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Work of the Proteomics Core Facility Umeå in publications

This list includes publications, in which scientific work from services, collaborations and research at the facility are included.

  1. Wang Z, Jönsson LJ (2018). Comparison of catalytically non-productive adsorption of fungal proteins to lignins and pseudo-lignin using isobaric mass tagging. Bioresour Technol. doi: 10.1016/j.biortech.2018.07.149. Open abstract in Pubmed.
  2. Zhang X, Dominguez PG, Kumar M, Bygdell J, Miroshnichenko S, Sundberg B, Wingsle G, Niittylä T (2018). Cellulose synthase stoichiometry in Aspen differs from Arabidopsis and Norway spruce. Plant Physiol. 177: 1096-1107. doi:10.1104/pp.18.00394. Open abstract in Pubmed.
  3. Kieselbach T, Cheregi O, Green BR, Funk C (2018). Proteomic analysis of the phycobiliprotein antenna of the cryptophyte alga Guillardia theta cultured under different light intensities. Photosynth Res. 135: 149-163. doi:10.1007/s11120-017-0400-0. Open abstract in Pubmed.
  4. Bygdell J, Srivastava V, Obudulu O, Srivastava MK, Nilsson R, Sundberg B, Trygg J, Mellerowicz EJ, Wingsle G (2017). Protein expression in tension wood formation monitored at high tissue resolution in Populus. J Exp Bot. 68: 3405-3417. doi: 10.1093/jxb/erx186. Open abstract in Pubmed.
  5. Espaillat A, Forsmo O, El Biari K, Björk R, Lemaitre B, Trygg J, Cañada FJ, de Pedro MA, Cava F. (2016) Chemometric analysis of bacterial peptidoglycan reveals atypical modifications that empower the cell wall against predatory enzymes and fly innate immunity. J Am Chem Soc 138: 9193-9204. doi: 10.1021/jacs.6b04430. Open abstract in Pubmed.
  6. Kieselbach T, Oscarsson J (2016). Dataset of the proteome of purified outer membrane vesicles from the human pathogen Aggregatibacter actinomycetemcomintans. Data Brief. 10: 426-431. doi: 10.1016/j.dib.2016.12.015. Open abstract in Pubmed.
  7. Obudulu O, Bygdell J, Sundberg B, Moritz T, Hvidsten TR, Trygg J, Wingsle G. (2016) Quantitative proteomics reveals protein profiles underlying major transitions in aspen wood development. BMC Genomics. 17: 119. doi: 10.1186/s12864-016-2458-z. Open abstract in Pubmed.
  8. Xu H, Bygdell J, Wingsle G, Byström AS. (2015) Yeast Elongator protein Elp1p does not undergo proteolytic processing in exponentially growing cells. Microbiologyopen 4: 867-878. doi: 10.1002/mbo3.285. Open abstract in Pubmed.
  9. Kieselbach T, Zijnge V, Granström E, Oscarsson J. (2015) Proteomics of Aggregatibacter actinomycetemcomitans outer membrane vesicles. PLoS One 10:e0138591. doi: 10.1371/journal.pone.0138591. Open abstract in Pubmed.
  10. vanTeeseling MC, Mesman RJ, Kuru E, Espaillat A, Cava F, Brun YV, VanNieuwenhze MS, Kartal B, van Niftrik L. (2015) Anammox Planctomycetes have a peptidoglycan cell wall. Nat Commun 6: 6878. doi: 10.1038/ncomms7878. Open abstract in Pubmed.
  11. Trupp M, Jonsson P, Ohrfelt A, Zetterberg H, Obudulu O, Malm L, Wuolikainen A, Linder J, Moritz T, Blennow K, Antti H, Forsgren L. (2015) Metabolite and peptide levels in plasma and CSF differentiating healthy controls from patients with newly diagnosed Parkinson's disease. J Parkinsons Dis 4: 549-560. doi: 10.3233/JPD-140389. Open abstract in Pubmed.
  12. Srivastava V, Obudulu O, Bygdell J, Löfstedt T, Rydén P, Nilsson R, Ahnlund M, Johansson A, Jonsson P, Freyhult E, Qvarnström J, Karlsson J, Melzer M, Moritz T, Trygg J, Hvidsten TR, Wingsle G. (2013) OnPLS integration of transcriptomic, proteomic and metabolomic data shows multi-level oxidative stress responses in the cambium of transgenic hipI- superoxide dismutase Populus plants. BMC Genomics 14, 893. doi: 10.1186/1471-2164-14-893. Open abstract in Pubmed.
  13. Businge E., Bygdell J., Wingsle G., Moritz T., Egertsdotter U. (2013) The effect of carbohydrates and osmoticum on storage reserve accumulation and germination of Norway spruce somatic embryos. Physiol Plant 149, 273-285. doi: 10.1111/ppl.12039. Open abstract in Pubmed.
  14. Haniewicz P., De Sanctis D., Büchel C., Schröder W.P., Loi M.C., Kieselbach T., Bochtler M. and Piano D. (2013) Isolation of monomeric photosystem II that retains the subunit PsbS. Photosynth Res. 118, 199-207. doi: 10.1007/s11120-013-9914. Open abstract in Pubmed.
  15. Roberts I.N., Lam X.T., Miranda H., Kieselbach T. and Funk C. (2012) Degradation of PsbO by the Deg Protease HhoA Is Thioredoxin Dependent. PLoS One.7:e45713. Open abstract in Pubmed.
  16. Zijnge V., Kieselbach T. and Oscarsson J. (2012) Proteomics of protein secretion by Aggregatibacter actinomycetemcomitans. PLoS One 7:e41662. Open abstract in Pubmed.
  17. Niemiec M.S., Weise C.F., Wittung-Stafshede P. (2012). In vitro thermodynamic dissection of human coppepr transfer from chaperone to target protein. PLoS One 7:e36102. doi: 10.1371/journal.pone.0036102. Open abstract in Pubmed.
  18. Jun H., Kieselbach T. and Jönsson LJ. (2012). Comparative proteome analysis of Saccharomyces cerevisiae: A global overview of in vivo targets of the yeast activator protein 1. BMC Genomics 13, 230. Open abstract in Pubmed.
  19. Chibani K., Tarrago L., Gualberto J.M., Wingsle G., Rey P., Jacquot J.P. and Rouhier N.. (2012). Atypical thioredoxins in poplar: the glutathione-dependent thioredoxin-like 2.1 supports the activity of target enzymes possessing a single redox active cysteine. Plant Physiol 159, 592-605. Open abstract in Pubmed.
  20. Shaikhali J., Norén L., de Dios Barajas-López J., Srivastava V., König J., Sauer U.H., Wingsle G., Dietz K.J. and Strand Å (2012). Redox-mediated mechanisms regulate DNA binding activity of the G-group of basic region leucine zipper (bZIP) transcription factors in Arabidopsis. J Biol Chem 287, 27510-25. Open abstract in Pubmed.
  21. Shaikhali J., de Dios Barajas-Lopéz J., Ötvös K., Kremnev D., Garcia A.S., Srivastava V., Wingsle G., Bako L. and Strand Å (2012). The CRYPTOCHROME1-dependent response to excess light is mediated through the transcriptional activators ZINC FINGER PROTEIN EXPRESSED IN INFLORESCENCE MERISTEM LIKE1 and ZML2 in Arabidopsis. Plant Cell 24, 3009-25. Open abstract in Pubmed.
  22. Selles, B., Hugo, M., Trujillo, M., Srivastava, V., Wingsle, G., Jacquot, J.P., Radi, R. and Rouhier, N. (2012). Hydroperoxide and peroxynitrite reductase activity of poplar thioredoxin-dependent glutathione peroxidase 5: kinetics, catalytic mechanism and oxidative inactivation. Biochem J. 442, 369-80. Open abstract in Pubmed.
  23. Zetterström P., Graffmo K.S., Andersen P.M., Brännström T. and Marklund S.L. (2011) Proteins that bind to misfolded mutant superoxide dismutase-1 in spinal cords from transgenic amyotrophic lateral sclerosis (ALS) model mice. J Biol Chem 286, 20130-6. Open abstract in Pubmed.
  24. Palm, M.E., Weise, C.F., Lundin, C., Wingsle, G., Nygren, Y., Björn, E., Naredi, P., Wolf-Watz, M. and Wittung-Stafshede P (2011). Cisplatin binds human copper chaperone Atox1 and promotes unfolding in vitro. Proc Natl Acad Sci U S A. 108, 6951-6. Open abstract in Pubmed.
  25. Elfving, N., Davoine, C., Benlloch, R., Blomberg, J., Brännström, K., Müller, D., Nilsson, A., Ulfstedt, M., Ronne, H., Wingsle, G., Nilsson, O., Björklund, S. (2011) The Arabidopsis thaliana Med25 mediator subunit integrates environmental cues to control plant development. Proc Natl Acad Sci U S A. 108, 8245-50. Open abstract in Pubmed.
  26. Jun, H., Kieselbach, T. and Jonsson, L.J. (2011). Enzyme production by filamentous fungi: Analysis of the secretome of Trichoderma reesei grown on unconventional carbon source. Microb. Cell Fact. 10, 68. Open abstract in Pubmed.
  27. Liu, J., Obi, I.R., Thanikkal. E.J., Kieselbach, T. and Francis, M.S. (2011). Phosphorylated CpxR Restricts Production of the RovA Global Regulator in Yersinia pseudotuberculosis. PLoS One 6, e23314. Open abstract in Pubmed.
  28. Hadrevi, J., Hellström, F., Kieselbach, T., Malm, C. and Pedrosa-Domellöf, F. (2011). Protein differences between human trapezius and vastus lateralis muscles determined with a proteomic approach. BMC Musculoskelet. Disord. 12, 181. Open abstract in Pubmed.
  29. Ekström, J.-O., Habayeb, M.S., Srivastava, V., Kieselbach, T., Wingsle, G. and Hultmark, D. (2011). Drosophila Nora virus capsid proteins differ from those of other picorna-like viruses, Virus Res. 160, 51-58. Open abstract in Pubmed.
  30. Granlund, I., Kieselbach, T., Alm, R., Schröder, W.P. and Emmanuelsson, C (2011). Clustering of MS spectra for improved protein identification rate and screening for protein variants and modifications by MALDI-MS/MS. J. Proteomics 74, 1190-1200. Open abstract in Pubmed.
  31. Kindgren, P., Benedict, C, Mohapatra, A., Piñas Fernández, A., Gough, SP, Hansson, M, Kieselbach, T. and Strand, Å (2011). A novel proteomic approach reveals a role for Mg-protoporphyrin IX in response to oxidative stress. Physiol. Plant. 141, 310-320. Open abstract in Pubmed.
  32. Lindahl, M., Mata-Cabana, A. and Kieselbach, T. (2011). The disulfide proteome and other reactive cysteine proteomes: analysis and functional significance. Antioxid. Redox Signal. 14, 1-62. Open abstract in Pubmed.
  33. Nilsson R, Bernfur K, Gustavsson N, Bygdell J, Wingsle G, Larsson C (2010). Proteomics of plasma membranes from poplar trees reveals tissue distribution of transporters, receptors, and proteins in cell wall formation. Mol Cell Proteomics. 9:368-387. Open abstract in Pubmed.
  34. Hall M, Mata-Cabana A, Lindahl AM, Florencino FJ, Åkerlund H-E, Schröder WP and Kieselbach T (2010) Thioredoxin targets of the plant chloroplast lumen and their implications for plastid function, PROTEOMICS, 10:987-1001. Open abstract in Pubmed.
  35. Ingelsson B, Shapiguzov A, Kieselbach T, Vener AV (2009. Peptidyl-Prolyl Isomerase Activity in Chloroplast Thylakoid Lumen is a Dispensable Function of Immunophilins in Arabidopsis thaliana. Plant Cell Physiol 50:1801-1814. Open abstract in Pubmed.
  36. Forsgren N, Lamont RJ, Persson K (2009). A crystallizable form of the Streptococcus gordonii surface antigen SspB C-domain obtained by limited proteolysis. Acta Crystallogr Sect F Struct Biol Cryst Commun. 65:712-714. Open abstract in Pubmed.
  37. Granlund I, Hall M, Kieselbach T, Schröder WP (2009). Light induced changes in protein expression and uniform regulation of transcription in the thylakoid lumen of Arabidopsis thaliana. PLoS ONE. 4:e5649. Open abstract in Pubmed.
  38. Bergemalm D, Forsberg K, Jonsson PA, Graffmo KS, Brännström T, Andersen PM, Antti H, Marklund SL (2009). Changes in the spinal cord proteome of an amyotrophic lateral sclerosis murine model determined by differential in-gel electrophoresis. Mol Cell Proteomics 8:1306-1317. Open abstract in Pubmed.
  39. Yanamandra K, Alexeyev O, Zamotin V, Srivastava V, Shchukarev A, Brorsson AC, Tartaglia GG, Vogl T, Kayed R, Wingsle G, Olsson J, Dobson CM, Bergh A, Elgh F, Morozova-Roche LA (2009). Amyloid formation by the pro-inflammatory S100A8/A9 proteins in the ageing prostate. PLoS ONE 4:e5562. Open abstract in Pubmed.
  40. Onishchenko, E, Stanton, LH, Madrid, AS, Kieselbach, T, Weis, K (2009). Role of the NDC1-interaction network in yeast nuclear pore complex assembly and maintenance. J Cell Biol. 185:476-491. Open abstract in Pubmed.
  41. Lindahl M, Kieselbach T (2009). Disulphide proteomes and interactions with thioredoxin on the track towards understanding redox regulation in chloroplasts and cyanobacteria. J Proteomics 72:416-438. Open abstract in Pubmed.
  42. Srivastava V, Srivastava MK, Chibani K, Nilsson R, Rouhier N, Melzer M, Wingsle G (2009). Alternative Splicing Studies of the ROS Gene Network in Populus Reveal Two Isoforms of High Iso-electric Point Superoxide Dismutase. Plant Physiol. 149:1848-1859. Open abstract in Pubmed.
  43. Bylesjö M, Nilsson R, Srivastava V, Grönlund A, Johansson AI, Jansson S, Karlsson J, Moritz T, Wingsle G, Trygg J (2009). Integrated analysis of transcript, protein and metabolite data to study lignin biosynthesis in hybrid aspen. J Proteome Res.8:199-210. Open abstract in Pubmed.
  44. Malm, C, Hadrevi, J, Bergström, S-A, Pedrosa-Domellöf, F, Antti, H, Svesson, M, Frängsmyr, L (2008). Evaluation of 2-D DIGE for skeletal muscle: protocol and repeatability, Scand J Clin Lab Invest 68:783-800. Open abstract in Pubmed.
  45. Kieselbach, T, and Schröder, WP (2008). Organelle Proteomics. Chloroplast in: Plant Proteomics: Technologies, Strategies, and Applications (Agrawal GK, Rakwal R Eds.) 339-351, John Wiley & Sons, Inc. Hoboken, New Jersey.
  46. Kufryk, G, Hernández-Prietro, M, Kieselbach, T, Miranda, H, Vermaas, W, and Funk, C (2008). Association of small CAB-like proteins (SCPs) of Synechocystis sp. PCC 6083 with Photosystem II, Photosynthesis Res 95:135-145. Open abstract in Pubmed.
  47. Bäckström S, Elfving N, Nilsson R, Wingsle G, Björklund S. (2007). Purification of a Plant Mediator from Arabidopsis thaliana Identifies PFT1 as the Med25 Subunit. Mol Cell. 26:717-729. Open abstract in Pubmed.
  48. Srivastava V, Schinkel H, Witzell J, Hertzberg M, Torp M, Srivastava MK, Karpinska B, Melzer M, Wingsle G. (2007). Downregulation of high-isoelectric-point extracellular superoxide dismutase mediates alterations in the metabolism of reactive oxygen species and developmental disturbances in hybrid aspen. Plant J. 49:135-148. Open abstract in Pubmed.
  49. Yao, D., Kieselbach, T., Komenda, J., Promnares, K., Hernández Prieto, M.A., Tichy, M., Vermaas, W, and Funk, C. (2007). Localization of the small cab-like proteins in photosystem II, J Biol Chem 282: 267-276. Open abstract in Pubmed.
  50. Goulas E, Schubert, M, Kieselbach T, Kleczkowski LA, Gardeström P, Schröder W, and Hurry V (2006). Cold acclimation: a proteomic study of the chloroplast lumen and stroma of Arabidopsis thaliana by fluorescence two-dimensional difference gel electrophoresis and mass spectrometry. The Plant Journal 47: 720-734. Open abstract in Pubmed.
  51. Hedman E, Widen C, Asadi A, Dinnetz I, Schröder WP, Gustafsson JÅ, Wikstrom AC (2006). Protoemic identification of glucocorticoid receptor interacting proteins. Proteomics 6: 3114-3126. Open abstract in Pubmed.
  52. Ihalin R, Karched M, Eneslätt K, Asikainen S (2006). Characterization of immunoaffinity purified peptidoglycan-associated lipoprotein of Actinobacillus actinomycetemcomitans. J Chromatogr B Analyt Technol Biomed Life Sci 831: 116-125. Open abstract in Pubmed.
  53. Rouhier N, Villarejo A, Srivastava M, Gelhaye E, Keech O, Droux M, Finkemeier I, Samuelsson G, Dietz KJ, Jacquot JP, Wingsle G (2005). Identification of plant glutaredoxin targets. Antioxid Redox Signal 7: 919-929. Open abstract in Pubmed.
  54. Leul M, Mattsson U, Sellstedt A (2005). Molecular characterization of uptake hydrogenase in Frankia. Biochem Soc Trans 33: 64-66. Open abstract in Pubmed.
  55. Gelhaye E, Rouhier N, Gerard J, Jolivet Y, Gualberto J, Navrot N, Ohlsson PI, Wingsle G, Hirasawa M, Knaff DB, Wang H, Dizengremel P, Meyer Y, Jacquot JP (2004). A specific form of thioredoxin h occurs in plant mitochondria and regulates the alternative oxidase. Proc Natl Acad Sci U S A 101: 14545-14550. Open abstract in Pubmed.
  56. Lövgren JM, Bylund GO, Srivastava MK, Lundberg LA, Persson OP, Wingsle G, Wikström PM (2004). The PRC-barrel domain of the ribosome maturation protein RimM mediates binding to ribosomal protein S19 in the 30S ribosomal subunits. RNA 10: 1798-1812. Open abstract in Pubmed.
  57. Wilczynska M, Lobov S, Ohlsson PI, Ny T (2003). A redox-sensitive loop regulates plasminogen activator inhibitor type 2 (PAI-2) polymerization. EMBO J 22: 1753-1761. Open abstract in Pubmed.