We have developed methods to isolate and affinity purify viral ribonucleoprotein (RNP) complexes and virus-induced subcellular compartments involved in plant virus infection . With these approaches we have obtained proteomic data of viral replication complex , viral high molecular weight ribonucleoprotein complexes  and polysomes of infected plants . Dr. Markku Varjosalo (Institute of Biotechnology, University of Helsinki) is our long-term collaborator in the proteomic approaches.
We have integrated our infection-associated proteomes to protein-protein interaction network (PPIN) models in collaboration with Prof. Santiago Elena (Consejo Superior de Investigaciones Científicas, Spain). These proteome data and the PPIN models provide a source from which to make hypotheses for our future research.
- Ivanov, K.I., Bašić, M, Varjosalo, M., and Mäkinen K. (2014) “Efficient one-step purification of Twin-Strep-tagged proteins and their specific complexes on Strep-Tactin resin cross-linked with Bis(sulfosuccinimidyl) suberate (BS3)” Journal of Visual Experiments (86), e51536. doi: 10.3791/51536
- Lõhmus A., Varjosalo M., and Mäkinen K. (2015). ”Protein composition of 6K2-induced membrane structures formed during Potato virus A infection” Molecular Plant Pathology, 17, 943-958. DOI: 10.1111/mpp.12341
- Ivanov, K.I., Eskelin, K., Bašić, M., De, S., Lõhmus, A., Varjosalo, M., and Mäkinen K. (2016). ”Molecular insights into the function of the viral RNA silencing suppressor HC-pro” The Plant Journal, 85, 30–45. DOI: 10.1111/tpj.13088
- Eskelin, K. Varjosalo, M., Ravantti J., and Mäkinen K. 2019. ”Ribosome profiles and riboproteomes of healthy and potato virus A and Agrobacterium -infected Nicotiana benthamiana plants” Molecular Plant Pathology, 20, 392-409. doi: 10.1111/mpp.12764