Skip to content
Medical Virology

Oikarinen lab

Publications

2025

  1. Lipponen, A, Luomala, O, Juutinen, A, Hokajärvi, AM, Kolehmainen, A, Oksanen, J et al.. Development of an online portal for wastewater-based surveillance of multiple pathogens – A WastPan Study. Environ Int. 2025;200 :109545. doi: 10.1016/j.envint.2025.109545. PubMed PMID:40414187 .
  2. Peterson, C, Tagoma, A, Alnek, K, Bärenson, A, Vorobjova, T, Talja, I et al.. Antibodies against in the children of mothers at risk for gestational diabetes. Immunol Med. 2025; :1-11. doi: 10.1080/25785826.2025.2504021. PubMed PMID:40406906 .
  3. Länsivaara, A, Palmroth, M, Kaarela, O, Hyöty, H, Oikarinen, S, Lehto, KM et al.. Virus detection in influent, activated sludge, and effluent from municipal wastewater treatment plants using composite and grab samples in Finland. Environ Res. 2025;279 (Pt 2):121776. doi: 10.1016/j.envres.2025.121776. PubMed PMID:40324624 .
  4. Rewers, M, Agardh, D, Johnson, SB, Bonifacio, E, Larsson, HE, Gesualdo, P et al.. Unfolding the Mystery of Autoimmunity: The Environmental Determinants of Diabetes in the Young (TEDDY) Study. Diabetes Care. 2025; :. doi: 10.2337/dc24-2886. PubMed PMID:40272272 .
  5. Soppela, S, Plavec, Z, Gröhn, S, Mustonen, I, Jartti, M, Oikarinen, S et al.. Immunological and structural evaluation of the intranasally administrated CVB1 whole-virus and VLP vaccines. Sci Rep. 2025;15 (1):10198. doi: 10.1038/s41598-025-94656-0. PubMed PMID:40133550 PubMed Central PMC11937443.
  6. Laiho, JE, Oikarinen, S, Morfopoulou, S, Oikarinen, M, Renner, A, Depledge, D et al.. Detection of enterovirus RNA in pancreas and lymphoid tissues of organ donors with type 1 diabetes. Diabetologia. 2025;68 (6):1211-1225. doi: 10.1007/s00125-025-06359-w. PubMed PMID:40095061 PubMed Central PMC12069483.
  7. Al-Mustapha, AI, Tiwari, A, Laukkanen-Ninios, R, Lehto, KM, Oikarinen, S, Lipponen, A et al.. Wastewater based genomic surveillance key to population level monitoring of AmpC/ESBL producing Escherichia coli. Sci Rep. 2025;15 (1):7400. doi: 10.1038/s41598-025-91516-9. PubMed PMID:40033002 PubMed Central PMC11876440.
  8. Jonsdottir, B, Clasen, JL, Vehik, K, Lernmark, Å, Lundgren, M, Bonifacio, E et al.. Early Appearance of Thyroid Autoimmunity in Children Followed From Birth for Type 1 Diabetes Risk. J Clin Endocrinol Metab. 2025;110 (2):498-510. doi: 10.1210/clinem/dgae478. PubMed PMID:38996042 PubMed Central PMC11747670.

Search PubMed

2024

  1. Eurén, A, Lynch, K, Lindfors, K, Parikh, H, Koletzko, S, Liu, E et al.. Risk of celiac disease autoimmunity is modified by interactions between CD247 and environmental exposures. Sci Rep. 2024;14 (1):25463. doi: 10.1038/s41598-024-75496-w. PubMed PMID:39462122 PubMed Central PMC11567144.
  2. Laiho, JE, Oikarinen, S, Morfopoulou, S, Oikarinen, M, Renner, A, Depledge, D et al.. Detection of enterovirus RNA in pancreas and lymphoid tissues of organ donors with type 1 diabetes. medRxiv. 2024; :. doi: 10.1101/2024.09.11.24313112. PubMed PMID:39314969 PubMed Central PMC11419248.
  3. Parajuli, A, Mäkelä, I, Roslund, MI, Ringqvist, E, Manninen, J, Sun, Y et al.. Production, analysis, and safety assessment of a soil and plant-based natural material with microbiome- and immune-modulatory effects. Methods. 2024;231 :94-102. doi: 10.1016/j.ymeth.2024.09.011. PubMed PMID:39306218 .
  4. Al-Mustapha, AI, Tiwari, A, Johansson, V, Heljanko, V, Kirsi-Maarit, L, Lipponen, A et al.. Characterization of methicillin resistant in municipal wastewater in Finland. One Health. 2024;19 :100881. doi: 10.1016/j.onehlt.2024.100881. PubMed PMID:39263321 PubMed Central PMC11388770.
  5. Sarekoski, A, Lipponen, A, Hokajärvi, AM, Räisänen, K, Tiwari, A, Paspaliari, D et al.. Simultaneous biomass concentration and subsequent quantitation of multiple infectious disease agents and antimicrobial resistance genes from community wastewater. Environ Int. 2024;191 :108973. doi: 10.1016/j.envint.2024.108973. PubMed PMID:39182255 .
  6. Länsivaara, A, Lehto, KM, Hyder, R, Janhonen, ES, Lipponen, A, Heikinheimo, A et al.. Comparison of Different Reverse Transcriptase-Polymerase Chain Reaction-Based Methods for Wastewater Surveillance of SARS-CoV-2: Exploratory Study. JMIR Public Health Surveill. 2024;10 :e53175. doi: 10.2196/53175. PubMed PMID:39158943 PubMed Central PMC11369532.
  7. Roslund, MI, Nurminen, N, Oikarinen, S, Puhakka, R, Grönroos, M, Puustinen, L et al.. Skin exposure to soil microbiota elicits changes in cell-mediated immunity to pneumococcal vaccine. Sci Rep. 2024;14 (1):18573. doi: 10.1038/s41598-024-68235-8. PubMed PMID:39127736 PubMed Central PMC11316737.
  8. Soppela, S, Plavec, Z, Gröhn, S, Jartti, M, Oikarinen, S, Laajala, M et al.. Comparison of structure and immunogenicity of CVB1-VLP and inactivated CVB1 vaccine candidates. Res Sq. 2024; :. doi: 10.21203/rs.3.rs-4545395/v1. PubMed PMID:38978565 PubMed Central PMC11230480.
  9. Hakola, L, Lund-Blix, NA, Takkinen, HM, Tapanainen, H, Niinistö, S, Korhonen, TE et al.. Maternal gluten, cereal, and dietary fiber intake during pregnancy and lactation and the risk of islet autoimmunity and type 1 diabetes in the child. Clin Nutr ESPEN. 2024;62 :22-27. doi: 10.1016/j.clnesp.2024.05.001. PubMed PMID:38901945 .
  10. Lehto, KM, Länsivaara, A, Hyder, R, Luomala, O, Lipponen, A, Hokajärvi, AM et al.. Wastewater-based surveillance is an efficient monitoring tool for tracking influenza A in the community. Water Res. 2024;257 :121650. doi: 10.1016/j.watres.2024.121650. PubMed PMID:38692254 .
  11. Lipponen, A, Kolehmainen, A, Oikarinen, S, Hokajärvi, AM, Lehto, KM, Heikinheimo, A et al.. Detection of SARS-COV-2 variants and their proportions in wastewater samples using next-generation sequencing in Finland. Sci Rep. 2024;14 (1):7751. doi: 10.1038/s41598-024-58113-8. PubMed PMID:38565591 PubMed Central PMC10987589.
  12. Tiwari, A, Lehto, KM, Paspaliari, DK, Al-Mustapha, AI, Sarekoski, A, Hokajärvi, AM et al.. Developing wastewater-based surveillance schemes for multiple pathogens: The WastPan project in Finland. Sci Total Environ. 2024;926 :171401. doi: 10.1016/j.scitotenv.2024.171401. PubMed PMID:38467259 .
  13. Hakola, L, Mramba, LK, Uusitalo, U, Andrén Aronsson, C, Hummel, S, Niinistö, S et al.. Intake of B vitamins and the risk of developing islet autoimmunity and type 1 diabetes in the TEDDY study. Eur J Nutr. 2024;63 (4):1329-1338. doi: 10.1007/s00394-024-03346-6. PubMed PMID:38413484 PubMed Central PMC11139689.
  14. Hyöty, H, Kääriäinen, S, Laiho, JE, Comer, GM, Tian, W, Härkönen, T et al.. Safety, tolerability and immunogenicity of PRV-101, a multivalent vaccine targeting coxsackie B viruses (CVBs) associated with type 1 diabetes: a double-blind randomised placebo-controlled Phase I trial. Diabetologia. 2024;67 (5):811-821. doi: 10.1007/s00125-024-06092-w. PubMed PMID:38369573 PubMed Central PMC10954874.
  15. Heljanko, V, Tyni, O, Johansson, V, Virtanen, JP, Räisänen, K, Lehto, KM et al.. Clinically relevant sequence types of carbapenemase-producing Escherichia coli and Klebsiella pneumoniae detected in Finnish wastewater in 2021-2022. Antimicrob Resist Infect Control. 2024;13 (1):14. doi: 10.1186/s13756-024-01370-z. PubMed PMID:38291521 PubMed Central PMC10829384.

Search PubMed

2023

Search PubMed

2022

  1. Tiwari, A, Kurittu, P, Al-Mustapha, AI, Heljanko, V, Johansson, V, Thakali, O et al.. Wastewater surveillance of antibiotic-resistant bacterial pathogens: A systematic review. Front Microbiol. 2022;13 :977106. doi: 10.3389/fmicb.2022.977106. PubMed PMID:36590429 PubMed Central PMC9798455.
  2. Vatanen, T, Jabbar, KS, Ruohtula, T, Honkanen, J, Avila-Pacheco, J, Siljander, H et al.. Mobile genetic elements from the maternal microbiome shape infant gut microbial assembly and metabolism. Cell. 2022;185 (26):4921-4936.e15. doi: 10.1016/j.cell.2022.11.023. PubMed PMID:36563663 PubMed Central PMC9869402.
  3. Tiwari, A, Adhikari, S, Kaya, D, Islam, MA, Malla, B, Sherchan, SP et al.. Monkeypox outbreak: Wastewater and environmental surveillance perspective. Sci Total Environ. 2023;856 (Pt 2):159166. doi: 10.1016/j.scitotenv.2022.159166. PubMed PMID:36202364 PubMed Central PMC9534267.
  4. Vehik, K, Boulware, D, Killian, M, Rewers, M, McIndoe, R, Toppari, J et al.. Rising Hemoglobin A1c in the Nondiabetic Range Predicts Progression of Type 1 Diabetes As Well As Oral Glucose Tolerance Tests. Diabetes Care. 2022;45 (10):2342-2349. doi: 10.2337/dc22-0828. PubMed PMID:36150054 PubMed Central PMC9587339.
  5. Krischer, JP, Liu, X, Lernmark, Å, Hagopian, WA, Rewers, MJ, She, JX et al.. Predictors of the Initiation of Islet Autoimmunity and Progression to Multiple Autoantibodies and Clinical Diabetes: The TEDDY Study. Diabetes Care. 2022;45 (10):2271-2281. doi: 10.2337/dc21-2612. PubMed PMID:36150053 PubMed Central PMC9643148.
  6. Luoma, J, Adubra, L, Ashorn, P, Ashorn, U, Bendabenda, J, Dewey, KG et al.. Association between asymptomatic infections and linear growth in 18-24-month-old Malawian children. Matern Child Nutr. 2023;19 (1):e13417. doi: 10.1111/mcn.13417. PubMed PMID:36111423 PubMed Central PMC9749610.
  7. Roslund, MI, Parajuli, A, Hui, N, Puhakka, R, Grönroos, M, Soininen, L et al.. A Placebo-controlled double-blinded test of the biodiversity hypothesis of immune-mediated diseases: Environmental microbial diversity elicits changes in cytokines and increase in T regulatory cells in young children. Ecotoxicol Environ Saf. 2022;242 :113900. doi: 10.1016/j.ecoenv.2022.113900. PubMed PMID:35930838 .
  8. Sioofy-Khojine, AB, Richardson, SJ, Locke, JM, Oikarinen, S, Nurminen, N, Laine, AP et al.. Detection of enterovirus RNA in peripheral blood mononuclear cells correlates with the presence of the predisposing allele of the type 1 diabetes risk gene IFIH1 and with disease stage. Diabetologia. 2022;65 (10):1701-1709. doi: 10.1007/s00125-022-05753-y. PubMed PMID:35867130 PubMed Central PMC9477938.
  9. Tiwari, A, Ahmed, W, Oikarinen, S, Sherchan, SP, Heikinheimo, A, Jiang, G et al.. Application of digital PCR for public health-related water quality monitoring. Sci Total Environ. 2022;837 :155663. doi: 10.1016/j.scitotenv.2022.155663. PubMed PMID:35523326 .
  10. Välikangas, T, Lietzén, N, Jaakkola, MK, Krogvold, L, Eike, MC, Kallionpää, H et al.. Pancreas Whole Tissue Transcriptomics Highlights the Role of the Exocrine Pancreas in Patients With Recently Diagnosed Type 1 Diabetes. Front Endocrinol (Lausanne). 2022;13 :861985. doi: 10.3389/fendo.2022.861985. PubMed PMID:35498413 PubMed Central PMC9044038.
  11. Soininen, L, Roslund, MI, Nurminen, N, Puhakka, R, Laitinen, OH, Hyöty, H et al.. Indoor green wall affects health-associated commensal skin microbiota and enhances immune regulation: a randomized trial among urban office workers. Sci Rep. 2022;12 (1):6518. doi: 10.1038/s41598-022-10432-4. PubMed PMID:35444249 PubMed Central PMC9021224.
  12. Hård Af Segerstad, EM, Liu, X, Uusitalo, U, Agardh, D, Andrén Aronsson, C, TEDDY Study Group et al.. Sources of dietary gluten in the first 2 years of life and associations with celiac disease autoimmunity and celiac disease in Swedish genetically predisposed children: The Environmental Determinants of Diabetes in the Young (TEDDY) study. Am J Clin Nutr. 2022;116 (2):394-403. doi: 10.1093/ajcn/nqac086. PubMed PMID:35394004 PubMed Central PMC9348971.
  13. Törn, C, Liu, X, Onengut-Gumuscu, S, Counts, KM, Moreno, JL, Remedios, CL et al.. Telomere length is not a main factor for the development of islet autoimmunity and type 1 diabetes in the TEDDY study. Sci Rep. 2022;12 (1):4516. doi: 10.1038/s41598-022-08058-7. PubMed PMID:35296692 PubMed Central PMC8927592.
  14. Ferrat, LA, Vehik, K, Sharp, SA, Lernmark, Å, Rewers, MJ, She, JX et al.. Author Correction: A combined risk score enhances prediction of type 1 diabetes among susceptible children. Nat Med. 2022;28 (3):599. doi: 10.1038/s41591-021-01631-z. PubMed PMID:35165454 .
  15. Jacobsen, LM, Vehik, K, Veijola, R, Warncke, K, Toppari, J, Steck, AK et al.. Heterogeneity of DKA Incidence and Age-Specific Clinical Characteristics in Children Diagnosed With Type 1 Diabetes in the TEDDY Study. Diabetes Care. 2022;45 (3):624-633. doi: 10.2337/dc21-0422. PubMed PMID:35043162 PubMed Central PMC8918232.
  16. Melin, J, Lynch, KF, Lundgren, M, Aronsson, CA, Larsson, HE, Johnson, SB et al.. Is staff consistency important to parents’ satisfaction in a longitudinal study of children at risk for type 1 diabetes: the TEDDY study. BMC Endocr Disord. 2022;22 (1):19. doi: 10.1186/s12902-021-00929-w. PubMed PMID:35012530 PubMed Central PMC8744326.
  17. González-Rodríguez, MI, Nurminen, N, Kummola, L, Laitinen, OH, Oikarinen, S, Parajuli, A et al.. Effect of inactivated nature-derived microbial composition on mouse immune system. Immun Inflamm Dis. 2022;10 (3):e579. doi: 10.1002/iid3.579. PubMed PMID:34873877 PubMed Central PMC8926502.

Search PubMed

2021

  1. González-Rodríguez, MI, Nurminen, N, Kummola, L, Laitinen, OH, Oikarinen, S, Parajuli, A et al.. Effect of inactivated nature-derived microbial composition on mouse immune system. Immun Inflamm Dis. 2022;10 (3):e579. doi: 10.1002/iid3.579. PubMed PMID:34873877 PubMed Central PMC8926502.
  2. Brænne, I, Onengut-Gumuscu, S, Chen, R, Manichaikul, AW, Rich, SS, Chen, WM et al.. Dynamic changes in immune gene co-expression networks predict development of type 1 diabetes. Sci Rep. 2021;11 (1):22651. doi: 10.1038/s41598-021-01840-z. PubMed PMID:34811390 PubMed Central PMC8609030.
  3. Roslund, MI, Puhakka, R, Nurminen, N, Oikarinen, S, Siter, N, Grönroos, M et al.. Long-term biodiversity intervention shapes health-associated commensal microbiota among urban day-care children. Environ Int. 2021;157 :106811. doi: 10.1016/j.envint.2021.106811. PubMed PMID:34403882 .
  4. Oikarinen, S, Krogvold, L, Edwin, B, Buanes, T, Korsgren, O, Laiho, JE et al.. Characterisation of enterovirus RNA detected in the pancreas and other specimens of live patients with newly diagnosed type 1 diabetes in the DiViD study. Diabetologia. 2021;64 (11):2491-2501. doi: 10.1007/s00125-021-05525-0. PubMed PMID:34390364 PubMed Central PMC8494699.
  5. Cinek, O, Polackova, K, Odeh, R, Alassaf, A, Kramná, L, Ibekwe, MU et al.. Blastocystis in the faeces of children from six distant countries: prevalence, quantity, subtypes and the relation to the gut bacteriome. Parasit Vectors. 2021;14 (1):399. doi: 10.1186/s13071-021-04859-3. PubMed PMID:34384477 PubMed Central PMC8359624.
  6. Mohanraj, U, Jokinen, M, Thapa, RR, Paloniemi, M, Vesikari, T, Lappalainen, M et al.. Human Protoparvovirus DNA and IgG in Children and Adults with and without Respiratory or Gastrointestinal Infections. Viruses. 2021;13 (3):. doi: 10.3390/v13030483. PubMed PMID:33804173 PubMed Central PMC7999311.
  7. Ruohtula, T, Kondrashova, A, Lehtonen, J, Oikarinen, S, Hämäläinen, AM, Niemelä, O et al.. Immunomodulatory Effects of Rhinovirus and Enterovirus Infections During the First Year of Life. Front Immunol. 2020;11 :567046. doi: 10.3389/fimmu.2020.567046. PubMed PMID:33643278 PubMed Central PMC7905218.
  8. Bonifacio, E, Weiß, A, Winkler, C, Hippich, M, Rewers, MJ, Toppari, J et al.. An Age-Related Exponential Decline in the Risk of Multiple Islet Autoantibody Seroconversion During Childhood. Diabetes Care. 2021;44 (10):2260-8. doi: 10.2337/dc20-2122. PubMed PMID:33627366 PubMed Central PMC8929192.
  9. Hokajärvi, AM, Rytkönen, A, Tiwari, A, Kauppinen, A, Oikarinen, S, Lehto, KM et al.. The detection and stability of the SARS-CoV-2 RNA biomarkers in wastewater influent in Helsinki, Finland. Sci Total Environ. 2021;770 :145274. doi: 10.1016/j.scitotenv.2021.145274. PubMed PMID:33513496 PubMed Central PMC7825999.
  10. Maleta, K, Fan, YM, Luoma, J, Ashorn, U, Bendabenda, J, Dewey, KG et al.. Infections and systemic inflammation are associated with lower plasma concentration of insulin-like growth factor I among Malawian children. Am J Clin Nutr. 2021;113 (2):380-390. doi: 10.1093/ajcn/nqaa327. PubMed PMID:33381802 PubMed Central PMC7851819.
  11. Vari, HK, Roslund, MI, Oikarinen, S, Nurminen, N, Puhakka, R, Parajuli, A et al.. Associations between land cover categories, gaseous PAH levels in ambient air and endocrine signaling predicted from gut bacterial metagenome of the elderly. Chemosphere. 2021;265 :128965. doi: 10.1016/j.chemosphere.2020.128965. PubMed PMID:33248729 .
  12. Liu, Z, Fan, YM, Ashorn, P, Cheung, YB, Hallamaa, L, Hyöty, H et al.. Faecal regenerating 1B protein concentration is not associated with child growth in rural Malawi. J Paediatr Child Health. 2021;57 (3):388-394. doi: 10.1111/jpc.15231. PubMed PMID:33112481 PubMed Central PMC8048694.

Search PubMed

2020

Search PubMed

2019

  1. Lindfors, K, Lin, J, Lee, HS, Hyöty, H, Nykter, M, Kurppa, K et al.. Metagenomics of the faecal virome indicate a cumulative effect of enterovirus and gluten amount on the risk of coeliac disease autoimmunity in genetically at risk children: the TEDDY study. Gut. 2020;69 (8):1416-1422. doi: 10.1136/gutjnl-2019-319809. PubMed PMID:31744911 PubMed Central PMC7234892.
  2. Johnson, RK, Vanderlinden, L, DeFelice, BC, Kechris, K, Uusitalo, U, Fiehn, O et al.. Metabolite-related dietary patterns and the development of islet autoimmunity. Sci Rep. 2019;9 (1):14819. doi: 10.1038/s41598-019-51251-4. PubMed PMID:31616039 PubMed Central PMC6794249.
  3. Lietzén, N, Hirvonen, K, Honkimaa, A, Buchacher, T, Laiho, JE, Oikarinen, S et al.. Coxsackievirus B Persistence Modifies the Proteome and the Secretome of Pancreatic Ductal Cells. iScience. 2019;19 :340-357. doi: 10.1016/j.isci.2019.07.040. PubMed PMID:31404834 PubMed Central PMC6699423.
  4. Hui, N, Parajuli, A, Puhakka, R, Grönroos, M, Roslund, MI, Vari, HK et al.. Temporal variation in indoor transfer of dirt-associated environmental bacteria in agricultural and urban areas. Environ Int. 2019;132 :105069. doi: 10.1016/j.envint.2019.105069. PubMed PMID:31400602 .
  5. Roslund, MI, Rantala, S, Oikarinen, S, Puhakka, R, Hui, N, Parajuli, A et al.. Endocrine disruption and commensal bacteria alteration associated with gaseous and soil PAH contamination among daycare children. Environ Int. 2019;130 :104894. doi: 10.1016/j.envint.2019.06.004. PubMed PMID:31220749 .
  6. Mustonen, N, Siljander, H, Peet, A, Tillmann, V, Härkönen, T, Ilonen, J et al.. Early childhood infections and the use of antibiotics and antipyretic-analgesics in Finland, Estonia and Russian Karelia. Acta Paediatr. 2019;108 (11):2075-2082. doi: 10.1111/apa.14874. PubMed PMID:31132164 .
  7. Lehto, KM, Fan, YM, Oikarinen, S, Nurminen, N, Hallamaa, L, Juuti, R et al.. Presence of Giardia lamblia in stools of six- to 18-month old asymptomatic Malawians is associated with children’s growth failure. Acta Paediatr. 2019;108 (10):1833-1840. doi: 10.1111/apa.14832. PubMed PMID:31038225 PubMed Central PMC6790611.
  8. Krischer, JP, Liu, X, Vehik, K, Akolkar, B, Hagopian, WA, Rewers, MJ et al.. Predicting Islet Cell Autoimmunity and Type 1 Diabetes: An 8-Year TEDDY Study Progress Report. Diabetes Care. 2019;42 (6):1051-1060. doi: 10.2337/dc18-2282. PubMed PMID:30967432 PubMed Central PMC6609953.
  9. Korhonen, L, Oikarinen, S, Lehtonen, J, Mustonen, N, Tyni, I, Niemelä, O et al.. Rhinoviruses in infancy and risk of immunoglobulin E sensitization. J Med Virol. 2019;91 (8):1470-1478. doi: 10.1002/jmv.25455. PubMed PMID:30866076 .

Search PubMed