Publications

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2.

Journal Article

Hodac, L.; Dunker, S.; Schmal, M.; Carreño, E.; Mäder, P.; Lorenz, M.; Jamroszczyk, M.; Šubrt, D.; Meier, S.; Dürselen, C.-D. et al.; Wäldchen, J.: Exploiting algal strains for robust cross-domain phytoplankton classification via deep learning. Limnology and Oceanography: Methods 23 (11), pp. 815 - 833 (2025)

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3.

Journal Article

Katal, N.; Rzanny, M.; Mäder, P.; Boho, D.; Wittich, H. C.; Tautenhahn, S.; Bebber, A.; Wäldchen, J.: Expanding phenological insights: automated phenostage annotation with community science plant images. International Journal of Biometeorology 69, pp. 2353 - 2367 (2025)

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4.

Journal Article

Milis, A.; Hofmann, M.; Mäder, P.; Wäldchen, J.; de Haan, M.; Ballings, P.; Van der Beeten, I.; Goffinet, B.; Vanderpoorten, A.: Towards the automatized identification of moss species from their spore morphology. Annals of Botany, mcaf215 (2025)

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5.

Journal Article

Karbstein, K.; Choudhary, N.; Xie, T.; Tomasello, S.; Wagner, N. D.; Barke, B. H.; Paetzold, C.; Bradican, J. P.; Michaela, P.; Himmelbach, A. et al.; Stein, N.; Papantonis, A.; Irisarri, I.; de Vries, J.; Pucker, B.; Hörandl, E.: Assembling genomes of non-model plants: A case study with evolutionary insights from Ranunculus (Ranunculaceae). The Plant Journal 123 (6), e70390 (2025)

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6.

Journal Article

Schulze, E. D.; Wäldchen, J.; Hüttig, L.; Fritzlar, D.; Wetzel, M.; Schulze, E. E.; Schweingruber, F. H.: Fachwerk als Spiegel historischer Waldnutzung. Naturwissenschaftliche Rundschau 78 (8), pp. 418 - 426 (2025)

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7.

Journal Article

Karbstein, K.; Lemke, T.; Westhus, W.; Rzanny, M.; Hodač, L.; Bebber, A.; Fritz, A.; Wittich, H. C.; Boho, D.; Mäder, P. et al.; Wäldchen, J.: App-basierte Erfassung von FFH- und Rote-Liste-Pflanzenarten mittels Flora Incognita. Landschaftspflege und Naturschutz in Thüringen 61 (2), pp. 51 - 58 (2025)

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8.

Journal Article

Kösters, L.; Karbstein, K.; Hofmann, M.; Hodac, L.; Mäder, P.; Wäldchen, J.: Data fusion for integrative species identification using deep learning. Systematic Biology (2025)

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9.

Journal Article

Rzanny, M.; Bebber, A.; Wittich, H. C.; Fritz, A.; Boho, D.; Mäder, P.; Wäldchen, J.: More than rapid identification—Free plant identification apps can also be highly accurate. People and Nature 6 (6), pp. 2178 - 2181 (2024)

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10.

Journal Article

Schatke, M.; Ulber, L.; Musavi, T.; Wäldchen, J.; von Redwitz, C.: From unwanted to wanted: Blending functional weed traits into weed distribution maps. Weed Research 64 (6), pp. 407 - 417 (2024)

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11.

Journal Article

Hodač, L.; Karbstein, K.; Kösters, L.; Rzanny, M.; Wittich, H. C.; Boho, D.; Šubrt, D.; Mäder, P.; Wäldchen, J.: Deep learning to capture leaf shape in plant images: Validation by geometric morphometricss. The Plant Journal 120 (4), pp. 1343 - 1357 (2024)

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12.

Journal Article

Hofmann, M.; Kiel, S.; Kösters, L.; Wäldchen, J.; Mäder, P.: Inferring taxonomic affinities and genetic distances using morphological features extracted from specimen images: a case study with a bivalve data set. Systematic Biology 73 (6), pp. 920 - 940 (2024)

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13.

Journal Article

Tomasello, S.; Manzo, E.; Karbstein, K.: Comparative plastome assembly of the yellow ironweed (Verbesina alternifolia) using Nanopore and Illumina reads. Frontiers in Plant Science 15, 1429494 (2024)

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14.

Journal Article

Karbstein, K.; Kösters, L.; Hodač, L.; Hofmann, M.; Hörandl, E.; Tomasello, S.; Wagner, N. D.; Emerson, B. C.; Albach, D. C.; Scheu, S. et al.; Bradler, S.; de Vries, J.; Irisarri, I.; Li, H.; Soltis, P.; Mäder, P.; Wäldchen, J.: Species delimitation 4.0: integrative taxonomy meets artificial intelligence. Trends in Ecology and Evolution 39 (8), pp. 771 - 784 (2024)

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15.

Journal Article

Mora, K.; Rzanny, M.; Wäldchen, J.; Feilhauer, H.; Kattenborn, T.; Kraemer, G.; Mäder, P.; Svidzinska, D.; Wolf, S.; Mahecha, M. D.: Macrophenological dynamics from citizen science plant occurrence data. Methods in Ecology and Evolution 15 (8), pp. 1422 - 1437 (2024)

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16.

Journal Article

Lehmanski, L. M. A.; Kösters, L.; Huang, J.; Göbel, M.; Gershenzon, J.; Hartmann, H.: Windthrow causes declines in carbohydrate and phenolic concentrations and increased monoterpene emission in Norway spruce. PLOS ONE 19 (5), e0302714 (2024)

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17.

Journal Article

Nauber, T.; Hodač, L.; Wäldchen, J.; Mäder, P.: Parametrization of biological assumptions to simulate growth of tree branching architectures. Tree Physiology 44 (5), tpae045 (2024)

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18.

Journal Article

Sheard, J. K.; Adriaens, T.; Bowler, D. E.; Büermann, A.; Callaghan, C. T.; Camprasse, E. C. M.; Chowdhury, S.; Engel, T.; Finch, E. A.; von Gönner, J. et al.; Hsing, P.-Y.; Mikula, P.; Oh, R. Y. R.; Peters, B.; Phartyal, S. S.; Pocock, M. J. O.; Wäldchen, J.; Bonn, A.: Emerging technologies in citizen science and potential for insect monitoring. Philosophical Transactions of the Royal Society of London, Series B: Biological Sciences 379 (1904), 20230106 (2024)

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19.

Journal Article

Rzanny, M.; Mäder, P.; Wittich, H. C.; Boho, D.; Wäldchen, J.: Opportunistic plant observations reveal spatial and temporal gradients in phenology. npj Biodiversity 3, 5 (2024)

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20.

Journal Article

Bebber, A.; Wäldchen, J.: Flora Incognita – mehr als Pfanzenbestimmung. Biologie in unserer Zeit 54 (1), pp. 29 - 31 (2024)

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21.

Journal Article

Bradican, J. P.; Tomasello, S.; Boscutti, F.; Karbstein, K.; Hörand, E.: Phylogenomics of southern european taxa in the Ranunculus auricomus species complex: The apple doesn’t fall far from the tree. Plants 12 (21), 3664 (2023)

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22.

Journal Article

Katal, N.; Rzanny, M.; Mäder, P.; Römermann, C.; Wittich, H. C.; Boho, D.; Musavi, T.; Wäldchen, J.: Bridging the gap: How to adopt opportunistic plant observations for phenology monitoring. Frontiers in Plant Science 14, 1150956 (2023)

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23.

Journal Article

Schneider, C.; Wäldchen, J.; Mäder, P.: Künstliche Intelligenz im Naturschutz. Natur und Landschaft 98 (6+7), pp. 304 - 311 (2023)

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24.

Journal Article

Karbstein, K.; Römermann, C.; Hellwig, F.; Prinz, K.: Population size affected by environmental variability impacts genetics, traits, and plant performance in Trifolium montanum L. Ecology and Evolution 13 (8), e10376 (2023)

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25.

Journal Article

Milz, S.; Wäldchen, J.; Abouee, A.; Ravichandran, A. A.; Schall, P.; Hagen, C.; Borer, J.; Lewandowski, B.; Wittich, H.-C.; Mäder, P.: The HAInich: A multidisciplinary vision data-set for a better understanding of the forest ecosystem. Scientific Data 10, 168 (2023)

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26.

Journal Article

Hodač, L.; Karbstein, K.; Tomasello, S.; Wäldchen, J.; Bradican, J. P.; Hörandl, E.: Geometric morphometric versus genomic patterns in a large polyploid plant species complex. Biology 12 (3), 418 (2023)

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27.

Journal Article

Wäldchen, J.; Wittich, H. C.; Rzanny, M.; Fritz, A.; Mäder, P.: Towards more effective identification keys: A study of people identifying plant species characters. People and Nature 4 (6), pp. 1603 - 1615 (2022)

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28.

Journal Article

van Klink, R.; August, T.; Bas, Y.; Bodesheim, P.; Bonn, A.; Fossøy, F.; Høye, T. T.; Jongejans, E.; Menz, M. H.M.; Miraldo, A. et al.; Roslin, T.; Roy, H. E.; Ruczyński, I.; Schigel, D.; Schäffler, L.; Sheard, J. K.; Svenningsen, C.; Tschan, G. F.; Wäldchen, J.; Zizka, V. M.A.; Åström, J.; Bowler, D. E.: Emerging technologies revolutionise insect ecology and monitoring. Trends in Ecology and Evolution 37 (10), pp. 872 - 885 (2022)

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29.

Journal Article

Karbstein, K.; Tomasello, S.; Hodac, L.; Wagner, N.; Marinček, P.; Barke, B. H.; Paetzold, C.; Hörandl, E.: Untying Gordian knots: unraveling reticulate polyploid plant evolution by genomic data using the large Ranunculus auricomus species complex. New Phytologist 235 (5), pp. 2081 - 2098 (2022)

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30.

Journal Article

Katal, N.; Rzanny, M.; Mäder, P.; Wäldchen, J.: Deep learning in plant phenological research: A systematic literature review. Frontiers in Plant Science 13, 805738 (2022)

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31.

Journal Article

Schmid, B.; Schmitz, M.; Rzanny, M.; Scherer-Lorenzen, M.; Mwangi, P. N.; Weisser, W. W.; Hector, A.; Schmid, R.; Flynn, D. F. B.: Removing subordinate species in a biodiversity experiment to mimic observational field studies. Grassland Research 1 (1), pp. 53 - 62 (2022)

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32.

Journal Article

Rzanny, M.; Wittich, H. C.; Mäder, P.; Deggelmann, A.; Boho, D.; Wäldchen, J.: Image-based automated recognition of 31 Poaceae species: The most relevant perspectives. Frontiers in Plant Science 12, 804140 (2022)

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33.

Journal Article

Pärtel, J.; Pärtel, M.; Wäldchen, J.: Plant image identification application demonstrates high accuracy in Northern Europe. AOB PLANTS 13 (4), plab050 (2021)

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34.

Journal Article

Mäder, P.; Boho, D.; Rzanny, M.; Seeland, M.; Wittich, H. C.; Deggelmann, A.; Wäldchen, J.: The Flora Incognita app – interactive plant species identfication. Methods in Ecology and Evolution 12 (7), pp. 1335 - 1342 (2021)

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35.

Journal Article

Boho, D.; Rzanny, M.; Wäldchen, J.; Nitsche, F.; Deggelmann, A.; Wittich, H.-C.; Seeland, M.; Mäder, P.: Flora Capture: a citizen science application for collecting structured plant observations. BMC Bioinformatics 21, 576 (2020)

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36.

Journal Article

Rzanny, M.; Mäder, P.; Deggelmann, A.; Chen, M.; Wäldchen, J.: Flowers, leaves or both? How to obtain suitable images for automated plant identification. Plant Methods 15, 77 (2019)

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37.

Journal Article

Seeland, M.; Rzanny, M.; Boho, D.; Wäldchen, J.; Mäder, P.: Image-based classification of plant genus and family for trained and untrained plant species. BMC Bioinformatics 20, 4 (2019)

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38.

Journal Article

Dunker, S.; Boho, D.; Wäldchen, J.; Mäder, P.: Combining high‑throughput imaging flow cytometry and deep learning for efficient species and life‑cycle stage identification of phytoplankton. BMC Ecology 18, 51 (2018)

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39.

Journal Article

Wäldchen, J.; Mäder, P.: Machine learning for image based species identification. Methods in Ecology and Evolution 9 (11), pp. 2216 - 2225 (2018)

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40.

Journal Article

Wittich, H. C.; Seeland, M.; Wäldchen, J.; Rzanny, M.; Mäder, P.: Recommending plant taxa for supporting on-site species identification. BMC Bioinformatics 19, 190 (2018)

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41.

Journal Article

Wäldchen, J.; Rzanny, M.; Seeland, M.; Mäder, P.: Automated plant species identification—Trends and future directions. PLoS Computational Biology 14 (4), e1005993 (2018)

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42.

Journal Article

Wäldchen, J.; Mäder, P.: Plant species identification using computer vision: A systematic literature review. Archives of Computational Methods in Engineering 25 (2), pp. 507 - 543 (2018)

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43.

Journal Article

Rzanny, M.; Seeland, M.; Wäldchen, J.; Mäder, P.: Acquiring and preprocessing leaf images for automated plant identification: understanding the tradeoff between effort and information gain. Plant Methods 13, 97 (2017)

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44.

Journal Article

Seeland, M.; Rzanny, M.; Alaqraa, N.; Wäldchen, J.; Mäder, P.: Plant species classification using flower images—A comparative study of local feature representations. PLoS One 12 (2), e0170629 (2017)

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