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Kirschner J. 2009: Typification of Juncus mutabilis Lam. Taxon 58, 277 - 279.
Kirschner J. 2009: Typification of Zaluzianskya villosa F. W. Schmidt (Scrophulariaceae-Manuleae). South African Journal of Botany 75, 588 - 590. doi:10.1016/j.sajb.2009.02.176
Záveská Drábková L., Kirschner J., Štěpánek J., Záveský L. & Vlček Č. 2009: Analysis of nrDNA polymorphism in closely related diploid sexual, tetraploid sexual and polyploid agamospermous species. Plant Systematics and Evolution 278, 67 - 85, app.1-11. doi:10.1007/s00606-008-0134-8
Buttler K. P., Hand R. & Kirschner J. 2008: 7. Valeriana-officinalis-Gruppe. Kochia 3, 82 - 86.
Kirschner J. 2008: 150. Familie: Simsengewächse/Juncaceae. In: Fischer M. A., Oswald K. & Adler W., Exkursionsflora für Österreich, Biologiezentrum der OÖ Landesmuseen, Linz, 1091 - 1099.
Kirschner J. & Štěpánek J. 2008: The most common dandelions in Middle Asia: the problem of Taraxacum sect. Macrocornuta, T. sect. Ceratoidea sect. nova, and the Identity of T. halophilum. Phyton - Annales Rei Botanicae 48, 61 - 78.
Kirschner J., Štěpánek J. & Greuter W. 2008: Taraxacum F. H. Wigg. In: Greuter W., Med-Checklist 2, Dicotyledones (Compositae), 739 - 775.
Trávníček B., Kirschner J. & Štěpánek J. 2008: Five new species of Taraxacum sect. Ruderalia from Central Europe and Denmark. Preslia 80, 27 - 59.
Chrtek J. jr., Tonková M., Mráz P., Marhold K., Plačková I., Krahulcová A. & Kirschner J. 2007: Morphological and allozyme diversity in the Hieracium nigrescens group (Compositae) in the Sudety Mountains and the Western Carpathians. Botanical Journal of the Linnean Society 153, 287 - 300.
Chrtek J., Plačková I., Zahradníková J., Kirschner J., Kirschnerová L., Štěpánek J., Krahulcová A., Krahulec F., Harčarik J. 2007: Genetická variabilita vybraných horských druhů cévnatých rostlin v Krkonoších. (Genetic variation in selected mountain species of vascular plants in the Giant Mountains.) Opera Corcontica 44, 251 - 264.
Kirschner J. 2007: A New Species of Luzula Sect. Luzula (Juncaceae) from Costa Rica. Novon 17, 202 - 205.
Kirschner J. 2007: Juncus effusus Linnaeus. In: Jarvis C. Order out of chaos: Linnaean plant names and their types, The Linnean Society of London, 601 - 601.
Kirschner J. 2007: Juncus niveus Linnaeus. In: Jarvis C: Order out of chaos: Linnaean plant names and their types, The Linnean Society of London, 601 - 601.
Kirschner J. 2007: Juncus squarrosus Linnaeus. In: C. Jarvis, Order out of chaos: Linnaean plant names and their types, The Linnean Society of London, 601 - 602.
Kirschner J. 2007: Proposal to reject the name Juncus setaceus (Juncaceae). Taxon 56, 259 - 259.
Kirschner J. 2007: Valeriana officinalis Linnaeus. In: C. Jarvis, Order out of chaos: Linnaean plant names and their types, The Linnean Society of London, 913 - 913.
Kirschner J., Drábková L. 2007: Proposal to conserve the name Juncus micranthus Schrad. ex E. Mey. against J. micranthus Desv. (Juncaceae), with a note on J. validus. Taxon 56, 602 - 603.
Kirschner J., Kirschnerová L. & Štěpánek J. 2007: Generally accepted plant names based on material from Czech Republic and published in 1753-1820. Preslia 79, 323 - 365.
Uhleman I., Kirschner J., Ollgaard H. & Štěpánek J. 2007: Four new species of Taraxacum sect. Ruderalia (Asteraceae_cichorieae) from Central Europe and Scandinavia. Phyton - Annales Rei Botanicae 47, 103 - 121.
Businský R. & Kirschner J. 2006: Nomenclatural notes on the Pinus mugo complex in Central Europe. Phyton - Annales Rei Botanicae 46, 129 - 139.