Mira Laajala Department of Biological and Environmental Sciences, University of Jyväskylä, 2020-
1 protocol

Visa Ruokolainen Nano Science Center, Department of Molecular and Biological Science, University of Jyväskylä, 2015-2020
1 protocol

Paula Turkki Biological and Environmental Science / Nanoscience Center, University of Jyväskylä, Finland
1 protocol

Nina Rintanen Biological and Environmental Science / Nanoscience Center, University of Jyväskylä, Finland
1 protocol
Alexandros Kokotos Weill Cornell Medicine
13 protocols

Anca Savulescu University of Cape Town
20 protocols

Arsalan Daudi University of California
157 protocols

11 protocols

Varpu Marjomaki
  • University Lecturer, Department of Biological and Environmental Science, University of Jyväskylä
Research focus
  • Microbiology
  • membrane traffikcing, anti-viral development, virus infection
  • 2 Author merit


Ph.D. in Molecular Biology, University of Jyväskylä, Finland, 1994


Since 2004
• Huttunen, M., Waris, M., Kajander, R., Hyypiä, T. and Marjomäki, V. (2014). Coxsackievirus A9 Infects Cells via Non-acidic Multivesicular Bodies. J Virol. (Epub ahead of print).
• Bhowmik, S., Ghosh, B. N., Marjomäki, V. and Rissanen, K. (2014). Nanomolar Pyrophosphate Detection in Water and in a Self-Assembled Hydrogel of a Simple Terpyridine-Zn Complex. J Am Chem Soc. (Epub ahead of print)
• Koho, T., Koivunen, M. R., Oikarinen, S., Kummola, L., Mäkinen, S., Mähönen, A. J., Sioofy-Khojine, A., Marjomäki, V., Kazmertsuk, A., Junttila, I., Kulomaa, M. S., Hyöty, H., Hytönen, V. P. and Laitinen, O. H. (2014). Coxsackievirus B3 VLPs purified by ion exchange chromatography elicit strong immune responses in mice. Antiviral Res 104: 93-101.
• Marjomäki, V., Lahtinen, T., Martikainen, M., Koivisto, J., Malola, S., Salorinne, K., Pettersson, M. and Häkkinen, H. (2014). Site-specific targeting of enterovirus capsid by functionalized monodisperse gold nanoclusters. Proc Natl Acad Sci U S A 111(4): 1277-1281.
• Kaakinen, M., Huttunen, S., Paavolainen, L., Marjomäki, V., Heikkilä, J. and Eklund, L. (2014). Automatic detection and analysis of cell motility in phase-contrast time-lapse images using a combination of maximally stable extremal regions and Kalman filter approaches. J Microsc 253(1): 65-78.
• Nieminen, T., Toivanen, P. I., Rintanen, N., Heikura, T., Jauhiainen, S., Airenne, K. J., Alitalo, K., Marjomäki, V. and Ylä-Herttuala, S. (2014). The impact of the receptor binding profiles of the vascular endothelial growth factors on their angiogenic features. Biochim Biophys Acta 1840(1): 454-463.
• Turkki, P., Makkonen, K. E., Huttunen, M., Laakkonen, J. P., Ylä-Herttuala, S., Airenne, K. J. and Marjomäki, V. (2013). Cell susceptibility to baculovirus transduction and echovirus infection is modified by protein kinase C phosphorylation and vimentin organization. J Virol 87(17): 9822-9835.
• Makkonen, K. E., Turkki, P., Laakkonen, J. P., Ylä-Herttuala, S., Marjomäki, V. and Airenne, K. J. (2013). 6-o- and N-sulfated syndecan-1 promotes baculovirus binding and entry into Mammalian cells. J Virol 87(20): 11148-11159.
• Krieger, S. E., Kim, C., Zhang, L., Marjomäki, V. and Bergelson, J. M. (2013). Echovirus 1 entry into polarized Caco-2 cells depends on dynamin, cholesterol, and cellular factors associated with macropinocytosis. J Virol 87(16): 8884-8895.
• Norarat, R., Marjomäki, V., Chen, X., Zhaohong, M., Minqin, R., Chen, C.-B., Bettiol, A., Whitlow, H. J. and Watt, F. (2013). Ion-induced fluorescence imaging of endosomes. Nuclear Instruments and Methods in Physics Research Section B: Beam Interactions with Materials and Atoms 306: 113-116.
• Siljamäki, E., Rintanen, N., Kirsi, M., Upla, P., Wang, W., Karjalainen, M., Ikonen, E. and Marjomäki, V. (2013). Cholesterol dependence of collagen and echovirus 1 trafficking along the novel alpha2beta1 integrin internalization pathway. PLoS One 8(2): e55465.
• Wu, X., Pertovaara, H., Dastidar, P., Vornanen, M., Paavolainen, L., Marjomäki, V., Järvenpää, R., Eskola, H. and Kellokumpu-Lehtinen, P. L. (2013). ADC measurements in diffuse large B-cell lymphoma and follicular lymphoma: a DWI and cellularity study. Eur J Radiol 82(4): e158-164.
• Kankaanpää, P., Paavolainen, L., Tiitta, S., Karjalainen, M., Päivärinne, J., Nieminen, J., Marjomäki, V., Heino, J. and White, D. J. (2012). BioImageXD: an open, general-purpose and high-throughput image-processing platform. Nat Methods 9(7): 683-689.
• Snijder, B., Sacher, R., Rämö, P., Liberali, P., Mench, K., Wolfrum, N., Burleigh, L., Scott, C. C., Verheije, M. H., Mercer, J., Moese, S., Heger, T., Theusner, K., Jurgeit, A., Lamparter, D., Balistreri, G., Schelhaas, M., De Haan, C. A., Marjomäki, V., Hyypiä, T., Rottier, P. J., Sodeik, B., Marsh, M., Gruenberg, J., Amara, A., Greber, U., Helenius, A. and Pelkmans, L. (2012). Single-cell analysis of population context advances RNAi screening at multiple levels. Mol Syst Biol 8: 579.
• Wirth, T., Pikkarainen, J. T., Samaranayake, H. D., Lehtolainen-Dalkilic, P., Lesch, H. P., Airenne, K. J., Marjomäki, V. and Ylä-Herttuala, S. P. (2012). Efficient gene therapy based targeting system for the treatment of inoperable tumors. J Gene Med 14(4): 221-230.
• Paavolainen, L., Kankaanpää, P., Ruusuvuori, P., McNerney, G., Karjalainen, M. and Marjomäki, V. (2012). Application independent greedy particle tracking method for 3D fluorescence image series. ISBI 672-675.
• Munukka, E., Wiklund, P., Pekkala, S., Völgyi, E., Xu, L., Cheng, S., Lyytikäinen, A., Marjomäki, V., Alen, M., Vaahtovuo, J. and Keinänen-Kiukaanniemi, S. (2012). Women with and without metabolic disorder differ in their gut microbiota composition. Obesity (Silver Spring) 20(5): 1082-1087.
• Rintanen, N., Karjalainen, M., Alanko, J., Paavolainen, L., Maki, A., Nissinen, L., Lehkonen, M., Kallio, K., Cheng, R. H., Upla, P., Ivaska, J. and Marjomäki, V. (2012). Calpains promote alpha2beta1 integrin turnover in nonrecycling integrin pathway. Mol Biol Cell 23(3): 448-463.
• Karjalainen, M., Rintanen, N., Lehkonen, M., Kallio, K., Mäki, A., Hellstrom, K., Siljamaki, V., Upla, P. and Marjomäki, V. (2011). Echovirus 1 infection depends on biogenesis of novel multivesicular bodies. Cell Microbiol 13(12): 1975-1995.
• Mai, A., Veltel, S., Pellinen, T., Padzik, A., Coffey, E., Märjomaki, V. and Ivaska, J. (2011). Competitive binding of Rab21 and p120RasGAP to integrins regulates receptor traffic and migration. J Cell Biol 194(2): 291-306.
• Korpisalo, P., Hytonen, J. P., Laitinen, J. T., Laidinen, S., Parviainen, H., Karvinen, H., Siponen, J., Marjomäki, V., Vajanto, I., Rissanen, T. T. and Ylä-Herttuala, S. (2011). Capillary enlargement, not sprouting angiogenesis, determines beneficial therapeutic effects and side effects of angiogenic gene therapy. Eur Heart J 32(13): 1664-1672.
• Heikkilä, O., Susi, P., Tevaluoto, T., Härmä, H., Marjomäki, V., Hyypiä, T. and Kiljunen, S. (2010). Internalization of coxsackievirus A9 is mediated by {beta}2-microglobulin, dynamin, and Arf6 but not by caveolin-1 or clathrin. J Virol 84(7): 3666-3681.
• Jokinen, J., White, D. J., Salmela, M., Huhtala, M., Käpylä, J., Sipilä, K., Puranen, J. S., Nissinen, L., Kankaanpää, P., Marjomäki, V., Hyypiä, T., Johnson, M. S. and Heino, J. (2010). Molecular mechanism of alpha2beta1 integrin interaction with human echovirus 1. EMBO J 29(1): 196-208.
• Laakkonen, J. P., Mäkelä, A. R., Kakkonen, E., Turkki, P., Kukkonen, S., Peranen, J., Ylä-Herttuala, S., Airenne, K. J., Oker-Blom, C., Vihinen-Ranta, M. and Marjomäki, V. (2009). Clathrin-independent entry of baculovirus triggers uptake of E. coli in non-phagocytic human cells. PLoS One 4(4): e5093.
• Upla, P., Hyypiä, T. and Marjomäki V (2009). Role of rafts in virus infection. Future virology 4(5) 487-500.
• Sangyuenyongpipat, S., Marjomäki, V., Ikonen, S., Sajavaara, T., Sagari A. R., A., Gorelick, S., Laitinen, M. and Whitlow, H. J. (2009). Development of micro-contact printing oc osteosarcoma cells using MeV ion beam lithography. Nucl. Instr. Meth.
• Korpisalo, P., Karvinen, H., Rissanen, T. T., Kilpijoki, J., Märjomaki, V., Baluk, P., McDonald, D. M., Cao, Y., Eriksson, U., Alitalo, K. and Ylä-Herttuala, S. (2008). Vascular endothelial growth factor-A and platelet-derived growth factor-B combination gene therapy prolongs angiogenic effects via recruitment of interstitial mononuclear cells and paracrine effects rather than improved pericyte coverage of angiogenic vessels. Circ Res 103(10): 1092-1099.
• Karjalainen, M., Kakkonen, E., Upla, P., Paloranta, H., Kankaanpää, P., Liberali, P., Renkema, G. H., Hyypiä, T., Heino, J. and Märjomaki, V. (2008). A Raft-derived, Pak1-regulated entry participates in alpha2beta1 integrin-dependent sorting to caveosomes. Mol Biol Cell 19(7): 2857-2869.
• Liberali, P., Kakkonen, E., Turacchio, G., Valente, C., Spaar, A., Perinetti, G., Böckmann, R. A., Corda, D., Colanzi, A., Marjomaki, V. and Luini, A. (2008). The closure of Pak1-dependent macropinosomes requires the phosphorylation of CtBP1/BARS. EMBO J 27(7): 970-981.
• Upla, P., Marjomäki, V., Nissinen, L., Nylund, C., Waris, M., Hyypiä, T. and Heino, J. (2008). Calpain 1 and 2 are required for RNA replication of echovirus 1. J Virol 82(3): 1581-1590.
• Toriseva, M. J., Ala-aho, R., Karvinen, J., Baker, A. H., Märjomaki, V. S., Heino, J. and Kähäri, V. M. (2007). Collagenase-3 (MMP-13) enhances remodeling of three-dimensional collagen and promotes survival of human skin fibroblasts. J Invest Dermatol 127(1): 49-59.
• Matilainen, H., Rinne, J., Gilbert, L., Marjomäki, V., Reunanen, H. and Oker-Blom, C. (2005). Baculovirus entry into human hepatoma cells. J Virol 79(24): 15452-15459.
• Pietiäinen, V. M., Marjomäki, V., Heino, J. and Hyypiä, T. (2005). Viral entry, lipid rafts and caveosomes. Ann Med 37(6): 394-403.
• Marjomäki, V. and Schaible, U. E. (2005). Microbial strategies to exploit host cells. Meeting on spatial and temporal dynamics of the endomembrane system. EMBO Rep 6(5): 408-412.
• Käpylä, J., Jäälinoja, J., Tulla, M., Ylöstalo, J., Nissinen, L., Viitasalo, T., Vehviläinen, P., Marjomäki, V., Nykvist, P., Säämanen, A. M., Farndale, R. W., Birk, D. E., Ala-Kokko, L. and Heino, J. (2004). The fibril-associated collagen IX provides a novel mechanism for cell adhesion to cartilaginous matrix. J Biol Chem 279(49): 51677-51687.
• Pietiäinen, V., Marjomäki, V., Upla, P., Pelkmans, L., Helenius, A. and Hyypiä, T. (2004). Echovirus 1 endocytosis into caveosomes requires lipid rafts, dynamin II, and signaling events. Mol Biol Cell 15(11): 4911-4925.
• Ojala, K., Tikka, P. J., Kautto, L., Käpylä, P., Marjomäki, V. and Oker-Blom, C. (2004). Expression and trafficking of fluorescent viral membrane proteins in baculovirus-transduced BHK cells. J Biotechnol 114(1-2): 165-175.
• Xing, L., Huhtala, M., Pietiäinen, V., Käpylä, J., Vuorinen, K., Marjomäki, V., Heino, J., Johnson, M. S., Hyypiä, T. and Cheng, R. H. (2004). Structural and functional analysis of integrin alpha2I domain interaction with echovirus 1. J Biol Chem 279(12): 11632-11638.
• Räty, J. K., Airenne, K. J., Marttila, A. T., Marjomäki, V., Hytonen, V. P., Lehtolainen, P., Laitinen, O. H., Mähönen, A. J., Kulomaa, M. S. and Yla-Herttuala, S. (2004). Enhanced gene delivery by avidin-displaying baculovirus. Mol Ther 9(2): 282-291.
• Upla, P., Marjomäki, V., Kankaanpää, P., Ivaska, J., Hyypiä, T., Van Der Goot, F. G. and Heino, J. (2004). Clustering induces a lateral redistribution of alpha 2 beta 1 integrin from membrane rafts to caveolae and subsequent protein kinase C-dependent internalization. Mol Biol Cell 15(2): 625-636.
• Toivola, J., Michel, P. O., Gilbert, L., Lahtinen, T., Marjomäki, V., Hedman, K., Vuento, M. and Oker-Blom, C. (2004). Monitoring human parvovirus B19 virus-like particles and antibody complexes in solution by fluorescence correlation spectroscopy. Biol Chem 385(1): 87-93.
2 Protocols published
Real-time Fluorescence Measurement of Enterovirus Uncoating
Authors:  Visa Ruokolainen, Mira Laajala and Varpu Marjomäki, date: 04/05/2020, view: 538, Q&A: 0
Viruses need to open, i.e., uncoat, in order to release their genomes for efficient replication and translation. Especially for non-enveloped viruses, such as enteroviruses, the cues leading to uncoating are less well known. The status of ...
α2β1-integrin Clustering and Internalization Protocol
α2β1-integrin clustering experiment can be used to trigger internalization of α2β1-integrin. When clustering is performed with sequential administration of primary and fluorescent secondary antibodies, the entry kinetics of integrin can be followed ...
8 Protocols reviewed
A Widely Applicable Urea-based Fluorescent/Colorimetric mRNA in situ Hybridization Protocol
Author:  Chiara Sinigaglia, date: 09/05/2019, view: 2018, Q&A: 0
In situ hybridization methods are routinely employed to detect nucleic acid sequences, allowing to localize gene expression or to study chromosomal organization in their native context. These methods rely on the pairwise binding of a ...
More >
Measuring Protein Synthesis during Cell Cycle by Azidohomoalanine (AHA) Labeling and Flow Cytometric Analysis
Authors:  Koshi Imami and Tomoharu Yasuda, date: 04/20/2019, view: 3099, Q&A: 0
Protein synthesis is one of the most fundamental biological processes to maintain cellular proteostasis. Azidohomoalaine (AHA) is a non-radioactive and “clickable” amino acid analog of methionine which can be incorporated into newly synthesized ...
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