Kottelat, M. & Freyhof, J. 2007. Handbook of European freshwater fishes. Kottelat, Cornol and Freyhof, Berlin, xiv + 646 pp.
  Helland, I. P., Freyhof, J., Kasprzak, P. & Mehner, T. 2007. Temperature sensitivity of vertical distributions of zooplankton and planktivorous fish in a stratified lake. Oecologia, 151. 322-330. (3.333)
  Mayden, R. L., Tang, K. L., Conway, K. W., Freyhof, J., Chamberlain, S., Haskins, M., Schneider, L., Sudkamp, M., Wood, R. M., Agnew, M., Bufalino, A., Sulaiman, Z., Miya, M., Saitoh, K. & He, S.-H. 2007. Phylogenetic relationship of Danio within the order Cypriniformes: A framework for comparative and evolutionary studies of a model species. Journal of Experimental Zoology, 308B: 642-654. (2.756)
  Ng, H. H. & Freyhof, J. 2007. Pseudobagrus nubilosus, a new species of catfish from central Vietnam (Teleostei: Bagridae), with notes on the validities of Pelteobagrus and Pseudobagrus. Ichthyological Exploration of Freshwaters, 18: 9-16.
  Kottelat, M. & Freyhof, J. 2007. Pelasgus, a new genus name for the Balkan species of Pseudophoxinus (Teleostei: Cyprinidae). Ichthyological Exploration of Freshwaters, 18: 103-108.
  Freyhof, J., & Kottelat, M. 2007. Alburnus vistonicus, a new shemaya from eastern Greece, with remarks on Chalcalburnus chalcoides macedonicus from Lake Volvi (Teleostei: Cyprinidae). Ichthyological Exploration of Freshwaters, 18: 205-212.
  Freyhof, J., & Kottelat, M. 2007. Review of the Alburnus mento species group with description of two new species (Teleostei: Cyprinidae). Ichthyological Exploration of Freshwaters, 18: 213-225.
  Özuluğ, M. & Freyhof, J. 2007. Rediagnosis of four shemajas from western Turkey and description of two new species (Teleostei: Cyprinidae). Ichthyological Exploration of Freshwaters, 18: 233-246.
  Freyhof, J. & Stelbrink, B. 2007. Cobitis illyrica, a new species of loach from Adriatic basin, Croatia (Teleostei: Cobitidae). Ichthyological Exploration of Freshwaters, 18: 269-275.
  Özuluğ, M. & Freyhof; J. 2007. Alburnus demiri, a new species of bleak from Western Anatolia, Turkey (Teleostei: Cyprinidae). Ichthyological Exploration of Freshwaters, 18: 307-312.
  Freyhof, J. & Naseka, A. M. 2007. Proterorhinus tataricus, a new tubenose goby from Crimea, Ukraine (Teleostei: Gobiidae). Ichthyological Exploration of Freshwaters, 18: 325-334.


  Nolte, A. W., Freyhof, J., & Tautz, D. 2006. When invaders meet locally adapted types: rapid moulding of hybrid zones between two species of sculpins (Cottus, Pisces). Molecular Ecology, 15: 1983-1989. (4.301) .
  Freyhof, J., Lieckfeldt, D., Bogutskaya, N. G. & Ludwig A. 2006. Phylogenetic position of the Dalmatian genus Phoxinellus and description of Delminichthys, new genus, (Teleostei: Cyprinidae). Molecular Phylogenetics and Evolution, 38: 416-425. (3.431)
  Šlechtová, V., Bohlen, J., Freyhof, J. & Rab, P. 2006. Molecular phylogeny of the Southeast Asian freshwater fish family Botiidae (Teleostei: Cobitoidea) and the origin of polyploidisation in their evolution. Molecular Phylogenetics and Evolution, 39: 529-541. (3.431)
  Bohlen, J., Slechtova, V., Bogutskaya, N. G. & Freyhof, J. 2006. Across Siberia and over Europe: Phylogenetic relationships of the freshwater fish genus Rhodeus in Europe and the phylogenetic position of R. sericeus from the River Amur. Molecular Phylogenetics and Evolution, 40: 856-865. (3.431)
  Schulz, M., Freyhof, J., Saint-Laurent, R., Østbye, K., Mehner, T. & Bernatchez, L. 2006. Evidence for independent origin of two spring-spawning ciscoes in Germany (Salmoniformes: Coregonidae). Journal of Fish Biology 68, Suppl. A: 119-135. (1.188)
  Herder, F. & Freyhof, J. 2006. Niche differentiation of fishes in a medium-sized tropical stream. Journal of Fish Biology, 68: 571-589 (1.188)
  Yang, J., He, S., Freyhof, J., Witte, K.-E. & Liu, H. 2006. Phylogeny of the Gobioninae inferred from complete mitochondrial cytochrome b gene sequences (Teleostei: Cyprinidae). Hydrobiologia, 553: 255-266. (0.978)
  Sindilariu, P. D., Freyhof, J. & Wolter, C. 2006. Habitat use of juvenile fish in the lower Danube and the Danube Delta: implications for ecotone connectivity. Hydrobiologia, 571: 51-61. (0.978)
  Freyhof; J. & Özuluğ, M. 2006. Pseudophoxinus ninae, a new species from Central Anatolia, Turkey (Teleostei: Cyprinidae). Ichthyological Exploration of Freshwaters, 17: 255-259.


  Freyhof, J., Lieckfeldt, D., Pitra, C. & Ludwig A. 2005. Molecules and morphology: evidence for introgression of mitochondrial DNA in Dalmatian cyprinids. Molecular Phylogenetics and Evolution, 37: 347-354. (4.213)
  Nolte, A., Freyhof, J., Stemshorn, K. & Tautz, D. 2005. An invasive lineage of sculpins, Cottus sp. (Pisces, Teleostei) in the Rhine with new habitat adaptations has originated by hybridization between old phylogeographic groups. Proceedings of the Royal Society, London, 272: 2379-2387. (3.653)
  Freyhof, J. & Korte, E., 2005. The first record of Misgurnus anguillicaudatus in Germany. Journal of Fish Biology, 66: 568-571. (1.198)
  Freyhof, J. & Kottelat, M. 2005. Salvelinus evasus sp. n., a charr from deep waters of Lake Ammersee, southern Germany (Teleostei: Salmonidae), with comments on two extinct species. Revue Suisse de Zoologie, 112: 253-269. (0.284)
  Bohlen, Freyhof, J. & Wolter, C. 2005. First records of Cobitis elongatoides and Sabanejewia baltica (Cobitidae) for Germany. Cybium, 29: 103-104. (0.312)
  Freyhof, J. 2005. Redescription of Coregonus bavaricus Hofer, 1909, an endemic species to Lake Ammersee, Germany (Salmoniformes: Coregonidae). Cybium, 29: 179-183. (0.312)
  Freyhof, J., Kottelat, M. & Nolte, A. 2005. Taxonomic diversity of European Cottus with description of eight new species (Teleostei: Cottidae). Ichthyological Exploration of Freshwaters, 16: 107-172.
  Freyhof, J. & Schöter, C. 2005. The Houting, Coregonus oxyrinchus (L.), a globally extinct species from the North Sea basin (Salmoniformes: Coregonidae). Journal of Fish Biology, 67: 713-729. (1.198)
  Copp, G.H., Bianco, P.G., Bogutskaya, N.G., Erős, T., Falka, I., Ferreira, M.T., Fox, M.G., Freyhof, J., Gozlan, R.E., Grabowska, J., Kováč, V., Moreno-Amich, R., Naseka, A.M., Peňáz, M., Povž, M., Przybylski, M., Robillard, M., Russell, I.C., Stakėnas, S., Šumer, S., Vila-Gispert, A. & Wieser, C. 2005. To be, or not to be, a non-native freshwater fish. Journal of Applied Ichthyology, 21: 242-262. (0.478)
  Ng, H. H. & Freyhof, J. 2005. Pseudomystus sobrinus a new catfish (Teleostei: Bagridae) from central Vietnam. Copeia, 744-749. (0.824)
  Naseka A. M., Spodareva V. V., Freyhof J., Bogutskaya N. G., Poznjak V. G. 2005. New data to species composition and distribution of gudgeons (Gobioninae, Cyprinidae, Teleostei) in River Kuban. Folia Zoologica, 54, Suppl.: 50-55. (0.536)
  Freyhof, J. & Naseka, A. M. 2005. Gobio delyamurei, a new gudgeon from Crimean Peninsular (Teleostei: Cyprinidae). Ichthyological Exploration of Freshwaters, 16, 331-338.


  Šlechtová, V., Bohlen, J., Freyhof, J., Persat, H., & Delmastro, G. 2004. The Alps as barrier to dispersal in cold-adapted freshwater fishes? Phylogeographic history and taxonomic state of the bullhead in the Adriatic freshwater drainage. Molecular Phylogenetics and Evolution, 33: 225-239. (4.213)
  Wolter, C. & Freyhof, J. 2004. Diel fish movements in a temperate large lowland river. Journal of Fish Biology, 64: 632-642. (1.198)
  Freyhof, J. & Brunken, H. 2004. Erste Einschätzung der Verantwortlichkeit Deutschlands für die Erhaltung von Fischarten und Neunaugen des Süßwassers. Naturschutz und Biologische Vielfalt, 8: 133-144.
  Naseka, A. M. & Freyhof, J. 2004. Romanogobio parvus, a new gudgeon from River Kuban, southern Russia (Cyprinidae, Gobioninae). Ichthyological Exploration of Freshwaters, 15: 17-23.
  Bogutskaya, N. G., Movchan, Y. V. & Freyhof, J. 2004. On Barbus waleckii Rolik, 1970 (Cyprinidae) in Ukraine with brief remarks on species from the genus Barbus Cuvier, 1816, distributed in the Dniestr and Vistula drainages. Vestnik Zoologii, Kiev, 38: 87-92.
  Freyhof, J. & Herder, F. 2004. Comments on the proposed conservation of the specific name of M. concolor Ahl, 1937 (Osteichthyes, Perciformes). Bulletin of Zoological Nomenclature, 61 (3): 173-174.


  Schulz, M. & Freyhof, J. 2003. Coregonus fontanae, a new spring-spawning cisco from Lake Stechlin, northern Germany (Salmoniformes: Coregonidae). Ichthyological Exploration of Freshwaters, 14: 209-214.
  Freyhof, J. 2003. Sewellia albisuera, a new balitorid loach from Central Vietnam (Cypriniformes: Balitoridae). Ichthyological Exploration of Freshwaters, 14: 225-230.
  Ng, H. H. & Freyhof, J. 2003. Akysis clavulus, a new species of catfish (Teleostei: Akysidae) from Central Vietnam. Ichthyological Exploration of Freshwaters, 14: 311-316.
  Sindilariu, P. D. & Freyhof, J. 2003. Food overlap of benthic fishes in the Danube Delta, with special respect to two invasive gobiids (Teleostei: Gobiidae, Percidae, Cyprinidae). Lauterbornia, 46: 149-157.
  Freyhof, J. 2003. Immigration and potential impacts of invasive freshwater fishes in Germany. Berichte des IGB, 17: 51-58.

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