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Proteomics and Mass Spectrometry Laboratory

Group Leader:

Dr hab. Sylwia Kędracka-Krok

e-mail: sylwia.kedracka-krok@uj.edu.pl tel:12 664 61 48

Team

Dr Urszula Jankowska – adiunkt, e-mail: urszula.jankowska@uj.edu.pl tel:12 664 60 96
Bożena Skupień-Rabian – technician, e-mail: bozena.skupien-rabian@uj.edu.pl tel:12 664 60 96
Bianka Świderska – PhD student, e-mail: bianka.swiderska@uj.edu.pl tel:12 664 60 96
Gabriela Pruś – PhD student, e-mail: gabriela.prus@uj.edu.pl tel:12 664 60 96
Cyntia Kubicka – MSc student
Magdalena Pilch – MSc student

The main expertise of the Proteomics and Mass Spectrometry Laboratory of MCB Jagiellonian University concerns large-scale, high throughput proteomic analysis in the field of neurobiology, particularly in the elucidation of mechanism of antidepressant and antipsychotic drug action. We use both gel-based two dimensional in gel electrophoresis (2D-DIGE) and mass spectrometry-based methods with tags like Isobaric Tags for Relative and Absolute Quantification (iTRAQ) as well as label-free technique. The objects of our investigations are different rat or mouse brain structures, model neuronal cell lines and primary glial cells.

Apart from the studies of the impact of stress and/or antidepressants on the protein profile of brain of laboratory animals and cells, one of the main topic we are working on is a characterisation of immunological background of Major Depression Disorder. In this project we look for differences in proteome of special subpopulation of T lymphocytes isolated from depressed patients and healthy volunteers.

The important stage of this project was elaboration of reproducible protocols of isolation of very low abundant fractions of T cells. In next step it was developed a procedure of protein extraction, purification and digestion of as tiny amount of material as 1 ug of total protein mixture. These studies are conducted in different group of patients like: first episode patients, patients in relapse, patients with chronically occurring symptoms. The project is carried out in collaboration with clinical psychiatrist.

Additionally, we collaborate with many groups on proteomic characterization of some biological aspects of different cell types, stem cells, cellular microvesicles, cancer cells and others.

Future plans

In future, we are going to focus on studies concerning subproteome of nuclear proteins in facet of mechanism of action of individual antipsychotic drug as well as in adjunctive therapy.               

Current project

NCN OPUS “Evaluation of the role of subpopulations of T lymphocytes (Treg:CD4+CD25+, CD4+CD25- and Teff: Th2) in depression using proteomic analysis of patients’ blood”.

Selected publications

  • Kedracka-Krok S, Swiderska B, Jankowska U, Skupien-Rabian B, Solich J, Dziedzicka-Wasylewska M 2016 Stathmin reduction and cytoskeleton rearrangement in rat nucleus accumbens in response to clozapine and risperidone treatment - Comparative proteomic study. Neuroscience. Mar 1; 316:63-81. doi: 10.1016/j.neuroscience.2015.12.028.
  • Jankowska U, Latosińska A, Skupień-Rabian B, Świderska B, Dziedzicka-Wasylewska M, Kedracka-Krok S 2016 Optimized procedure of extraction, purification and proteomic analysis of nuclear proteins from mouse brain. Journal of Neuroscience Methods. Mar 1; 261:1-9. doi: 10.1016/j.jneumeth.2015.12.002.
  • Skupien-Rabian B, Jankowska U, Swiderska B, Lukasiewicz S, Ryszawy D, Dziedzicka-Wasylewska M, Kedracka-Krok S 2016 Proteomic and bioinformatic analysis of a nuclear intrinsically disordered proteome. Journal of Proteomics. Jan 1;130:76-84. doi: 10.1016/j.jprot.2015.09.004.
  • Kedracka-Krok S, Swiderska B, Jankowska U, Skupien-Rabian B, Solich J, Buczak K, Dziedzicka-Wasylewska M 2015 Clozapine influences cytoskeleton structure and calcium homeostasis in rat cerebral cortex and has a different proteomic profile than risperidone.Journal of Neurochemistry. Mar; 132(6):657-76. doi: 10.1111/jnc.13007.
  • Kedracka-Krok S, Jankowska U, Elas M, Sowa U, Swakon J, Cierniak A, Olko P, Romanowska-Dixon B, Urbanska K. 2014 Proteomic analysis of proton beam irradiated human melanoma cells. PLoS One. Jan 2;9(1):e84621. doi: 10.1371/journal.pone.0084621.
  • Kedracka-Krok S, Fic E, Jaciuk M, Jankowska U, Gruca P, Papp M, Kusmider M, Solich J, Debski J, Dadlez M, and Dziedzicka-Wasylewska 2010 Effect of chronic mild stress and imipramine on the proteome of the rat dentate gyrus. M. Journal of Neurochemistry. May; 113(4):848-59. doi: 10.1111/j.1471-4159.2010.06652.x. 
  • Fic E, Kedracka-Krok S, Jankowska U, Pirog A, and Dziedzicka-Wasylewska M. 2010 Comparison of methods for proteins precipitation of various rat brain structures prior to proteomic analysis. Electrophoresis. Oct; 31(21):3573-9. doi: 10.1002/elps.201000197.

Publikacje

  • Swiderska B, Kedracka-Krok S, Panz T, Morgan AJ, Falniowski A, Grzmil P, Plytycz B. 2017 Lysenin family proteins in earthworm coelomocytes - Comparative approach. Dev Comp Immunol. Aug 24. pii: S0145-305X(16)30257-9. doi: 10.1016/j.dci.2016.08.011.
  • Swiderska B, Kedracka-Krok S, Plytycz B. 2016 Data on proteins of lysenin family in coelomocytes of Eisenia andrei and E. Fetida obtained by tandem mass spectrometry coupled with liquid chromatography Data in Brief
  • Zimolag E, Borowczyk-Michalowska J, Kedracka-Krok S, Skupien-Rabian B, Karnas E, Lasota S, Sroka J, Drukala J, Madeja Z. 2017 Electric field as a potential directional cue in homing of bone marrow-derived mesenchymal stem cells to cutaneous wounds. Biochim Biophys Acta 1864(2):267-279. doi: 10.1016/j.bbamcr.2016.11.011
  • Sroka J, Krecioch I, Zimolag E, Lasota S, Rak M, Kedracka-Krok S, Borowicz P, Gajek M, Madeja Z. 2016 Lamellipodia and Membrane Blebs Drive Efficient Electrotactic Migration of Rat Walker Carcinosarcoma Cells WC 256. PLoS One. Feb 10;11(2):e0149133. doi: 10.1371/journal.pone.0149133.
  • Bobis-Wozowicz S, Kmiotek K, Sekula M, Kedracka-Krok S, Kamycka E, Adamiak M, Jankowska U, Madetko-Talowska A, Sarna M, Bik-Multanowski M, Kolcz J, Boruczkowski D, Madeja Z, Dawn B, Zuba-Surma EK. 2015 Human Induced Pluripotent Stem Cell-Derived Microvesicles Transmit RNAs and Proteins to Recipient Mature Heart Cells Modulating Cell Fate and Behavior. Stem Cells. Sep; 33(9):2748-61. doi: 10.1002/stem.2078.
  • Labedz-Maslowska A, Lipert B, Berdecka D, Kedracka-Krok S, Jankowska U, Kamycka E, Sekula M, Madeja Z, Dawn B, Jura J, Zuba-Surma EK. 2015 Monocyte Chemoattractant Protein-Induced Protein 1 (MCPIP1) Enhances Angiogenic and Cardiomyogenic Potential of Murine Bone Marrow-Derived Mesenchymal Stem Cells. PLoS One. Jul 27;10(7):e0133746. doi: 1.1371/journal.pone.0133746.
  • Ryszawy D, Sarna M, Rak M, Szpak K, Kędracka-Krok S, Michalik M, Siedlar M, Zuba-Surma E, Burda K, Korohoda W, Madeja Z, Czyż J. 2014 Functional links between Snail-1 and Cx43 account for the recruitment of Cx43-positive cells into the invasive front of prostate cancer. Carcinogenesis. Sep;35(9):1920-30. doi:0.1093/carcin/bgu033.
  • Wieczorek E, Kędracka-Krok S, Sołtys K, Jankowska U, Hołubowicz R, Seliga J, Ożyhar A. 2016 Is Transthyretin a Regulator of Ubc9 SUMOylation? PLoS One. Aug 8;11(8):e0160536. doi: 10.1371/journal.pone.0160536. eCollection 2016.
  • Bonar E, Wojcik I, Jankowska U, Kedracka-Krok S, Bukowski M, Polakowska K, Lis MW, Kosecka-Strojek M, Sabat AJ, Dubin G, Friedrich AW, Miedzobrodzki J, Dubin A, Wladyka B. 2016 Identification of Secreted Exoproteome Fingerprints of Highly-Virulent and Non-Virulent Staphylococcus aureus Strains. Front Cell Infect Microbiol. May 6; 6:51. doi: 10.3389/fcimb.2016.00051. eCollection 2016
  • Solich J, Kolasa M, Kusmider M, Pabian P, Faron-Gorecka A, Zurawek D, Szafran-Pilch K, Kedracka-Krok S, Jankowska U, Swiderska B, Dziedzicka-Wasylewska M. 2015 Life-long norepinephrine transporter (NET) knock-out leads to the increase in the NET mRNA in brain regions rich in norepinephrine terminals. European Neuropsychopharmacology. Aug; 25(8):1099-108. doi: 10.1016/j.euroneuro. 2015.04.019.
  • Domżalska L, Kędracka-Krok S, Jankowska U, Grzyb M, Sobczak M, Rybczyński JJ, Mikuła A. 2017 Proteomic analysis of stipe explants reveals differentially expressed proteins involved in early direct somatic embryogenesis of the tree fern Cyathea delgadii Sternb. Plant Sci. May; 258:61-76. doi: 10.1016/j.plantsci.2017.01.017.
  • Łukasiewicz S, Faron-Górecka A, Kędracka-Krok S, Dziedzicka-Wasylewska M. 2011 Effect of clozapine on the dimerization of serotonin 5-HT2A receptor and its genetic variant 5-HT2AH425Y with dopamine D2 receptor. European Journal of Pharmacology. Jun 1;659(2-3):114-23. doi: 10.1016/j.ejphar.2011.03.038.
  • Łukasiewicz S, Polit A, Kędracka-Krok S, Wędzony K, Maćkowiak M, Dziedzicka-Wasylewska M. 2010 Hetero-dimerization of serotonin 5-HT2A and dopamine D2 receptors – in vitro fluorescence studies. Biochimica et Biophysica Acta - Molecular Cell Research. Dec;1803(12):1347-58. doi: 10.1016/j.bbamcr.2010.08.010.