Towards the analysis of coral skeletal density-banding using deep learning

X-ray micro–computed tomography (µCT) is increasingly used to record the skeletal growth banding of corals. However, the wealth of data generated is time consuming to analyse for growth rates and colony age. Here we test an artificial intelligence (AI) approach to assist the expert identification of annual density boundaries in small colonies of massive Porites spanning decades. A convolutional neural network (CNN) was trained with µCT images combined with manually labelled ground truths to learn banding-related features. The CNN successfully predicted the position of density boundaries in independent images not used in training. Linear extension rates derived from CNN-based outputs and the traditional method were consistent. In the future, well-resolved 2D density boundaries from AI can be used to reconstruct density surfaces and enable studies focused on variations in rugosity and growth gradients across colony 3D space. We recommend the development of a community platform to share annotated images for AI.

Preparation of silicon and alumosilicic aerogels based on the decomposition of nepheline with an alcoholic solution of sulfuric acid

The results of studies on the production of silicon and aluminum-silicon aerogels from nepheline are presented. The morphology of the obtained samples was studied. Their chemical purity was proved by the method of X-ray elemental analysis. The structural and surface properties of the resulting aerogel are presented, such as: specific surface area (843.62 и 503.99 m2/g) and pore volume (0.396 и 0.237 cm3/g), average pore size (1.870 nm). Data on the skeletal density of the obtained samples are given

Effect of Shale Sample Particle Size on Pore Structure Obtained from High Pressure Mercury Intrusion Porosimetry

With the rapid development of unconventional oil and gas, the pore structure characterization of shale reservoirs has attracted an increasing attention. High pressure mercury intrusion porosimetry (HPMIP) has been widely used to quantitatively characterize the pore structure of tight shales. However, the pore structure obtained from HPMIP could be significantly affected by the sample particle size used for the analyses. This study mainly investigates the influence of shale sample particle size on the pore structure obtained from HPMIP, using Mississippian-aged Barnett Shale samples. The results show that the porosity of Barnett Shale samples with different particle sizes obtained from HPMIP has an exponentially increasing relation with the particle size, which is mainly caused by the new pores or fractures created during shale crushing process as well as the increasing exposure of blind or closed pores. The amount and proportion of mercury retention during mercury extrusion process increase with the decrease of shale particle size, which is closely related to the increased ink-bottle effect in shale sample with smaller particle size. In addition, the fractal dimension of Barnett Shale is positively related to the particle size, which indicates that the heterogeneity of pore structure is stronger in shale sample with larger particle size. Furthermore, the skeletal density of shale sample increases with the decrease of particle size, which is possibly caused by the differentiation of mineral composition during shale crushing process.

Linear extension, skeletal density, and calcification rates of the blue coral Heliopora coerulea

The brooding reef-building octocoral Heliopora is widespread on Indo-West Pacific reefs and appears to be relatively resistant to thermal stress, which may enable it to persist locally while scleractinians diminish under Anthropocene conditions. However, basic physiological measurements of “blue corals” are lacking and prevent their inclusion in trait-based studies. We address this by quantifying rates (mean ± SE) of linear extension (0.86 ± 0.05 cm yr−1) and skeletal density (2.01 ± 0.06 g cm−3) to estimate calcification rates (0.87 ± 0.08 g cm−2 yr−1) for the small branching/columnar morphology of Heliopora coerulea. We postulate that H. coerulea may become an increasingly important reef-builder under ocean warming due to its relative resistance to thermal stress and high skeletal density that make colonies less vulnerable to storm damage under ocean acidification. Moreover, Heliopora corals are likely dispersal limited suggesting they may be an underappreciated genus for restoration of stress-tolerant reef-building capacity on degraded reefs.

Increasing coral calcification in Orbicella faveolata and Pseudodiploria strigosa at Flower Garden Banks, Gulf of Mexico

Coral reefs are globally in decline and western Atlantic reefs have experienced the greatest losses in live coral cover of any region. The Flower Garden Banks (FGB) in the Gulf of Mexico are high-latitude, remote reefs that are an outlier to this trend, as they have maintained coral cover ≥ 50% since at least 1989. Quantifying the long-term trends in coral growth of key reef-building coral species, and the underlying environmental drivers, leads to a better understanding of local sensitivities to past changes that will ultimately allow us to better predict the future of reef growth at FGB. We obtained coral cores and constructed growth records for two of the most abundant hermatypic coral species at FGB, Pseudodiploria strigosa and Orbicella faveolata. Our records cover 57 yrs of growth for P. strigosa (1957–2013) and 45 yrs for O. faveolata (1970–2014). Linear extension and calcification rates of both species have increased significantly, but skeletal density did not change over the respective time periods. Extension and calcification data of both species combined were negatively correlated with the discharge from the Atchafalaya River, but positively correlated with maximum sea surface temperatures (SST). These data provide evidence that runoff from the Atchafalaya River impacts FGB corals and is a major control on coral growth at FGB. The increase in growth at FGB can be attributed to the significant warming trend in maximum monthly SSTs. Given the warming trend and recent increase in severity of bleaching at FGB, the prognosis is that bleaching events will become more deleterious with time, which will lead to a breakdown in the positive relationship between coral growth and maximum SST. This study provides further evidence that some high-latitude, cooler reef sites have experienced a stimulation in coral growth with ocean warming.

Direct determination of amorphous number density from the reduced Pair Distribution Function

The inference of amorphous bulk density, while straightforward for nonporous, soluble materials, may present a formidable challenge in some of the most important classes of industrial applications, involving melts, porous solids, and non-soluble organic pharmaceuticals, with varied implications depending on the material’s level of technological interest. Within nanotechnology and the life sciences in particular, accurate determination of amorphous true density is a frequent requirement and a regular puzzle, when, e.g., neither the Archimedean principle nor gas pycnometry may be applied, the former being only applicable to insoluble compounds, while the latter yielding skeletal density – an overestimate of true density to the extent of blind pores – and its efficiency is affected by the choice of the gas medium. In these cases, it is feasible to infer amorphous density from diffraction experiments through the use of the reduced Pair Distribution Function (PDF). Although an estimate of crystalline density has been known to be possible via the PDF shape, here we outline a new method extending this facility to include the estimation of amorphous density.

Micro-Fragmentation as an Effective and Applied Tool to Restore Remote Reefs in the Eastern Tropical Pacific

Coral reef ecosystems are continuously degraded by anthropogenic and climate change drivers, causing a widespread decline in reef biodiversity and associated goods and services. In response, active restoration methodologies and practices have been developed globally to compensate for losses due to reef degradation. Yet, most activities employ the gardening concept that uses coral nurseries, and are centered in easily-accessible reefs, with existing infrastructure, and impractical for coral reefs in remote locations. Here we evaluate the effectiveness of direct outplanting of coral micro-fragments (Pavona clavus and Pocillopora spp.) as a novel approach to restore remote reefs in the Islas Marías archipelago in the Eastern Tropical Pacific. Coral growth (height-width-tissue cover), survival percentage, extension rates (cm year−1), skeletal density (g cm−3) and calcification rates (g cm−2 year−1) were assessed over 13 months of restoration. In spite of detrimental effects of Hurricane Willa, transplants showed a greater-than-twofold increase in all growth metrics, with ~58–61% survival rate and fast self-attachment (within ~3.9 months) for studied species, with Pocilloporids exhibiting higher extension, skeletal density, and calcification rates than Pavona. While comprehensive long-term studies are required, direct transplantation methodologies of coral micro-fragments are emerging as time-effective and affordable restoration tools to mitigate anthropogenic and climate change impacts in remote and marginal reefs.