1. Gross, Riho; Kõiv, Kuldar; Pukk, Lilian; Kaldre, Katrin (2017). Development and characterization of novel tetranucleotide microsatellite markers in the noble crayfish (Astacus astacus) suitable for highly multiplexing and for detecting hybrids between the noble crayfish and narrow-clawed crayfish (A. leptodactylus). Aquaculture, 472 (Supplement 1), 50−56.10.1016/j.aquaculture.2016.04.015.
  2. Bruneaux, Matthieu; Visse, Marko; Gross, Riho; Pukk, Lilian; Saks, Lauri; Vasemägi, Anti (2017). Parasite infection and decreased thermal tolerance: impact of proliferative kidney disease (PKD) on a wild salmonid fish in the context of climate change. Functional Ecology, 31 (1), 216−226.10.1111/1365-2435.12701.
  3. Debes, Paul Vincent; Gross, Riho; Vasemägi, Anti (2017). Quantitative genetic variation in, and environmental effects on, pathogen resistance and temperature-dependent disease severity in a wild trout. American Naturalist, 190 (2), 244−265.10.1086/692536.
  4. Kaldre, Katrin; Paaver, Tiit; Hurt, Margo; Grandjean, Frédéric (2017). First records of the non-indigenous signal crayfish (Pacifastacus leniusculus) and its threat to noble crayfish (Astacus astacus) populations in Estonia. Biological Invasions.s10530-017-1496-z.
  5. Ojaveer, H.; Gross, R.; Laur, K., Arula, T. Klais, R. (2017). Genetic analysis reveals the diversity of larval Gobiidae in a temperate estuary. Journal of Fish Biology, 91 (4), 1048−1061.10.1111/jfb.13407.
  6. Ozerov, M.; Vähä, J. P.; Wennevik, V.; Niemelä, E.; Svenning, M. A.; Prusov, S.; Fernandez, R. D.; Unneland, L.; Vasemägi, A.; Falkegård, M.; Kalske, T.; Christiansen, B. (2017). Comprehensive microsatellite baseline for genetic stock identification of Atlantic salmon (Salmo salar L.) in northernmost Europe. ICES Journal of Marine Science, xxx−xxx [ilmumas].
  7. Niinemets, Ü.; Kahru, A.; Nõges, P.; Tuvikene, A.; Vasemägi, A.; Mander, Ü.; Nõges, T. (2017). Environmental feedbacks in temperate aquatic ecosystems under global change: why do we need to consider chemical stressors? Regional Environmental Change, 1−18.10.1007/s10113-017-1197-2.
  8. Vasemägi, A.; Nousiainen, I.; Saura, A.; Vähä, J-P.; Valjus, J.; Huusko, A. (2017). First record of proliferative kidney disease agent Tetracapsuloides bryosalmonae in wild brown trout and European grayling in Finland. Diseases of Aquatic Organisms, xxx−xxx [ilmumas].
  9. Niinemets, Ü.; Kahru, A.; Mander, Ü.; Nõges, P.; Nõges, T.; Tuvikene, A.; Vasemägi, A. (2017). Interacting environmental and chemical pollutant stresses under global change in aquatic ecosystems: stress responses, adaptation and scaling. Regional Environmental Change, x, 1−17.10.1007/s10113-017-1196-3.
  10. Hägerstrand, H.; Himberg, M.; Jokikokko, E.; von Numers, M.; Mrówczyńska, L.; Vasemägi, A.; Wiklund, T.; Lill, J.-O. (2017). Otolith elemental characteristics of whitefish (Coregonus lavaretus) from brackish waters of the Gulf of Bothnia, Baltic Sea. Ecology of Freshwater Fish, 26 (1), 66−74.eff.12255.
  11. Vasemägi, A.; Sulku, J.; Bruneaux, M.; Thalmann, O.; Mäkinen, H.; Ozerov, M. (2017). Prediction of harmful variants on mitochondrial genes: test of habitat-dependent and demographic effects in a euryhaline fish. Ecology and Evolution, xxx−xxx [ilmumas].


  1. Pukk, Lilian; Gross, Riho; Vetemaa, Markus; Vasemägi, Anti (2016). Genetic discrimination of brackish and freshwater populations of Eurasian perch (Perca fluviatilis L.) in the Baltic Sea drainage: implications for fish forensics. Fisheries Research, 183, 155−164.10.1016/j.fishres.2016.05.027. 1.1. 
  2. Ozerov, M.Y,; Gross, R.; Bruneaux, M.; Vähä, J-P.; Burimski, O.; Pukk, L.; Vasemägi, A. (2016). Genome-wide introgressive hybridization patterns in wild Atlantic salmon influenced by inadvertent gene flow from hatchery releases. Molecular Ecology, 25 (6), 1275−1293.10.1111/mec.13570. 1.1. 
  3. Bekkevold, Dorte; Gross, Riho; Arula, Timo; Helyar, Sarah J; Ojaveer, Henn (2016). Outlier loci detect intraspecific biodiversity amongst spring and autumn spawning herring across local scales. PLoS ONE, 11 (4, e0148499), 1−13.10.1371/journal.pone.0148499. 1.1. 
  4. Koljonen, Marja-Liisa; Gross, Riho (2016). Genetic diversity of Salmonids. In: Mika Raateoja, Outi Setälä (Ed.). The Gulf of Finland Assessment (229−232). Helsinki: Finnish Environmental Institute (SYKE). (Reports of the Finnish Environment Institute; 27). 3.2. 
  5. Kaldre, Katrin; Liiva, Mari; Gross, Riho (2016). Genetic and morphological characteristics of wild populations and captive stocks of the noble crayfish (Astacus astacus L.) in Estonia. Journal of Aquaculture Research & Development, 7 (8 (Suppl)), 72.10.4172/2155-9546.C1.009.
  6. Debes, P.; Visse, M; Panda, B; Ilmonen, P; Vasemägi, A. (2016). Is telomere length a molecular marker for past thermal stress in wild fish? Molecular Ecology, in press. Molecular Ecology, 5412−5424.
  7. Forsström, Tiia; Vasemägi, Anti (2016). Can environmental DNA (eDNA) be used for detection and monitoring of introduced crab species in the Baltic Sea? Marine Pollution Bulletin, 109 (1), 350−355.10.1016/j.marpolbul.2016.05.054.
  8. Wibowo, Arif; Wahlberg, Niklas; Vasemägi, Anti. (2016). DNA barcoding of fish larvae reveals uncharacterized biodiversity in tropical peat swamps of Southern Papua, Indonesia. Marine and Freshwater Research, 68 (6), 1079−1087.10.1071/MF16078.
  9. Vasemägi, A.; Kahar, S.; Ozerov, M. Y. (2016). Genes that affect Atlantic salmon growth in hatchery do not have the same effect in the wild. Functional Ecology, 30 (10), 1687−1695.1365-2435.12635.
  10. Kahar, S.; Debes, P. V.; Vuori, K. A. M.; Vähä, J.-P.; Vasemägi, A. (2016). Heritability, environmental effects, and genetic and phenotypic correlations of oxidative stress-resistance-related enzyme activities during early-life stages in Atlantic salmon. Evolutionary Biology, 43 (2), 215−226.s11692-016-9368-5.


  1. Ginter, Kai; Gross, Riho; Järvalt, Ain; Kruusamägi, Ats; Paaver, Tiit; Päkk, Priit (2015). Kalakasvatus. Perspektiivsed liigid. Pärnu: Eesti Loodusfoto.
  2. Hartikainen, H.; Filippenko, D.; Okamura, B.; Vasemägi, A. (2015). First microsatellite loci of the myxozoan parasite Tetracapsuloides bryosalmonae, the causative agent of proliferative kidney disease (PKD). Diseases of Aquatic Organisms, xxx - xxx. [in press]
  3. Kaldre, Katrin; Haugjärv, Kerli; Liiva, Mari; Gross, Riho (2015). The effect of two different feeds on growth, carapace colour, maturation and mortality in marbled crayfish (Procambarus fallax f. virginalis). Aquaculture International, 23(1), 185 - 194.
  4. Kaldre, Katrin; Meženin, Anton; Paaver, Tiit; Kawai, Tadashi (2015). A Preliminary Study on the Tolerance of Marble Crayfish Procambarus fallax f. virginalis to Low Temperature in Nordic Climate. Tadashi Kawai, Zen Faulkes, Gerhard Scholtz (Eds.). Freshwater Crayfish: A Global Overview (54 - 62). Taylor & Francis [in press]
  5. Ozerov, M. Yu. Himberg, M.; Aykanat, T.; Sendek, D. S.; Hägerstrand, H.; Verliin, A.; Krause, T.; Olsson, J.; Primmer, C. R., Vasemägi, A. (2015). Generation of a neutral FST baseline for testing local adaptation on gill-raker number within and between European whitefish ecotypes in the Baltic Sea basin. Journal of Evolutionary Biology, xxx - xxx. [in press]
  6. Ozerov, M; Jürgenstein, T; Aykanat, T; Vasemägi, A. (2015). Use of sibling relationship reconstruction to complement traditional monitoring in fisheries management and conservation of brown trout. Conservation Biology, xxx - xxx. [in press]
  7. Pukk, L; Ahmad, F; Hasan, S; Kisand, V; Gross, R; Vasemägi, A. (2015). Less is more: extreme genome complexity reduction with ddRAD using Ion Torrent semiconductor technology. Molecular Ecology Resources, xxx - xxx. [in press]
  8. Päkk, Priit; Seera, Vallo (2015). Biokile moodustumise mõju patogeensete bakterite antibiootikumiresistentsusele erinevates vesiviljeluse süsteemides. Marko Kass Toim. Marko Kass. 75−78.


  1. Bruneaux, M.; Nikinmaa, M.; Laine, V.N.; Lindström, K.; Primmer, C.R.; Vasemägi, A. (2014). Differences in the metabolic response to temperature acclimation in nine-spined stickleback (Pungitius pungitius) populations from contrasting thermal environments. Journal of Experimental Zoology Part A: Ecological Genetics and Physiology, xxxx - xxxx. [in press]
  2. Dash, M.; Vasemägi, A. (2014). Proliferative kidney disease (PKD) agent Tetracapsuloides bryosalmonae in brown trout populations in Estonia. Diseases of Aquatic Organisms, 109(2), 139 - 148.
  3. Filippenko, D.; Hartikainen, H.; Okamura, B.; Vasemägi, A. (2014). Characterisation of polymorphic microsatellite loci for the bryozoan Fredericella sultana, the primary host of the causative agent of salmonid proliferative kidney disease. Conservation Genetics Resources, 6(2), 481 - 482.
  4. Koljonen, Marja-Liisa; Gross, Riho; Koskiniemi, Jarmo (2014). Wild Estonian and Russian sea trout (Salmo trutta) in Finnish coastal sea trout catches: results of genetic mixed-stock analysis. Hereditas, 151(6), 177 - 195.
  5. Mäkinen, H.; Vasemägi, A.; McGinnity, P.; Cross, T.; Primmer, C. (2014). Population genomic analyses of early phase Atlantic salmon (Salmo salar) domestication/captive breeding. Evolutionary Applications, xxx - xxx. [in press]
  6. Papakostas, S.; Vasemägi, A.; Himberg, M.; Primmer, C.R. (2014). Proteome variance differences within populations of European whitefish (Coregonus lavaretus) originating from contrasting salinity environments. Journal of Proteomics, 105, 144 - 150.
  7. Peuhkuri, Nina; Saura, Ari; Koljonen, Marja-­Liisa; Titov, Sergey; Gross, Riho; Kannel, Risto; Koskiniemi, Jarmo (2014). Current state and restoration of sea trout and Atlantic salmon populations in three river systems in the eastern Gulf of Finland. Helsinki: Finnish Game and Fisheries Research Institute
  8. Pukk, Lilian; Kisand, Veljo; Ahmad, Freed; Gross, Riho; Vasemägi, Anti (2014). Double-restriction-site-associated DNA (dRAD) approach for fast microsatellite marker development in Eurasian perch (Perca fluviatilis L.). Conservation Genetics Resources, 6(1), 183 - 184.
  9. Vesterlund, S-R.; Kakko, M.; Vasemägi, A.; Sorvari, J. (2014). The buff-tailed bumblebee Bombus terrestris in Southern Finland: status and monitoring. Entomologica Fennica, 25(2), 49 - 57.
  10. Vesterlund, S-R.; Sorvari, J.; Vasemägi, A. (2014). Molecular identification of cryptic bumblebee species from degraded samples using PCR-RFLP approach. Molecular Ecology Resources, 14(1), 122 - 126.


  1. Arias, M. C.; Atteke, Christiane; Augusto, S. C.; Bailey, J.; Bazaga, Pilar; Beheregaray, Luciano B.; Benoit, Laure; Blatrix, Rumsais; Born, Celine; Brito, R. M.; Chen, Hai-kui; Covarrubias, Sara; de Vega, Clara; Djieto-Lordon, Champlain; Dubois, Marie-Pierre; Francisco, F. O.; Garcia, Cristina; Goncalves, P. H. P.; Gonzalez, Clementina; Gutierrez-Rodriguez, Carla; Hammer, Michael P.; Herrera, Carlos M.; Itoh, H.; Kamimura, S.; Karaoglu, H.; Kojima, S.; Li, Shou-Li; Ling, Hannah J.; Matos-Maravi, Pavel F.; McKey, Doyle; Mezui-M'Eko, Judicael; Ornelas, Juan Francisco; Park, R. F.; Pozo, Maria I.; Ramula, Satu; Rigueiro, Cristina; Sandoval-Castillo, Jonathan; Santiago, L. R.; Seino, Miyuki M.; Song, Chang-Bing; Takeshima, H.; Vasemagi, Anti; Wellings, C. R.; Yan, Ji; Yu-Zhou, Du; Zhang, Chang-Rong; Zhang, Tian-Yun (2013). Permanent genetic resources added to Molecular Ecology Resources Database 1 February 2013-31 March 2013. Molecular Ecology Resources, 13(4), 760 - 762.
  2. Bourret, V.; Kent, M.P.; Primmer, C.R.; Vasemägi, A.; Karlsson, S.; Hindar, K.; McGinnity, P.; Verspoor, E.; Bernatchez, L.; Lien, S. (2013). SNP-array reveals genome wide patterns of geographical and potential adaptive divergence across the natural range of Atlantic salmon (Salmo salar). Molecular Ecology, 22, 532 - 551.
  3. Bruneaux, M.; Johnston, S.E.; Herczeg, G.; Merilä, J.; Primmer, C.R.; Vasemägi, A. (2013). Molecular evolutionary and population genomic analysis of the nine-spined stickleback using a modified restriction-site-associated DNA tag approach. Molecular Ecology, 22, 565 - 582.
  4. Gross, Riho; Palm, Stefan; Kõiv, Kuldar; Prestegaard, Tore; Jussila, Japo; Paaver, Tiit; Geist, Juergen; Kokko, Harri; Karjalainen, Anna; Edsman, Lennart (2013). Microsatellite markers reveal clear geographic structuring among threatened noble crayfish (Astacus astacus) populations in Northern and Central Europe. Conservation Genetics, 14(4), 809 - 821.
  5. Johnston, S.E.; Lindqvist, M.; Niemelä, E.; Orell, P.; Erkinaro, J.; Kent, M.P.; Lien, S.; Vähä, J-P.; Vasemägi, A.; Primmer, C.R. (2013). Fish scales and SNP chips: SNP genotyping and allele frequency estimation in individual and pooled DNA from historical samples of Atlantic salmon (Salmo salar). BMC Genomics, 14, 439 - 439.
  6. Kaldre, Katrin; Haugjärv, Kerli; Gross, Riho; Paaver, Tiit; Liiva, Mari (2013). The effect of two different feeds on growth and carapace colour in Marbled crayfish (Procambarus fallax f. virginalis). In: Book of Abstracts - Regional European Crayfish Meeting: CrayCro, Rovinj, Horvaatia, 26-28.09.2013. (Eds.) Lennart Edsman, Leopold Füreder., 44.
  7. Li, S.; Vasemägi, A.; Matos-Maraví, P. F.; Ramula, S. (2013). Development and testing of microsatellite loci for the invasive herb Lupinus polyphyllus through 454 pyrosequencing . Molecular Ecology Resources, 13(4), 760 - 762.
  8. Makkonen, Jenny; Jussila, Japo; Koistinen, L.; Paaver, Tiit; Hurt, Margo; Kokko, Harri (2013). Fusarium avenaceum causes burn spot disease syndrome in noble crayfish (Astacus astacus). Journal of Invertebrate Pathology, 113(2), 184 - 190.
  9. Ozerov, M. Y.; Vasemägi, A.; Wennevik, V.; Niemelä, E.; Prusov, S.V.; Kent, M-P.; Vähä, J-P. (2013). Cost-effective genome-wide estimation of allele frequencies from pooled DNA in Atlantic salmon (Salmo salar L.). BMC Genomics, 14(Article No 12), 1 - 12.
  10. Pukk, Lilian; Kuparinen, Anna; Järv, Leili; Gross, Riho; Vasemägi, Anti (2013). Genetic and life-history changes associated with fisheries-induced population collapse. Evolutionary Applications, 6(5), 749 - 760.
  11. Swatdipong, A.; Vasemägi, A.; Niva, T.; Koljonen, M-L.; Primmer, C.R. (2013). Genetic mixed-stock analysis of lake-run brown trout fisheries catch in the Inari basin, northern Finland: implications for conservation and management. Journal of Fish Biology, 83(3), 598 - 617.
  12. Wennerström, L.; Laikre, L.; Ryman, N.; Utter, FM.; Ab, Ghani, NI.; André, C.; DeFaveri, J.; Johansson, D.; Kautsky, L.; Merilä, J.; Mikhailova, N.; Pereyra, R.; Sandström, A.; Teacher, AGF.; Wenne, R.; Vasemägi, A.; Zbawicka, M.; Johannesson, K.; Primmer, CR. (2013). Genetic biodiversity in the Baltic Sea: species-specific patterns challenge management. Biodiversity and Conservation, 22(13-14), 3045 - 3065.


  1. Andris, M.; Arias, M. C.; Barthel, B. L.; Bluhm, B. H.; Bried, J.; Canal, D.; Chen, X. M.; Cheng, P.; Chiappero, M. B.; Coelho, M. M.; Collins, A. B.; Dash, M.; Davis, M. C.; Duarte, M.; Dubois, M. P.; Francoso, E.; Galmes, M. A.; Gopal, K.; Jarne, P.; Kalbe, M.; Karczmarski, L.; Kim, H.; Martella, M. B.; Mcbride, R. S.; Negri, V.; Negro, J. J.; Newell, A. D.; Piedade, A. F.; Puchulutegui, C.; Raggi, L.; Samonte, I. E.; Sarasola, J. H.; See, D. R.; Seyoum, S.; Silva, M. C.; Solaro, C.; Tolley, K. A.; Tringali, M. D.; Vasemagi, A.; Xu, L. S.; Zanon-Martinez, J. I. (2012). Permanent Genetic Resources added to Molecular Ecology Resources Database 1 February 2012-31 March 2012. Molecular Ecology Resources, 12(4), 779 - 781.
  2. Järv, L.; Pukk, L.; Kuparinen, A.; Raid, T.; Vasemägi, A. (2012). Life history and genetic implications of over-exploitation in Eurasian perch (Perca fluviatilis l.) from the Matsalu Bay, north-eastern Baltic sea. ICES Annual Science Conference, Bergen, Norvey, 17-21 September 2012. 
  3. Kaldre, Katrin; Meženin, Anton; Paaver, Tiit (2012). Marbled crayfish (Procambarus fallax f. virginalis) resistance and survival rates at low (under 5°C) temperatures during winter period. In: Book of abstracts IAA 19 : IAA 19 Conference, Innsbruck, Austria 26-31.08.2012. (Eds.)IAA19 Conference Scientifi c Organising Committee: Leopold Füreder (Chair; IAA President-Elect), Uni., 75.
  4. Papakostas, S.; Vasemägi, A.; Vähä, J-P.; Peil, L.; Himberg, M.; Primmer, C. (2012). A proteomics approach reveals divergent molecular responses to salinity in populations of European whitefish (Coregonus lavaretus). Molecular Ecology, 21(14), 3516 - 3530.
  5. Zingel, P.; Paaver, T.; Karus, K.; Agasild, H.; Nõges, T. (2012). Ciliates as the crucial food source of larval fish in a shallow eutrophic lake . Limnology and Oceanography, 57(4), 1049 - 1056.
  6. Vasemägi, Anti; Nilsson, Jan; McGinnity, Philip; Cross, Tom; O’Reilly, Patrick; Glebe, Brian; Peng, Bo; Berg, Paul; Primmer, Craig. (2012). Screen for footprints of selection during domestication/captive breeding of Atlantic salmon. Comparative and Functional Genomics, 1 - 14.
  7. Vuorisalo, Timo; Arjamaa, Olli; Vasemägi, Anti; Taavitsainen, Jussi-Pekka; Tourunen, Auli; Saloniemi, Irma. (2012). High lactose tolerance in North Europeans: a result of migration, not in situ milk consumption. Perspectives in Biology and Medicine, 55(2), 163 - 174.


  1. Päkk, Priit; Hussar, Piret; Järveots, Tõnu; Paaver, Tiit (2011). Club cells active role in epidermal regeneration after skin hyperplasia of koi carp Cyprinus carpio. AACL BIOFLUX, 4(4), 455 - 462.
  2. Päkk, Priit; Hussar, Piret; Paaver, Tiit (2011). Alterations of club cell activity in epidermis of common carp, Cyprinus carpio (Actinopterygii: Cypriniformes: Cyprinidae), due to infection by Ichthyophthirius multifiliis (Protista: Ciliophora). Acta Ichthyologica et Piscatoria, 41(3), 185 - 192.