Discrimination of Annonaceae using herbarium leaf reflectance spectra under limited sample size conditions

Boughalmi, K.; Santacruz Endara, P. G.; Bennett, L. A.; Ecarnot, M.; Bazan, S.; Bastianelli, D.; Bonnal, L.; Couvreur, T. L. P.

doi:10.1101/2025.09.02.673631

bioRxiv · 10.1101/2025.09.02.673631

Discrimination of Annonaceae using herbarium leaf reflectance spectra under limited sample size conditions

Boughalmi, K.·Santacruz Endara, P. G.·Bennett, L. A.·Ecarnot, M.·Bazan, S.·Bastianelli, D.·Bonnal, L.·Couvreur, T. L. P.

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Abstract

PremiseHerbarium collections offer an unparalleled archive of plant biodiversity, but their use for species identification through spectral data remains constrained by uncertain effects of preservation histories. This study assesses whether barium specimens can reliably predict species based on its leaf reflectance spectrum, despite variations in age, geographic origin, or conservation method under limited sample size conditions. MethodsWe scanned herbarium specimens of different ages and geographic distribution of 14 species of the pantropical Annonaceae. In addition, we used a second dataset of 9 species where some specimens were conserved in alcohol prior to drying and some not. We used five supervised classification models frequently used for high-dimensional data such as spectroscopy. ResultsAll models achieved high accuracy (>80%) when trained on multiple specimens per species. However, when using only one specimen per species, accuracy varied substantially depending on the taxon. DiscussionOur findings demonstrate that herbarium specimens often retain a strong taxonomic signal in their spectra, however, inter-individual variability affects accuracy in some taxa. These findings confirm the usefulness of herbarium spectroscopy as a non-destructive tool for species identification and offer a promising avenue for digitizing historical biodiversity data into high-dimensional trait space.

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Boughalmi, K., Santacruz Endara, P. G., Bennett, L. A., Ecarnot, M., Bazan, S., Bastianelli, D., Bonnal, L., Couvreur, T. L. P.. 2025-09-05. Discrimination of Annonaceae using herbarium leaf reflectance spectra under limited sample size conditions. https://doi.org/10.1101/2025.09.02.673631

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