Recent Publications (2005 - present)

  1. Venkateshwaran M, Volkening JD, Sussman MR, Ane JM. 2012. Symbiosis and the social network of higher plants. Curr Opin Plant Biol. Epub ahead of print. (Pubmed)
  2. 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)
  3. 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)
  4. 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)
  5. 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)
  6. 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)
  7. 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)
  8. Kline-Jonakin KG, Barrett-Wilt GA, Sussman MR. 2011. Quantitative plant phosphoproteomics. Curr Opin Plant Biol. 14:507-11. (Pubmed)
  9. Kline KG, Sussman MR, Jones AM. 2010. Abscisic acid receptors. Plant Physiol. 154:479-82. (Pubmed)
  10. 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)
  11. 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)
  12. Kline KG, Sussman MR. 2010. Protein quantitation using isotope-assisted mass spectrometry. Annu Rev Biophys. 39:291-308. (Pubmed)
  13. 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)
  14. Sussman MR, Phillips GN Jr. 2009. Plant science. How plant cells go to sleep for a long, long time. Science. 326:1356-7. (Pubmed)
  15. 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)
  16. 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)
  17. Jones AM, Sussman MR. 2009. A binding resolution. Plant Physiol. 150:3-5. (Pubmed)
  18. Sussman MR, Huttlin EL, Wohlbach DJ. 2009. Democratization and integration of genomic profiling tools. Methods Mol Biol. 553:373-93. (Pubmed)
  19. 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)
  20. McIlwain S, Page D, Huttlin EL, Sussman MR. 2008. Matching isotopic distributions from metabolically labeled samples. Bioinformatics. 24:i339-47. (Pubmed)
  21. 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)
  22. 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)
  23. 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)
  24. 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)
  25. 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)
  26. 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)
  27. 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)
  28. 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)
  29. 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)
  30. 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)
  31. 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)
  32. 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)
  33. 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)
  34. 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)
  35. 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)
  36. 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)
  37. 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)
  38. 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)
  39. 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)
  40. 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)
  41. 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)
  42. 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)
  43. 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)