Semi-Automated Object-Based Classification of Coral Reef Habitat Using Discrete Choice Models

As for terrestrial remote sensing, pixel-based classifiers have traditionally been used to map coral reef habitats. For pixel-based classifiers, habitat assignment is based on the spectral or textural properties of each individual pixel in the scene. More recently, however, object-based classifications, those based on information from a set of contiguous pixels with similar properties, have found favor with the reef mapping community and are starting to be extensively deployed. Object-based classifiers have an advantage over pixel-based in that they are less compromised by the inevitable inhomogeneity in per-pixel spectral response caused, primarily, by variations in water depth. One aspect of the object-based classification workflow is the assignment of each image object to a habitat class on the basis of its spectral, textural, or geometric properties. While a skilled image interpreter can achieve this task accurately through manual editing, full or partial automation is desirable for large-scale reef mapping projects of the magnitude which are useful for marine spatial planning. To this end, this paper trials the use of multinomial logistic discrete choice models to classify coral reef habitats identified through object-based segmentation of satellite imagery. Our results suggest that these models can attain assignment accuracies of about 85%, while also reducing the time needed to produce the map, as compared to manual methods. Limitations of this approach include misclassification of image objects at the interface between some habitat types due to the soft gradation in nature between habitats, the robustness of the segmentation algorithm used, and the selection of a strong training dataset. Finally, due to the probabilistic nature of multinomial logistic models, the analyst can estimate a map of uncertainty associated with the habitat classifications. Quantifying uncertainty is important to the end-user when developing marine spatial planning scenarios and populating spatial models from reef habitat maps

N-acetyldopamine quinone methide/1,2-dehydro-N-acetyl dopamine tautomerase A new enzyme involved in sclerotization of insect cuticle

AbstractThe enzyme system causing the side chain desaturation of the sclerotizing precursor, N-acetyldopamine (NADA), was solubilized from the larval cuticle of Sarcophaga bullata and resolved into three components. The first enzyme, phenoloxidase, catalyzed conversion of NADA to NADA quinone and provided it for the second enzyme (NADA quinone isomerase), which makes the highly unstable NADA quinone methide. Quinone methide was hydrated rapidly and nonenzymatically to form N-acetylnorepinephrine. In addition, it also served as the substrate for the last enzyme, quinone methide tautomerase, which converted it to 1,2-dehydro-NADA. Reconstitution of NADA side chain desaturase activity was achieved by mixing the last enzyme fraction with NADA quinone isomerase, obtained from the hemolymph of the same organism, and mushroom tyrosinase. Therefore, NADA side chain desaturation observed in insects is caused by the combined action of three enzymes rather than the action of a single specific NADA desaturase, as previously thought

Multipolar endocardial mapping of the right atrium during cardiac catheterization: description of a new technique

AbstractObjectives. Using a new mapping system that allows the simultaneous acquisition of date from 25 right atrial bipolar electrodes during cardiac catheterization, we mapped normal sinus rhythm and atrial reentrant tachycardia in 24 sheep (20 to 49 kg) and 7 pigs (25 to 35 kg).Background. Rapid, high resolution mapping during cardiac catheterization may shorten ablation procedures and permit ablation of otherwise refractory arrhythmias.Methods. A flexible, elliptic, basket-shaped recording catheter has five spokes, each with 10 electrodes arranged as 5 bipolar pairs. Catheter shape, electrode spacing and introduction technique were modified in response to the results of experiments in the first 23 animals. In the most recent eight animals, retraction of a string attached to the distal tip distended the basket, providing safe tissue contact. Filtered (30 to 250 Hz) bipolar recordings from all 25 electrode pairs, as well as a surface electrocardiogram, were recorded and digitized at 1,000 Hz using custom software. An activation map was digitally constructed and superimposed on anteroposterior and lateral fluoroscopic catheter images. Bipolar recordings were made in normal sinus rhythm (31 animals), with adequate signals recorded from >95% of electrode pairs. Rapid burst pacing and intentional right atrial air embolus (30 to 50 ml) induced sustained atrial reentrant tachycardia in five animais, which was also adequately recorded.Results. Catheter positioning and complete atrial mapping required <10 min after venous access in the most recent eight experiments. The catheter was left in position for up to 4 h. Postmortem evaluation revealed minor superficial abrasion of the venae cavae or right atrial endocardium in six animals and moderate abrasion in two. No other damage was observed.Conclusions. This new system may ultimately assist in mapping simple or complex atrial arrhythmias during cardiac eatheterization

Synthesis, Characterization, and Pickering Emulsifier Performance of Anisotropic Cross-Linked Block Copolymer Worms: Effect of Aspect Ratio on Emulsion Stability in the Presence of Surfactant

Reversible addition–fragmentation chain transfer (RAFT) aqueous dispersion polymerization is used to prepare epoxy-functional PGMA–P(HPMA-stat-GlyMA) diblock copolymer worms, where GMA, HPMA, and GlyMA denote glycerol monomethacrylate, 2-hydroxypropyl methacrylate, and glycidyl methacrylate, respectively. The epoxy groups on the GlyMA residues were ring-opened using 3-aminopropyltriethoxysilane (APTES) in order to cross-link the worm cores via a series of hydrolysis–condensation reactions. Importantly, the worm aspect ratio can be adjusted depending on the precise conditions selected for covalent stabilization. Relatively long cross-linked worms are obtained by reaction with APTES at 20 °C, whereas much shorter worms with essentially the same copolymer composition are formed by cooling the linear worms from 20 to 4 °C prior to APTES addition. Small-angle X-ray scattering (SAXS) studies confirmed that the mean aspect ratio for the long worms is approximately eight times greater than that for the short worms. Aqueous electrophoresis studies indicated that both types of cross-linked worms acquired weak cationic surface charge at low pH as a result of protonation of APTES-derived secondary amine groups within the nanoparticle cores. These cross-linked worms were evaluated as emulsifiers for the stabilization of n-dodecane-in-water emulsions via high-shear homogenization at 20 °C and pH 8. Increasing the copolymer concentration led to a reduction in mean droplet diameter, indicating that APTES cross-linking was sufficient to allow the nanoparticles to adsorb intact at the oil/water interface and hence produce genuine Pickering emulsions, rather than undergo in situ dissociation to form surface-active diblock copolymer chains. In surfactant challenge studies, the relatively long worms required a thirty-fold higher concentration of a nonionic surfactant (Tween 80) to be displaced from the n-dodecane–water interface compared to the short worms. This suggests that the former nanoparticles are much more strongly adsorbed than the latter, indicating that significantly greater Pickering emulsion stability can be achieved by using highly anisotropic worms. In contrast, colloidosomes prepared by reacting the hydroxyl-functional adsorbed worms with an oil-soluble polymeric diisocyanate remained intact when exposed to high concentrations of Tween 80

Synthesis of a porphyrin with histidine-like chelate: an efficient path towards molecular PDT/SPECT theranostics

© The Royal Society of Chemistry 2020. The goal of “personalised” medicine has seen a growing interest in the development of theranostic agents. Bifunctional, and targeted-trifunctional, theranostic water-soluble porphyrins with a histidine-like chelating group have been synthesisedviacopper-catalysed azide-alkyne cycloaddition (CuAAC) “click” chemistry in high yield and purity. They are capable of photodynamic treatment and [99mTc(CO)3]+complexation for single-photon emission computed tomography (SPECT) imaging, with a radiochemical yield of >95%. The toxicity and phototoxicity were evaluated on HT-29 cells, DU145, and DU145-PSMA cell lines, with the targeted theranostic showing more potent phototoxicity towards DU145-PSMA expressing cells

The GALFA-HI Survey: Data Release 1

We present the Galactic Arecibo L-Band Feed Array HI (GALFA-HI) survey, and its first full data release (DR1). GALFA-HI is a high resolution (~ 4'), large area (13000 deg^2), high spectral resolution (0.18 km/s), wide band (-700 < v_LSR < +700 km/s) survey of the Galactic interstellar medium in the 21-cm line hyperfine transition of neutral hydrogen conducted at Arecibo Observatory. Typical noise levels are 80 mK RMS in an integrated 1 km/s channel. GALFA-HI is a dramatic step forward in high-resolution, large-area Galactic HI surveys, and we compare GALFA-HI to past, present, and future Galactic HI surveys. We describe in detail new techniques we have developed to reduce these data in the presence of fixed pattern noise, gain variation, and inconsistent beam shapes, and we show how we have largely mitigated these effects. We present our first full data release, covering 7520 square degrees of sky and representing 3046 hours of integration time, and discuss the details of these data.Comment: Accepted to the ApJ

High-Resolution Habitat and Bathymetry Maps for 65,000 sq. km of Earth’s Remotest Coral Reefs

With compelling evidence that half the world’s coral reefs have been lost over the last four decades, there is urgent motivation to understand where reefs are located and their health. Without such basic baseline information, it is challenging to mount a response to the reef crisis on the global scale at which it is occurring. To combat this lack of baseline data, the Khaled bin Sultan Living Oceans Foundation embarked on a 10-yr survey of a broad selection of Earth’s remotest reef sites—the Global Reef Expedition. This paper focuses on one output of this expedition, which is meter-resolution seafloor habitat and bathymetry maps developed from DigitalGlobe satellite imagery and calibrated by field observations. Distributed on an equatorial transect across 11 countries, these maps cover 65,000 sq. km of shallow-water reef-dominated habitat. The study represents an order of magnitude greater area than has been mapped previously at high resolution. We present a workflow demonstrating that DigitalGlobe imagery can be processed to useful products for reef conservation at regional to global scale. We further emphasize that the performance of our mapping workflow does not deteriorate with increasing size of the site mapped. Whereas our workflow can produce regional-scale benthic habitat maps for the morphologically diverse reefs of the Pacific and Indian oceans, as well as the more depauperate reefs of the Atlantic, accuracies are substantially higher for the former than the latter. It is our hope that the map products delivered to the community by the Living Oceans Foundation will be utilized for conservation and act to catalyze new initiatives to chart the status of coral reefs globally

Molecular profiling of melanoma brain metastases compared to primary cutaneous melanoma and to extracranial metastases.

BACKGROUND: Brain metastases are a significant cause of mortality and morbidity for patients with melanoma. We hypothesize that the development of brain metastases may be explained by molecular heterogeneity between primary cutaneous melanoma (PCM) or extracranial (ECM) and brain (MBM) melanoma metastases. MATERIALS AND METHODS: We compared next-generation sequencing, tumor mutational burden (TMB), and immunohistochemical staining for PD-L1 expression, among 132 MBM, 745 PCM, and 1190 ECM. RESULTS: The most common genetic alterations among MBM included: BRAF (52.4%), NRAS (26.6%), CDKN2A (23.3%), NF1 (18.9%), TP53 (18%), ARID2 (13.8%), SETD2 (11.9%), and PBRM1 (7.5%). Four genes were found with higher frequency among MBM compared to PCM or ECM: BRAF (52.4% v 40.4% v 40.9%), SETD2 (11.9% v 1.9% v 3.9%), PBRM1 (7.5% v 1.6% v 2.6%), and DICER1 (4.4% v 0.6% v 0.4%). MBM showed higher TMB ( CONCLUSIONS: Our findings suggest a unique molecular profile for MBM, including higher rates of BRAF mutations, higher TMB and higher PD-L1 expression, and also implicate chromatin remodeling in the pathogenesis of MBM

Torsional Sensor Applications in Two-Phase Fluids

A solid corrosion-resistant torsional waveguide of diamond cross section has been developed to sense on-line and in real-time the characteristics of the liquid in which it is submerged. The sensor can measure, among other things, the liquid content of a bubbly medium; the density of adjacent pure liquids; the equivalent density of liquid-vapor mixtures or particulate suspensions; a suspension\u27s concentration; and the liquid level. The sensor exploits the phenomenon that the speed of propagation of a torsional stress wave in a submerged waveguide with a noncircular cross section is inversely proportional to the equivalent density of the liquid in which the waveguide is submerged. The sensor may be used to conduct measurements along distances ranging from 20 mm to 20 m and over a wide range of temperatures and pressures, e.g., from the cryogenic temperature of liquid nitrogen, -196°C, up to hot pressurized water at 300°C and 7 MPa. A self-calibrating three-zone sensor and associated electronics have also been developed to compensate for any sensor inaccuracies due to operation over a wide range of temperature. In some of the water experiments at room temperature, unexpected attenuation of the guided torsional waves was observed. This excess attenuation depends in part on the waveguide\u27s surface finish. It appears to be caused by air microbubbles adhering to the waveguide, imposing one of the practical limits on the maximum sensor length in nondegassed or aerated water