Quantifying the three-dimensional (3D) habitat structure of coral reefs is an important aspect of coral reef monitoring, as habitat architecture affects the abundance and diversity of reef organisms. Here, we used photogrammetric techniques to generate 3D reconstructions of coral reefs and examined relationships between benthic cover and various habitat metrics obtained at six different resolutions of raster cells, ranging from 1 to 32 cm. For metrics of 3D structural complexity, fractal dimension, which utilizes information on 3D surface areas obtained at different resolutions, and vector ruggedness measure (VRM) obtained at 1-, 2-or 4-cm resolution correlated well with benthic cover, with a relatively large amount of variability in these metrics being explained by the proportions of corals and crustose coralline algae. Curvature measures were, on the other hand, correlated with branching and mounding coral cover when obtained at 1-cm resolution, but the amount of variability explained by benthic cover was generally very low when obtained at all other resolutions. These results show that either fractal dimension or VRM obtained at 1-, 2-or 4-cm resolution, along with curvature obtained at 1-cm resolution, can effectively capture the 3D habitat structure provided by specific benthic organisms.

Extreme disturbances such as hurricanes can cause reductions in coral cover and three-dimensional (3D) structural complexity of coral reefs. We examined changes in structural complexity utilizing 3D reconstruction of a coral-reef site before and after Hurricane Walaka passed through Lalo of the Northwestern Hawaiian Islands. This event resulted in complete destruction of the coral-reef habitat, with dramatic changes in benthic cover from pre-hurricane tabulate coral to post-hurricane rubble. Rugosity and mean slope decreased after the hurricane, while structural complexity, captured by vector ruggedness measure (VRM), showed resolution-specific responses. This metric captured the structural complexity of rubble at a high raster resolution of 1 cm and that of tabulate coral at lower resolutions, resulting in decreases in mean VRM values at 2- and 4-cm resolutions but an increase at 1-cm resolution. Variability in profile and planform curvature was reduced after the hurricane due to a disappearance of extreme curvature values created by the tabulate coral after the hurricane. This study highlights the varying responses of habitat complexity metrics to the complete destruction of a coral reef and provides us with insights into how choices of habitat complexity metrics can affect quantitative assessments of 3D habitat structure.

<p><strong>Abstract.</strong> Corals act as ecosystem engineers by secreting structurally complex calcium carbonate skeletons on the benthic substrate that provide habitat for a diverse array of associated reef organisms. Communities of living corals create large and dynamic benthic structures that directly affect ecological parameters such as habitat provisioning and light availability, thus influencing overall ecosystem function. Despite the important role 3D structural complexity plays in ecosystem biodiversity and productivity, the field of coral ecology has lacked accessibility to practical technology capable of quantifying 3D characteristics of underwater habitats. Advancements in the field of computer vision has led to Structure-from-Motion (SfM) photogrammetry, which provides a simple and cost-effective method for creating high-resolution and spatially accurate 3D reconstructions of natural environments. Integrating SfM approaches into coral reef research and monitoring has provided useful insight into the relationship between 3D habitat complexity and ecological processes. In this study, we examined the relationships among 2D estimates of live coral cover and several metrics of 3D habitat structural complexity among eleven long-term monitoring sites at French Frigate Shoals. Our findings show that coral assemblage structure acts as a significant driver of 3D structural complexity of coral reef habitats at this atoll. This study highlights the importance of diverse and abundant coral assemblages in supporting structurally complex coral reef habitats and provides a framework for future investigations into the ecological role of various coral morphotypes.</p>

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The architectural complexity of coral-reef habitat plays an important role in determining the assemblage structure of reef fish. We investigated associations between the reef habitats and fish assemblages in the Northwestern Hawaiian Islands (NWHI) using in situ fish counts and data on habitat metrics and benthic community composition that were obtained from three-dimensional (3D) photogrammetric reconstructions of the surveyed sites. The structure of fish assemblage as a whole on the basis of Bray–Curtis dissimilarity, species richness and the abundances of herbivores and piscivores were associated with habitat metrics, with higher levels of architectural complexity generally supporting greater numbers of fish species and individuals. Benthic cover did not explain additional variation in these variables after the effects of habitat metrics were taken into account. Corallivorous fish was the only group that showed positive associations with both habitat metrics and benthic cover (Acropora and Pocillopora corals). The total fish abundance and the abundances of planktivores and invertivores did not show associations with either habitat metrics or benthic cover. This study suggests that an appropriate combination of habitat metrics can be used to account sufficiently for the effects of habitat architecture on fish assemblages in reef monitoring efforts in the NWHI.