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Infection Biology

Publications

2026

  1. Saralahti, AK, Ojanen, MJT, Parikka, M, Kauko, O, Rämet, M, Hytönen, VP et al.. Avidin is evolutionarily conserved in fish but dispensable for development and resistance against Streptococcus agalactiae in zebrafish. FEBS Open Bio. 2026; :. doi: 10.1002/2211-5463.70320. PubMed PMID:42535614 PubMed Central PMC13425791.
  2. Pölläniemi, A, Miao, Y, Laitila, L, Piippo, H, Hammarén, M, Parikka, M et al.. Structural insights into multitargeting Pkn kinases. Microbiol Spectr. 2026; :e0004926. doi: 10.1128/spectrum.00049-26. PubMed PMID:42446239 .
  3. Parkkinen, J, Akgul, Ö, Berrino, E, Carta, F, Selleri, S, Hammarén, M et al.. First-in-class nonsteroidal anti-inflammatory drug and carbonic anhydrase inhibitor hybrid compounds as effective antimycobacterial agents. Eur J Med Chem. 2026;316 :119037. doi: 10.1016/j.ejmech.2026.119037. PubMed PMID:42284634 .

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2025

  1. Immonen, E, Paulamäki, L, Piippo, H, Nikkilä, A, Aine, L, Peltomäki, T et al.. Oral microbiome diversity and composition before and after chemotherapy treatment in pediatric oncology patients. BMC Oral Health. 2025;25 (1):981. doi: 10.1186/s12903-025-06405-4. PubMed PMID:40604730 PubMed Central PMC12220142.
  2. Lehmusvaara, S, Sillanpää, A, Wouters, M, Korhonen, R, Vahvelainen, N, Luukinen, H et al.. M.marinum lacking epsH shows increased biofilm formation in vitro and boosted antibiotic tolerance in zebrafish. NPJ Biofilms Microbiomes. 2025;11 (1):109. doi: 10.1038/s41522-025-00743-5. PubMed PMID:40517184 PubMed Central PMC12167362.

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2024

  1. Savijoki, K, Deptula, P, Roberts, RJ, Hammarén, M, Yli-Kauhaluoma, J, Varmanen, P et al.. Revised whole genome and DNA methylome of type strain ATCC 927. Microbiol Resour Announc. 2024;13 (4):e0101623. doi: 10.1128/mra.01016-23. PubMed PMID:38415640 PubMed Central PMC11008211.

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2023

  1. Zapilko, V, Moisio, S, Parikka, M, Heinäniemi, M, Lohi, O. Generation of a Zebrafish Knock-In Model Recapitulating Childhood ETV6::RUNX1-Positive B-Cell Precursor Acute Lymphoblastic Leukemia. Cancers (Basel). 2023;15 (24):. doi: 10.3390/cancers15245821. PubMed PMID:38136366 PubMed Central PMC10871125.
  2. Hammarén, MM, Luukinen, H, Sillanpää, A, Remans, K, Lapouge, K, Custódio, T et al.. and proteomics of biofilms and the development of biofilm-binding synthetic nanobodies. mSystems. 2023;8 (3):e0107322. doi: 10.1128/msystems.01073-22. PubMed PMID:37184670 PubMed Central PMC10308901.
  3. Saralahti, AK, Harjula, SE, Rantapero, T, Uusi-Mäkelä, MIE, Kaasinen, M, Junno, M et al.. Characterization of the innate immune response to Streptococcus pneumoniae infection in zebrafish. PLoS Genet. 2023;19 (1):e1010586. doi: 10.1371/journal.pgen.1010586. PubMed PMID:36622851 PubMed Central PMC9858863.

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2022

  1. Savijoki, K, San-Martin-Galindo, P, Pitkänen, K, Edelmann, M, Sillanpää, A, van der Velde, C et al.. Food-Grade Bacteria Combat Pathogens by Blocking AHL-Mediated Quorum Sensing and Biofilm Formation. Foods. 2022;12 (1):. doi: 10.3390/foods12010090. PubMed PMID:36613306 PubMed Central PMC9818890.

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2021

  1. Savijoki, K, Myllymäki, H, Luukinen, H, Paulamäki, L, Vanha-Aho, LM, Svorjova, A et al.. Surface-Shaving Proteomics of Mycobacterium marinum Identifies Biofilm Subtype-Specific Changes Affecting Virulence, Tolerance, and Persistence. mSystems. 2021;6 (3):e0050021. doi: 10.1128/mSystems.00500-21. PubMed PMID:34156290 PubMed Central PMC8269238.

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2020

  1. Laukkanen, S, Oksa, L, Nikkilä, A, Lahnalampi, M, Parikka, M, Seki, M et al.. SIX6 is a TAL1-regulated transcription factor in T-ALL and associated with inferior outcome. Leuk Lymphoma. 2020;61 (13):3089-3100. doi: 10.1080/10428194.2020.1804560. PubMed PMID:32835548 .
  2. Immonen, E, Aine, L, Nikkilä, A, Parikka, M, Grönroos, M, Vepsäläinen, K et al.. Randomized controlled and double-blinded study of Caphosol versus saline oral rinses in pediatric patients with cancer. Pediatr Blood Cancer. 2020;67 (10):e28520. doi: 10.1002/pbc.28520. PubMed PMID:32725875 .
  3. Aspatwar, A, Hammaren, M, Parikka, M, Parkkila, S, Carta, F, Bozdag, M et al.. inhibition of -carbonic anhydrase 3 with Mono- and dithiocarbamates and evaluation of their toxicity using zebrafish developing embryos. J Enzyme Inhib Med Chem. 2020;35 (1):65-71. doi: 10.1080/14756366.2019.1683007. PubMed PMID:31663386 PubMed Central PMC6830242.
  4. Harjula, SE, Saralahti, AK, Ojanen, MJT, Rantapero, T, Uusi-Mäkelä, MIE, Nykter, M et al.. Characterization of immune response against Mycobacterium marinum infection in the main hematopoietic organ of adult zebrafish (Danio rerio). Dev Comp Immunol. 2020;103 :103523. doi: 10.1016/j.dci.2019.103523. PubMed PMID:31626817 .

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2019

  1. Aspatwar, A, Kairys, V, Rala, S, Parikka, M, Bozdag, M, Carta, F et al.. Mycobacterium tuberculosisβ-Carbonic Anhydrases: Novel Targets for Developing Antituberculosis Drugs. Int J Mol Sci. 2019;20 (20):. doi: 10.3390/ijms20205153. PubMed PMID:31627429 PubMed Central PMC6834203.
  2. Harjula, SE, Saralahti, AK, Ojanen, MJT, Rantapero, T, Uusi-Mäkelä, MIE, Nykter, M et al.. Characterization of immune response against Mycobacterium marinum infection in the main hematopoietic organ of adult zebrafish (Danio rerio). Dev Comp Immunol. 2020;103 :103523. doi: 10.1016/j.dci.2019.103523. PubMed PMID:31626817 .
  3. Aspatwar, A, Hammaren, MM, Parikka, M, Parkkila, S. Rapid Evaluation of Toxicity of Chemical Compounds Using Zebrafish Embryos. J Vis Exp. 2019; (150):. doi: 10.3791/59315. PubMed PMID:31498322 .
  4. Al-Samadi, A, Tuomainen, K, Kivimäki, A, Salem, A, Al-Kubati, S, Hyytiäinen, A et al.. PCR-based zebrafish model for personalised medicine in head and neck cancer. J Transl Med. 2019;17 (1):235. doi: 10.1186/s12967-019-1985-1. PubMed PMID:31331338 PubMed Central PMC6647158.

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2018

  1. Aspatwar, A, Winum, JY, Carta, F, Supuran, CT, Hammaren, M, Parikka, M et al.. Carbonic Anhydrase Inhibitors as Novel Drugs against Mycobacterial β-Carbonic Anhydrases: An Update on In Vitro and In Vivo Studies. Molecules. 2018;23 (11):. doi: 10.3390/molecules23112911. PubMed PMID:30413024PubMed Central PMC6278287.
  2. Luukinen, H, Hammarén, MM, Vanha-Aho, LM, Parikka, M. Modeling Tuberculosis in Mycobacterium marinum Infected Adult Zebrafish. J Vis Exp. 2018; (140):. doi: 10.3791/58299. PubMed PMID:30346391 PubMed Central PMC6235461.
  3. Aspatwar, A, Becker, HM, Parvathaneni, NK, Hammaren, M, Svorjova, A, Barker, H et al.. Nitroimidazole-based inhibitors DTP338 and DTP348 are safe for zebrafish embryos and efficiently inhibit the activity of human CA IX in Xenopus oocytes. J Enzyme Inhib Med Chem. 2018;33 (1):1064-1073. doi: 10.1080/14756366.2018.1482285. PubMed PMID:29909747 PubMed Central PMC6009478.
  4. Myllymäki, H, Niskanen, M, Luukinen, H, Parikka, M, Rämet, M. Identification of protective postexposure mycobacterial vaccine antigens using an immunosuppression-based reactivation model in the zebrafish. Dis Model Mech. 2018;11 (3):. doi: 10.1242/dmm.033175. PubMed PMID:29590635PubMed Central PMC5897733.
  5. Luukinen, H, Hammarén, MM, Vanha-Aho, LM, Svorjova, A, Kantanen, L, Järvinen, S et al.. Priming of innate antimycobacterial immunity by heat-killed Listeria monocytogenes induces sterilizing response in the adult zebrafish tuberculosis model. Dis Model Mech. 2018;11 (1):. doi: 10.1242/dmm.031658. PubMed PMID:29208761 PubMed Central PMC5818079.

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