboff S, Li M, Lynch JP, Maizel A, Maloff JN, Markelz RJ, Martinez CC, Miller LA, Mio W, Palubicki W, Poorter H, Pradal C, Price CA, Puttonen E, Reese J, Rellan-Alvarez R, Spalding EP, Sparks EE, Topp CN, Williams JH and Chitwood DH. “Morphological Plant Modeling: Unleashing geometric and topological potential within the plant sciences” Frontiers in Plant Science, Plant Biophysics and Modeling, 2017 Jun. http://journal.frontiersin.org/article/10.3389/fpls.2017.00900/

Balduzzi M, Binder B, Bucksch A, Chang C, Hong L, Iyer-Pascuzzi A, Pradal C and Sparks EE“Reshaping plant biology: qualitative and quantitative plant morphology” Frontiers in Plant Science, Plant Biophysics and Modeling, 2017 Feb. http://journal.frontiersin.org/article/10.3389/fpls.2017.00117/

Sparks EE and Benfey PN, “Tissue-specific transcriptome profiling in Arabidopsis roots” Plant Genomics, Methods in Molecular Biology, 2017 Vol. 1610, Ed. Wolfgang Busch. https://link.springer.com/protocol/10.1007/978-1-4939-7003-2_8

 

2016

Sparks EE, Drapek C, Gaudinier A, Li S, Ansariola M, Shen N, Hennacy JH, Zhang J, Turco G, Petricka JJ, Foret J, Hartemink AJ, Gordân R, Megraw M, Brady SM and Benfey PN.  “Establishment of expression in the SHORTROOT-SCARECROW transcriptional cascade through opposing activities of both activators and repressors.” Developmental Cell, 2016 Dec; 39(5):585-596. http://www.cell.com/developmental-cell/pdf/S1534-5807(16)30681-5.pdf

 

2015

Wachsman, G*, Sparks EE* and Benfey PN, “Genes and networks regulating root anatomy and architecture” New Phytologist, 2015 Oct; 208(1):26-38. *Authors contributed equally to this work. http://onlinelibrary.wiley.com/doi/10.1111/nph.13469/abstract

Liberman LM, Sparks EE, Petricka JJ, Moreno-Risueño M and Benfey PN, “MYB36 regulates the transition from proliferation to differentiation in the Arabidopsis root“ PNAS, 2015 Sept; 112(39):12099-12104. http://www.pnas.org/content/112/39/12099.abstract

Sparks EE and Benfey PN, “Identifying gene regulatory networks in Arabidopsis by in silico prediction, Yeast-1-Hybrid and inducible gene profiling assays” Plant Cell Division, Methods in Molecular Biology, 2015 Vol. 1370, Ed. Marie-Cecile Caillaud. http://link.springer.com/protocol/10.1007%2F978-1-4939-3142-2_3

 

2014

Sparks EE, Imai A, Hasebe M and Benfey PN. “Developmental Regulation and De Novo Formation of Stem Cells in Plants” Stem Cells: From Basic Research to Therapy: Basic Stem Cell Biology, Tissue Formation during Development, and Model Organisms. Volume 1 of Stem Cells. Eds. Federico Calegari and Claudia Waskow. CRC Press, 2014. http://www.crcnetbase.com/doi/pdfplus/10.1201/b16487-18

Sparks EE and Benfey PN, “HEC of a job regulating stem cells” Developmental Cell Preview, 2014 Feb; 24(28):349-350. http://www.cell.com/developmental-cell/abstract/S1534-5807(14)00099-9

 

2013

Sparks E*, Wachsman G* and Benfey PN, “Spatiotemporal signaling in plant development” Nature Reviews Genetics, 2013 Sept; 14:631-44. *Authors contributed equally to this work. http://www.ncbi.nlm.nih.gov/pubmed/23949543

 

2012

Walter TJ, Sparks EE and Huppert SS, “3-Dimensional resin casting and imaging of mouse portal vein or intrahepatic bile duct system” J. Vis Exp., 2012 Oct; 25(68):e4272. http://www.jove.com/video/4272/3-dimensional-resin-casting-imaging-mouse-portal-vein-or-intrahepatic

Vanderpool CV, Sparks EE, Huppert KA and Huppert SS, “Genetic interactions between Hepatocyte Nuclear Factor-6 and Notch signaling regulate mouse intrahepatic bile duct development in vivo” Hepatology, 2012 Jan; 55(1):233-43. http://onlinelibrary.wiley.com/doi/10.1002/hep.24631/abstract

 

2011

Sparks EE, Perrien DS, Huppert KA, Peterson TE and Huppert SS, “Defects in hepatic Notch signaling result in disruption of the communicating intrahepatic bile duct network in mice” Disease Models & Mechanisms, 2011 May; 4(3):359-67. http://dmm.biologists.org/content/4/3/359.long

 

2010

Sparks EE, Huppert KA, Brown MA, Washington MK and Huppert SS, “Notch signaling regulates formation of the three-dimensional architecture of intrahepatic bile ducts in mice” Hepatology, 2010 Apr; 51(4):1391-1400. http://onlinelibrary.wiley.com/doi/10.1002/hep.23431/abstract

 

2009

Hubchak SC, Sparks EE, Hayashida T and Schnaper HW, “Rac1 promotes TGF-beta-stimulated mesangial cell type I collagen expression through a PI3K/Akt-dependent mechanism” Am J Physiol Renal Physiol., 2009 Nov; 297(5):1316-23. http://ajprenal.physiology.org/content/297/5/F1316.long