Papers for
wildlife conservation teams
Papers whose findings have a practical use for this group, as judged from the abstract. Open a paper to read what it means in practice.
Vision transformers outperform CNNs in identifying orchid genera from photos
Vision Transformers versus convolutional neural networks for fine-grained orchid genus identification in a species-rich, data-poor flora: a controlled benchmark on the Orchidaceae of New Guinea
Abstract: New Guinea is the world's richest island flora (~2,856 orchid species), yet most species are represented by only a handful of photographs, far fewer than direct species-level classification requires. Methods for fine-grained identification in such species-rich, data-poor floras are needed, and it remains unclear which backbone architecture and pretraining strategy best support them. We built a two-stage system that first predicts the genus of a query photograph, then retrieves visually similar reference images of candidate species using FAISS. We compared four pretrained backbones -- two Vision Transformers (ViTs; DINOv2, BioCLIP 2) and two CNNs (ConvNeXt V2-L, EfficientNetV2-L) -- fine-tuned under an identical protocol on a fixed, species-stratified partition of 16,701 photographs spanning 120 genera and 1,350 species, assessing accuracy, calibration, error structure, species retrieval, and open-set detection of novel genera. DINOv2 attained the best genus performance (macro top-1 66.9%, 95% CI 63.7-70.6; global top-1 88.9%); both ViTs outranked both CNNs, and general-purpose self-supervised pretraining (DINOv2) outperformed domain-matched biological pretraining (BioCLIP 2) by 7.1 points of macro top-1. Errors concentrated on two abundant genera acting as error attractors. DINOv2 embeddings achieved species Recall@5 of 86.6% and genus Recall@5 of 98.7%; temperature scaling reduced every backbone's Expected Calibration Error to about 0.03; and a distance-based open-set gate flagged unseen genera (mean AUROC 0.958). A self-supervised Vision-Transformer backbone combined with embedding retrieval is an effective, deployable strategy for fine-grained identification in species-rich, data-poor floras. The system is released as an open web application (the New Guinea Orchid Identifier), offering a practical template for other hyperdiverse, under-documented taxa.
Lightweight 3D U-Net detects bats from ultra-sparse LiDAR data
Needles in a Raystack: Ultra-Sparse LiDAR Occupancy Detection for Bat Tracks
Abstract: Monitoring flying animals is important for understanding and protecting biodiversity, but nocturnal species such as bats are difficult to observe in the field. Using LiDAR, bat movements at night result in ultra-sparse 3D spatio-temporal data in which standard reconstruction losses tend to predict only background and miss real flight paths. We study this problem as voxel-wise occupancy detection in sensor-centric LiDAR raystacks. A lightweight 3D U-Net is proposed that preserves temporal resolution, uses skip connections for spatial detail, and combines weighted binary cross-entropy with Dice loss to handle the strong class imbalance. In real LiDAR recordings of bats over open fields, cross-checked with acoustic monitoring, a reconstruction-based 3D convolutional autoencoder baseline fails to recover foreground trajectories. In contrast, the proposed U-Net recovers sparse foreground occupancy in diagnostic experiments and produces coherent occupancy patterns along bat flight trajectories, providing a practical basis for validation-scale experiments, later clustering of flight tracks, and future integration of bat activity information into biodiversity-aware turbine curtailment strategies.