Skirycz Lab

Small-Molecule Regulation

Complete Record

https://scholar.google.com.br/citations?user=kULBGC0AAAAJ&hl=en

Key Publications from the Skirycz Lab

Research
* shared co-correspondence with the lab-member; ** lab member being the sole corresponding author

  1. Wagner, M. & Kang, J. et al. Mapping protein-metabolite interactions inE. coli by integrating chromatographic techniques and co-fractionation mass spectrometry. bioRxiv (2024) doi:10.1101/2024.02.14.580258.
  2. Wojciechowska, I. et al. Arabidopsis PROTODERMAL FACTOR2 binds lysophosphatidylcholines and transcriptionally regulates phospholipid metabolism. New Phytologist accepted (2024).
  3. Figueroa, N. E. et al. Protein interactome of 3’,5′-cAMP reveals its role in regulating the actin cytoskeleton. Plant J. 115, 1214–1230 (2023). *
  4. Schlossarek, D. et al. Rewiring of the protein-protein-metabolite interactome during the diauxic shift in yeast. Cell. Mol. Life Sci. 79, 550 (2022). *
  5. Chodasiewicz, M. et al. 2’,3′-cAMP treatment mimics the stress molecular response in Arabidopsis thaliana. Plant Physiol. (2022) *
  6. Mi, J. et al. A manipulation of carotenoid metabolism influences biomass partitioning and fitness in tomatoes. Metab. Eng. 70, 166–180 (2022). **
  7. Moreno, J. C. et al. Tyr-Asp inhibition of glyceraldehyde 3-phosphate dehydrogenase affects plant redox metabolism. EMBO J. 40, e106800 (2021).
  8. Schlossarek, D. et al. PROMISed: A novel web-based tool to facilitate analysis and visualization of the molecular interaction networks from co-fractionation mass spectrometry (CF-MS) experiments. Comput. Struct. Biotechnol. J. 19, 5117–5125 (2021). *
  9. Luzarowski, M. et al. Global mapping of protein–metabolite interactions in Saccharomyces cerevisiae reveals that Ser-Leu dipeptide regulates phosphoglycerate kinase activity. Communications Biology 4, 181 (2021). *
  10. Calderan-Rodrigues, M. J. et al. Proteogenic Dipeptides Are Characterized by Diel Fluctuations and Target of Rapamycin Complex-Signaling Dependency in the Model Plant Arabidopsis thaliana. Front. Plant Sci. 12, 758933 (2021).
  11. Thirumalaikumar, V. P., Wagner, M., Balazadeh, S. & Skirycz, A. Autophagy is responsible for the accumulation of proteogenic dipeptides in response to heat stress in Arabidopsis thaliana. FEBS J. (2020).
  12. Chodasiewicz, M. et al. Identification and Characterization of the Heat-Induced Plastidial Stress Granules Reveal New Insight Into Arabidopsis Stress Response. Front. Plant Sci. 11, 595792 (2020).
  13. Kosmacz, M. et al. Protein and metabolite composition of Arabidopsis stress granules. New Phytol. 222, 1420–1433 (2019).
  14. Veyel, D. et al. PROMIS, global analysis of PROtein–metabolite interactions using size separation in Arabidopsis thaliana. J. Biol. Chem. 293, 12440–12453 (2018).
  15. Kosmacz, M. et al. Interaction of 2′,3′-cAMP with Rbp47b Plays a Role in Stress Granule Formation. Plant Physiol. 177, 411–421 (2018).
  16. Veyel, D. et al. System-wide detection of protein-small molecule complexes suggests extensive metabolite regulation in plants. Sci. Rep. 7, 42387 (2017).
  17. Luzarowski, M. et al. Affinity purification with metabolomic and proteomic analysis unravels diverse roles of nucleoside diphosphate kinases. J. Exp. Bot. 68, 3487–3499 (2017).

Reviews

  1. Minen, R. I., Thirumalaikumar, V. P. & Skirycz, A. Proteinogenic dipeptides, an emerging class of small-molecule regulators. Curr. Opin. Plant Biol. 75, 102395 (2023).
  2. Schlossarek, D. et al. Don’t let go: co-fractionation mass spectrometry for untargeted mapping of protein-metabolite interactomes. Plant J. 113, 904–914 (2023).
  3. Wagner, M., Zhang, B., Tauffenberger, A., Schroeder, F. C. & Skirycz, A. Experimental methods for dissecting the terra-incognita of protein-metabolite interactomes. Current Opinion in Systems Biology 100403 (2021).
  4. Kosmacz, M., Sokołowska, E. M., Bouzaa, S. & Skirycz, A. Towards a functional understanding of the plant metabolome. Current Opinion in Plant Biology vol. 55 47–51 (2020).
  5. Luzarowski, M. & Skirycz, A. Emerging strategies for the identification of protein–metabolite interactions. J. Exp. Bot. 70, 4605–4618 (2019).

Books

Cell-Wide Identification of Metabolite-Protein Interactions (Methods in Molecular Biology)

https://link.springer.com/book/10.1007/978-1-0716-2624-5