Recent Publications (2005 - present)

  1. Haruta M, Gray WM, Sussman MR. 2015. Regulation of the plasma membrane proton pump (H-ATPase) by phosphorylation. Curr Opin Plant Biol 28:68-75. (Pubmed) (DOI)
  2. Delaux PM, Radhakrishnan GV, Jayaraman D, Cheema J, Malbreil M, Volkening JD, Sekimoto H, Nishiyama T, Melkonian M, Pokorny L, Rothfels CJ, Sederoff HW, Stevenson DW, Surek B, Zhang Y, Sussman MR, Dunand C, Morris RJ, Roux C, Wong GK, Oldroyd GE, Ane JM. 2015. Algal ancestor of land plants was preadapted for symbiosis. Proc Natl Acad Sci U S A 112:13390-5. (Pubmed) (DOI) (PDF)
  3. Holden MT, Carter MC, Wu CH, Wolfer J, Codner E, Sussman MR, Lynn DM, Smith LM. 2015. Photolithographic Synthesis of High-Density DNA and RNA Arrays on Flexible, Transparent, and Easily Subdivided Plastic Substrates. Anal Chem 87:11420-8. (Pubmed) (DOI) (PDF)
  4. Minkoff BB, Stecker KE, Sussman MR. 2015. Rapid Phosphoproteomic Effects of Abscisic Acid (ABA) on Wild-Type and ABA Receptor-Deficient A. thaliana Mutants. Mol Cell Proteomics 14:1169-82. (Pubmed) (DOI)
  5. Nguyen TT, Volkening JD, Rose CM, Venkateshwaran M, Westphall MS, Coon JJ, Ane JM, Sussman MR. 2015. Potential regulatory phosphorylation sites in a Medicago truncatula plasma membrane proton pump implicated during early symbiotic signaling in roots. FEBS Lett 589:2186-93. (Pubmed) (DOI)
  6. Traeger LL, Volkening JD, Moffett H, Gallant JR, Chen PH, Novina CD, Phillips GN Jr, Anand R, Wells GB, Pinch M, Guth R, Unguez GA, Albert JS, Zakon H, Sussman MR, Samanta MP. 2015. Unique patterns of transcript and miRNA expression in the South American strong voltage electric eel (Electrophorus electricus). BMC Genomics 16:243. (Pubmed) (DOI) (PDF)
  7. Gallant JR, Traeger LL, Volkening JD, Moffett H, Chen PH, Novina CD, Phillips GN Jr, Anand R, Wells GB, Pinch M, Guth R, Unguez GA, Albert JS, Zakon HH, Samanta MP, Sussman MR. 2014. Genomic basis for the convergent evolution of electric organs. Science 344:1522-5. (Pubmed) (DOI) (Full Text) (PDF)
  8. Haruta M, Sabat G, Stecker K, Minkoff BB, Sussman MR. 2014. A peptide hormone and its receptor protein kinase regulate plant cell expansion. Science 343:408-11. (Pubmed) (DOI) (Full Text) (PDF)
  9. Ivancic MM, Irving AA, Jonakin KG, Dove WF, Sussman MR. 2014. The concentrations of EGFR, LRG1, ITIH4, and F5 in serum correlate with the number of colonic adenomas in ApcPirc/+ rats. Cancer Prev Res (Phila) 7:1160-9. (Pubmed) (DOI)
  10. Minkoff BB, Burch HL, Sussman MR. 2014. A pipeline for 15N metabolic labeling and phosphoproteome analysis in Arabidopsis thaliana. Methods Mol Biol 1062:353-79. (Pubmed) (DOI)
  11. Rodrigues RB, Sabat G, Minkoff BB, Burch HL, Nguyen TT, Sussman MR. 2014. Expression of a translationally fused TAP-tagged plasma membrane proton pump in Arabidopsis thaliana. Biochemistry 53:566-78. (Pubmed) (DOI)
  12. Spartz AK, Ren H, Park MY, Grandt KN, Lee SH, Murphy AS, Sussman MR, Overvoorde PJ, Gray WM. 2014. SAUR Inhibition of PP2C-D Phosphatases Activates Plasma Membrane H+-ATPases to Promote Cell Expansion in Arabidopsis. Plant Cell 26:2129-2142. (Pubmed) (DOI)
  13. Stecker KE, Minkoff BB, Sussman MR. 2014. Phosphoproteomic Analyses Reveal Early Signaling Events in the Osmotic Stress Response. Plant Physiol 165:1171-1187. (Pubmed) (DOI) (PDF)
  14. Ivancic MM, Huttlin EL, Chen X, Pleiman JK, Irving AA, Hegeman AD, Dove WF, Sussman MR. 2013. Candidate serum biomarkers for early intestinal cancer using 15N metabolic labeling and quantitative proteomics in the ApcMin/+ mouse. J Proteome Res 12:4152-66. (Pubmed) (DOI)
  15. Su SH, Bush SM, Zaman N, Stecker K, Sussman MR, Krysan P. 2013. Deletion of a tandem gene family in Arabidopsis: increased MEKK2 abundance triggers autoimmunity when the MEKK1-MKK1/2-MPK4 signaling cascade is disrupted. Plant Cell 25:1895-910. (Pubmed) (DOI) (PDF)
  16. Veluchamy A, Lin X, Maumus F, Rivarola M, Bhavsar J, Creasy T, O'Brien K, Sengamalay NA, Tallon LJ, Smith AD, Rayko E, Ahmed I, Le Crom S, Farrant GK, Sgro JY, Olson SA, Bondurant SS, Allen AE, Rabinowicz PD, Sussman MR, Bowler C, Tirichine L. 2013. Insights into the role of DNA methylation in diatoms by genome-wide profiling in Phaeodactylum tricornutum. Nat Commun 4:2091. (Pubmed) (DOI) (PDF)
  17. Venkateshwaran M, Volkening JD, Sussman MR, Ane JM. 2013. Symbiosis and the social network of higher plants. Curr Opin Plant Biol 16:118-27. (Pubmed) (DOI)
  18. Haruta M, Sussman MR. 2012. The effect of a genetically reduced plasma membrane protonmotive force on vegetative growth of Arabidopsis. Plant Physiol 158:1158-71. (Pubmed) (DOI) (PDF)
  19. Heinrich KW, Wolfer J, Hong D, LeBlanc M, Sussman MR. 2012. DNA millichips as a low-cost platform for gene expression analysis. Plant Physiol 159:548-57. (Pubmed) (DOI) (PDF)
  20. Rose CM, Venkateshwaran M, Grimsrud PA, Westphall MS, Sussman MR, Coon JJ, Ane JM. 2012. Medicago PhosphoProtein Database: a repository for Medicago truncatula phosphoprotein data. Front Plant Sci 3:122. (Pubmed) (DOI) (PDF)
  21. Rose CM, Venkateshwaran M, Volkening JD, Grimsrud PA, Maeda J, Bailey DJ, Park K, Howes-Podoll M, den Os D, Yeun LH, Westphall MS, Sussman MR, Ane JM, Coon JJ. 2012. Rapid phosphoproteomic and transcriptomic changes in the rhizobia-legume symbiosis. Mol Cell Proteomics 11:724-44. (Pubmed) (DOI) (PDF)
  22. Volkening JD, Bailey DJ, Rose CM, Grimsrud PA, Howes-Podoll M, Venkateshwaran M, Westphall MS, Ane JM, Coon JJ, Sussman MR. 2012. A proteogenomic survey of the Medicago truncatula genome. Mol Cell Proteomics 11:933-44. (Pubmed) (DOI) (PDF)
  23. Zhang N, Venkateshwaran M, Boersma M, Harms A, Howes-Podoll M, den Os D, Ane JM, Sussman MR. 2012. Metabolomic profiling reveals suppression of oxylipin biosynthesis during the early stages of legume-rhizobia symbiosis. FEBS Lett 586:3150-8. (Pubmed) (DOI)
  24. Kline-Jonakin KG, Barrett-Wilt GA, Sussman MR. 2011. Quantitative plant phosphoproteomics. Curr Opin Plant Biol 14:507-11. (Pubmed) (DOI) (PDF)
  25. Grimsrud PA, den Os D, Wenger CD, Swaney DL, Schwartz D, Sussman MR, Ane JM, Coon JJ. 2010. Large-scale phosphoprotein analysis in Medicago truncatula roots provides insight into in vivo kinase activity in legumes. Plant Physiol 152:19-28. (Pubmed) (DOI) (PDF)
  26. Haruta M, Burch HL, Nelson RB, Barrett-Wilt G, Kline KG, Mohsin SB, Young JC, Otegui MS, Sussman MR. 2010. Molecular characterization of mutant Arabidopsis plants with reduced plasma membrane proton pump activity. J Biol Chem 285:17918-29. (Pubmed) (DOI) (PDF)
  27. Kline KG, Barrett-Wilt GA, Sussman MR. 2010. In planta changes in protein phosphorylation induced by the plant hormone abscisic acid. Proc Natl Acad Sci U S A 107:15986-91. (Pubmed) (DOI) (PDF)
  28. Kline KG, Sussman MR, Jones AM. 2010. Abscisic acid receptors. Plant Physiol 154:479-82. (Pubmed) (DOI) (PDF)
  29. Kline KG, Sussman MR. 2010. Protein quantitation using isotope-assisted mass spectrometry. Annu Rev Biophys 39:291-308. (Pubmed) (DOI)
  30. Birney E, Hudson TJ, Green ED, Gunter C, Eddy S, Rogers J, Harris JR, Ehrlich SD, Apweiler R, Austin CP, Berglund L, Bobrow M, Bountra C, Brookes AJ, Cambon-Thomsen A, Carter NP, Chisholm RL, Contreras JL, Cooke RM, Crosby WL, Dewar K, Durbin R, Dyke SO, Ecker JR, El Emam K, Feuk L, Gabriel SB, Gallacher J, Gelbart WM, Granell A, Guarner F, Hubbard T, Jackson SA, Jennings JL, Joly Y, Jones SM, Kaye J, Kennedy KL, Knoppers BM, Kyrpides NC, Lowrance WW, Luo J, MacKay JJ, Martin-Rivera L, McCombie WR, McPherson JD, Miller L, Miller W, Moerman D, Mooser V, Morton CC, Ostell JM, Ouellette BF, Parkhill J, Raina PS, Rawlings C, Scherer SE, Scherer SW, Schofield PN, Sensen CW, Stodden VC, Sussman MR, Tanaka T, Thornton J, Tsunoda T, Valle D, Vuorio EI, Walker NM, Wallace S, Weinstock G, Whitman WB, Worley KC, Wu C, Wu J, Yu J. 2009. Prepublication data sharing. Nature 461:168-70. (Pubmed) (DOI) (PDF)
  31. Huttlin EL, Chen X, Barrett-Wilt GA, Hegeman AD, Halberg RB, Harms AC, Newton MA, Dove WF, Sussman MR. 2009. Discovery and validation of colonic tumor-associated proteins via metabolic labeling and stable isotopic dilution. Proc Natl Acad Sci U S A 106:17235-40. (Pubmed) (DOI) (PDF)
  32. Jones AM, Sussman MR. 2009. A binding resolution. Plant Physiol 150:3-5. (Pubmed) (DOI) (PDF)
  33. Sussman MR, Huttlin EL, Wohlbach DJ. 2009. Democratization and integration of genomic profiling tools. Methods Mol Biol 553:373-93. (Pubmed) (DOI)
  34. Sussman MR, Phillips GN Jr. 2009. Plant science. How plant cells go to sleep for a long, long time. Science 326:1356-7. (Pubmed) (DOI)
  35. Bowler C, Allen AE, Badger JH, Grimwood J, Jabbari K, Kuo A, Maheswari U, Martens C, Maumus F, Otillar RP, Rayko E, Salamov A, Vandepoele K, Beszteri B, Gruber A, Heijde M, Katinka M, Mock T, Valentin K, Verret F, Berges JA, Brownlee C, Cadoret JP, Chiovitti A, Choi CJ, Coesel S, De Martino A, Detter JC, Durkin C, Falciatore A, Fournet J, Haruta M, Huysman MJ, Jenkins BD, Jiroutova K, Jorgensen RE, Joubert Y, Kaplan A, Kroger N, Kroth PG, La Roche J, Lindquist E, Lommer M, Martin-Jezequel V, Lopez PJ, Lucas S, Mangogna M, McGinnis K, Medlin LK, Montsant A, Oudot-Le Secq MP, Napoli C, Obornik M, Parker MS, Petit JL, Porcel BM, Poulsen N, Robison M, Rychlewski L, Rynearson TA, Schmutz J, Shapiro H, Siaut M, Stanley M, Sussman MR, Taylor AR, Vardi A, von Dassow P, Vyverman W, Willis A, Wyrwicz LS, Rokhsar DS, Weissenbach J, Armbrust EV, Green BR, Van de Peer Y, Grigoriev IV. 2008. The Phaeodactylum genome reveals the evolutionary history of diatom genomes. Nature 456:239-44. (Pubmed) (DOI) (PDF)
  36. Chan CW, Wohlbach DJ, Rodesch MJ, Sussman MR. 2008. Transcriptional changes in response to growth of Arabidopsis in high external calcium. FEBS Lett 582:967-76. (Pubmed) (DOI)
  37. Cui Q, Lewis IA, Hegeman AD, Anderson ME, Li J, Schulte CF, Westler WM, Eghbalnia HR, Sussman MR, Markley JL. 2008. Metabolite identification via the Madison Metabolomics Consortium Database. Nat Biotechnol 26:162-4. (Pubmed) (DOI)
  38. Haruta M, Monshausen G, Gilroy S, Sussman MR. 2008. A cytoplasmic Ca2+ functional assay for identifying and purifying endogenous cell signaling peptides in Arabidopsis seedlings: identification of AtRALF1 peptide. Biochemistry 47:6311-21. (Pubmed) (DOI)
  39. McIlwain S, Page D, Huttlin EL, Sussman MR. 2008. Matching isotopic distributions from metabolically labeled samples. Bioinformatics 24:i339-47. (Pubmed) (DOI) (PDF)
  40. Mock T, Samanta MP, Iverson V, Berthiaume C, Robison M, Holtermann K, Durkin C, Bondurant SS, Richmond K, Rodesch M, Kallas T, Huttlin EL, Cerrina F, Sussman MR, Armbrust EV. 2008. Whole-genome expression profiling of the marine diatom Thalassiosira pseudonana identifies genes involved in silicon bioprocesses. Proc Natl Acad Sci U S A 105:1579-84. (Pubmed) (DOI) (PDF)
  41. Wohlbach DJ, Quirino BF, Sussman MR. 2008. Analysis of the Arabidopsis histidine kinase ATHK1 reveals a connection between vegetative osmotic stress sensing and seed maturation. Plant Cell 20:1101-17. (Pubmed) (DOI) (PDF)
  42. Hegeman AD, Schulte CF, Cui Q, Lewis IA, Huttlin EL, Eghbalnia H, Harms AC, Ulrich EL, Markley JL, Sussman MR. 2007. Stable isotope assisted assignment of elemental compositions for metabolomics. Anal Chem 79:6912-21. (Pubmed) (DOI)
  43. Huttlin EL, Hegeman AD, Harms AC, Sussman MR. 2007. Comparison of full versus partial metabolic labeling for quantitative proteomics analysis in Arabidopsis thaliana. Mol Cell Proteomics 6:860-81. (Pubmed) (DOI) (PDF)
  44. Huttlin EL, Hegeman AD, Harms AC, Sussman MR. 2007. Prediction of error associated with false-positive rate determination for peptide identification in large-scale proteomics experiments using a combined reverse and forward peptide sequence database strategy. J Proteome Res 6:392-8. (Pubmed) (DOI) (PDF)
  45. Lecchi S, Nelson CJ, Allen KE, Swaney DL, Thompson KL, Coon JJ, Sussman MR, Slayman CW. 2007. Tandem phosphorylation of Ser-911 and Thr-912 at the C terminus of yeast plasma membrane H+-ATPase leads to glucose-dependent activation. J Biol Chem 282:35471-81. (Pubmed) (DOI) (PDF)
  46. Lewis IA, Schommer SC, Hodis B, Robb KA, Tonelli M, Westler WM, Sussman MR, Markley JL. 2007. Method for determining molar concentrations of metabolites in complex solutions from two-dimensional 1H-13C NMR spectra. Anal Chem 79:9385-90. (Pubmed) (DOI) (PDF)
  47. Markley JL, Anderson ME, Cui Q, Eghbalnia HR, Lewis IA, Hegeman AD, Li J, Schulte CF, Sussman MR, Westler WM, Ulrich EL, Zolnai Z. 2007. New bioinformatics resources for metabolomics. Pac Symp Biocomput :157-68. (Pubmed) (DOI)
  48. McIlwain S, Page D, Huttlin EL, Sussman MR. 2007. Using dynamic programming to create isotopic distribution maps from mass spectra. Bioinformatics 23:i328-36. (Pubmed) (DOI) (PDF)
  49. Nelson CJ, Huttlin EL, Hegeman AD, Harms AC, Sussman MR. 2007. Implications of 15N-metabolic labeling for automated peptide identification in Arabidopsis thaliana. Proteomics 7:1279-92. (Pubmed) (DOI)
  50. Nelson DC, Wohlbach DJ, Rodesch MJ, Stolc V, Sussman MR, Samanta MP. 2007. Identification of an in vitro transcription-based artifact affecting oligonucleotide microarrays. FEBS Lett 581:3363-70. (Pubmed) (DOI)
  51. Hegeman AD, Rodriguez M, Han BW, Uno Y, Phillips GN Jr, Hrabak EM, Cushman JC, Harper JF, Harmon AC, Sussman MR. 2006. A phyloproteomic characterization of in vitro autophosphorylation in calcium-dependent protein kinases. Proteomics 6:3649-64. (Pubmed) (DOI)
  52. Mahonen AP, Higuchi M, Tormakangas K, Miyawaki K, Pischke MS, Sussman MR, Helariutta Y, Kakimoto T. 2006. Cytokinins regulate a bidirectional phosphorelay network in Arabidopsis. Curr Biol 16:1116-22. (Pubmed) (DOI) (PDF)
  53. Nelson CJ, Hegeman AD, Harms AC, Sussman MR. 2006. A quantitative analysis of Arabidopsis plasma membrane using trypsin-catalyzed (18)O labeling. Mol Cell Proteomics 5:1382-95. (Pubmed) (DOI) (PDF)
  54. Pischke MS, Huttlin EL, Hegeman AD, Sussman MR. 2006. A transcriptome-based characterization of habituation in plant tissue culture. Plant Physiol 140:1255-78. (Pubmed) (DOI) (PDF)
  55. Binkowski BF, Richmond KE, Kaysen J, Sussman MR, Belshaw PJ. 2005. Correcting errors in synthetic DNA through consensus shuffling. Nucleic Acids Res 33:e55. (Pubmed) (DOI) (PDF)
  56. Bitto E, Bingman CA, Allard ST, Wesenberg GE, Aceti DJ, Wrobel RL, Frederick RO, Sreenath H, Vojtik FC, Jeon WB, Newman CS, Primm J, Sussman MR, Fox BG, Markley JL, Phillips GN Jr. 2005. The structure at 2.4 A resolution of the protein from gene locus At3g21360, a putative Fe(II)/2-oxoglutarate-dependent enzyme from Arabidopsis thaliana. Acta Crystallogr Sect F Struct Biol Cryst Commun 61:469-72. (Pubmed) (DOI) (PDF)
  57. Fox BG, Malone TE, Johnson KA, Madson SE, Aceti D, Bingman CA, Blommel PG, Buchan B, Burns B, Cao J, Cornilescu C, Doreleijers J, Ellefson J, Frederick R, Geetha H, Hruby D, Jeon WB, Kimball T, Kunert J, Markley JL, Newman C, Olson A, Peterson FC, Phillips GN Jr, Primm J, Ramirez B, Rosenberg NS, Runnels M, Seder K, Shaw J, Smith DW, Sreenath H, Song J, Sussman MR, Thao S, Troestler D, Tyler E, Tyler R, Ulrich E, Vinarov D, Vojtik F, Volkman BF, Wesenberg G, Wrobel RL, Zhang J, Zhao Q, Zolnai Z. 2005. X-ray structure of Arabidopsis At1g77680, 12-oxophytodienoate reductase isoform 1. Proteins 61:206-8. (Pubmed) (DOI) (PDF)
  58. Jeon WB, Aceti DJ, Bingman CA, Vojtik FC, Olson AC, Ellefson JM, McCombs JE, Sreenath HK, Blommel PG, Seder KD, Burns BT, Geetha HV, Harms AC, Sabat G, Sussman MR, Fox BG, Phillips GN Jr. 2005. High-throughput purification and quality assurance of Arabidopsis thaliana proteins for eukaryotic structural genomics. J Struct Funct Genomics 6:143-7. (Pubmed) (DOI)
  59. Stolc V, Samanta MP, Tongprasit W, Sethi H, Liang S, Nelson DC, Hegeman A, Nelson C, Rancour D, Bednarek S, Ulrich EL, Zhao Q, Wrobel RL, Newman CS, Fox BG, Phillips GN Jr, Markley JL, Sussman MR. 2005. Identification of transcribed sequences in Arabidopsis thaliana by using high-resolution genome tiling arrays. Proc Natl Acad Sci U S A 102:4453-8. (Pubmed) (DOI) (PDF)