Virus Particle Detection by Convolutional Neural Network in Transmission Electron Microscopy Images

A new computational method for the detection of virus particles in transmission electron microscopy (TEM) images is presented. Our approach is to use a convolutional neural network that transforms a TEM image to a probabilistic map that indicates where virus particles exist in the image. Our proposed approach automatically and simultaneously learns both discriminative features and classifier for virus particle detection by machine learning, in contrast to existing methods that are based on handcrafted features that yield many false positives and require several postprocessing steps. The detection performance of the proposed method was assessed against a dataset of TEM images containing feline calicivirus particles and compared with several existing detection methods, and the state-of-the-art performance of the developed method for detecting virus was demonstrated. Since our method is based on supervised learning that requires both the input images and their corresponding annotations, it is basically used for detection of already-known viruses. However, the method is highly flexible, and the convolutional networks can adapt themselves to any virus particles by learning automatically from an annotated dataset.     

Thermodynamic and kinetic studies on Cs+- and Sr2+-exchange in natural zeolite from Akita,Japan

Thermodynamic and kinetic studies on the adsorption of Cs⁺ and Sr²⁺ by Na-exchanged clinoptilolite-rich zeolite rock from Akita (Northern Japan) were performed for the purpose of nuclear waste treatment. The thermodynamic parameters such as selectivity coefficient, thermodynamic equilibrium constant, and standard free energy of exchange were evaluated. These values indicated that the selectivity order was determined as Cs⁺ > Na⁺ > Sr²⁺. In order to discuss the adsorption mechanism of Cs⁺ and Sr²⁺ onto Na-exchanged clinoptilolite, the effective diffusion coefficients were calculated and two kinetic models, pseudo-first-order and pseudo-second-order kinetic model, were tested. For all systems studied, chemisorption seems significant in the rate-controlling step, and the pseudo-second-order kinetic model provided the best correlation of the experimental data.     

Metabolism of neolignans from P. regnellii (Piperaceae) in the beetle Naupactus bipes (Coleoptera: Curculionidae)

Piper regnellii (Piperaceae) contains high levels neolignans with diverse biological activities, including insecticidal. Despite the insecticidal activity of these neolignans, Naupactus bipes (Coleoptera: Curculionidae) larvae and adults were found feeding on the leaves (adults) and roots (larvae) of P. regnellii. The present study investigated the metabolic pathway of neolignans from P. regnellii leaves in the beetle N. bipes, focusing on possible biotransformation or sequestration of these compounds by the beetle. Two of the four plant neolignans could be recovered in the feces of adults feeding on P. regnellii leaves. In addition, four degradation products were detected, including the neolignan 3-[(2R,3R)-2,3-dihydro-3-(methyl)-2-(4-hydroxyphenyl)-5-benzofuranyl]-(2E)-propenal (7), an oxidation product of conocarpan, the major plant neolignan. The adult beetle sequesters the neolignan conocarpan selectively from leaves as well as accumulates neolignan 7. Neolignan 7 was also detected in the larvae of lab-reared beetles.     

Waste generation in traditional organized bazaars: a case study of organic waste sources in Da Nang City,Viet Nam

Journal of Material Cycles and Waste Management - Traditional organized bazaars are important retail venues in Viet Nam, but there are concerns about their waste management programs. This study...     

Surface ozone and carbon monoxide levels observed at Oki, Japan: regional air pollution trends in East Asia

Simultaneous ground-based measurements of ozone and carbon monoxide were performed at Oki, Japan, from January 2001 to September 2002 in order to investigate the O(3) and CO characteristics and their distributions. The observations revealed that O(3) and CO concentrations were maximum in springtime and minimum in the summer. The monthly averaged concentrations of O(3) and CO were 60 and 234 ppb in spring and 23 and 106 ppb in summer, respectively. Based on direction, 5-day isentropic backward trajectory analysis was carried out to determine the transport path of air masses, preceding their arrival at Oki. Comparison between classified results from present work and results from the year 1994-1996 was carried out. The O(3) and CO concentration results of classified air masses in our analysis show similar concentration trends to previous findings; highest in the WNW/W, lowest in N/NE and medium levels in NW. Moreover, O(3) levels are higher and CO levels are lower in the present study in all categories.     

Lip-reading in remote subjects: an attempt to quantify and separate ingestion, breathing and vocalisation in free-living animals using penguins as a model

A new mandibular sensor is presented here based on the use of a Hall sensor, attached to one mandible, opposite a magnet, attached to the other mandible. Changes in sensor voltage, proportional to magnetic field strength, and thus inter-mandibular angle, are recorded in a logger. This system was tested on seven captive Adélie penguins (Pygoscelis adeliae) and three gentoo penguins (Pygoscelis papua) during: (1) feeding trials on land, where birds were given known quantities and types of food; and (2) trials in water where birds were allowed to swim and dive freely. In addition, six free-living Magellanic penguins (Spheniscus magellanicus) were equipped with the system for single foraging trips. Angular signatures were looked for in instances when both captive and free-living birds might open their beaks, and it was discovered that five major behaviours could be identified: ingestion, breathing, calling, head shaking and preening. Captive feeding trials showed that prey mass could be determined with reasonable accuracy (r²=0.92), and there was some indication that prey type could be resolved if recording frequency were high enough. Vocalisations in Adélie penguins (arc calls) took <0.7 s for mean maximum beak angles of 4.2° (SD 1.3), and were distinguished by their relatively gradual change in beak angle and by their high degree of symmetry. Beak shakings were distinguishable by their short duration (multiple peaks of <0.5 s) and minimal maximum angle (<0.5°). Preening behaviour was apparent due to multiple decreasing peaks (angles <8°). Breathing could be subdivided into that during porpoising, where a characteristic double peak in beak angle was recorded, and that during normal surface rests between dives. During porpoising, only the primary peak (mean maximum beak angle 25.1°, SD 4.7) occurred when the bird was out of the water (mean maximum for second peak 5.9°, SD 4.1). During normal surface rests in free-living birds, breaths could be distinguished as a series of beak openings and closures, showing variation in amplitude and frequency according to an apparent recovery from the previous dive and preparation for the subsequent dive to come. The mandibular measuring system presented shows considerable promise for elucidating many hitherto intractable aspects of the behaviour of free-living animals.     

Development of enzyme immunoassay for detection of DDT

Dichlorodiphenyltrichloroethane (DDT) is one of the persistent organic pollutants (POPs) widely found in the environment and in the general population. In this study, a direct competitive enzyme immunoassay (EIA) has been developed for the quantitative analysis of DDT. To generate a specific polyclonal antibody for EIA, p, p′-DDT was conjugated to porcine thyroglobulin for rabbit immunization. At optimized EIA conditions, the standard curves ranged from 0.137 to 100 ng/mL with the quantification limit of 0.41 ng/mL. The coefficients of variation (CV%) were 5.42–10.53% for intra-assay and 6.04–7.26% for inter-assay. Cross-reactivities with DDT metabolites (DDTs, including o, p′-DDT, p, p′-DDD, o, p′-DDD, p, p′-DDE, o, p′-DDE, p, p′-dichlorobenzophenone (DCBP), o, p′-DCBP) were investigated. The polyclonal antibody showed relatively low and/or no cross-reactivity with these compounds, and the assay was seen to be highly selective for p, p′-DDT. Moreover, the DDTs could be ranked by their reactivity: DDT > DDD > DDE > DCBP. In addition, the characterization of the polyclonal antibody indicated that the antiserum possesses a high specificity for p, p′-isomers. The results indicated that the developed EIA using this antibody could be a convenient and supplemental analytical tool for monitoring DDT.