Optimizing Image Capture for Computer Vision-Powered Taxonomic Identification and Trait Recognition of Biodiversity Specimens

Biological collections house millions of specimens documenting Earth's biodiversity, with digital images increasingly available through open-access platforms. Most imaging protocols were developed for human visual interpretation without considering computational analysis requirements. This paper aims to bridge the gap between current imaging practices and the potential for automated analysis by presenting key considerations for creating biological specimen images optimized for computer vision applications. We provide conceptual computer vision topics for context, addressing fundamental concerns including model generalization, data leakage, and comprehensive metadata documentation, and outline practical guidance on specimen imagine, and data storage. These recommendations were synthesized through interdisciplinary collaboration between taxonomists, collection managers, ecologists, and computer scientists. Through this synthesis, we have identified ten interconnected considerations that form a framework for successfully integrating biological specimen images into computer vision pipelines. The key elements include: (1) comprehensive metadata documentation, (2) standardized specimen positioning, (3) consistent size and color calibration, (4) protocols for handling multiple specimens in one image, (5) uniform background selection, (6) controlled lighting, (7) appropriate resolution and magnification, (8) optimal file formats, (9) robust data archiving strategies, and (10) accessible data sharing practices. By implementing these recommendations, collection managers, taxonomists, and biodiversity informaticians can generate images that support automated trait extraction, species identification, and novel ecological and evolutionary analyses at unprecedented scales. Successful implementation lies in thorough documentation of methodological choices.

BeetleVerse: A study on taxonomic classification of ground beetles

Ground beetles are a highly sensitive and speciose biological indicator, making them vital for monitoring biodiversity. However, they are currently an underutilized resource due to the manual effort required by taxonomic experts to perform challenging species differentiations based on subtle morphological differences, precluding widespread applications. In this paper, we evaluate 12 vision models on taxonomic classification across four diverse, long-tailed datasets spanning over 230 genera and 1769 species, with images ranging from controlled laboratory settings to challenging field-collected (in-situ) photographs. We further explore taxonomic classification in two important real-world contexts: sample efficiency and domain adaptation. Our results show that the Vision and Language Transformer combined with an MLP head is the best performing model, with 97\% accuracy at genus and 94\% at species level. Sample efficiency analysis shows that we can reduce train data requirements by up to 50\% with minimal compromise in performance. The domain adaptation experiments reveal significant challenges when transferring models from lab to in-situ images, highlighting a critical domain gap. Overall, our study lays a foundation for large-scale automated taxonomic classification of beetles, and beyond that, advances sample-efficient learning and cross-domain adaptation for diverse long-tailed ecological datasets.