Prenatal interphase FISH diagnosis of PLP1 duplication associated with Pelizaeus–Merzbacher disease

A submicroscopic genomic duplication in Xq22.2 that contains the entire proteolipid protein 1 gene (PLP1) is responsible for the majority of Pelizaeus–Merzbacher disease (PMD) patients. We previously developed an interphase FISH assay to screen for PLP1 duplications in PMD patients using peripheral blood and lymphoblastoid cell lines. This assay has been utilized as a clinical diagnostic test in our cytogenetics laboratory. To expand usage of the interphase FISH assay to prenatal diagnosis of PLP1 duplications, we examined three PMD families with PLP1 duplications utilizing aminiotic fluid samples. In two families the FISH assay revealed fetuses with PLP1 duplications, whereas the other fetus showed a normal copy number of PLP1. Haplotype analyses, as well as an additional FISH analysis using postnatal blood samples, confirmed the results of the prenatal analyses. Our study demonstrates utility of the interphase FISH assay in the prenatal diagnosis of PLP1 duplications in PMD. Copyright © 2001 John Wiley & Sons, Ltd.     

Discovery of mycangia and the associated xylose-fermenting yeasts in stag beetles (Coleoptera: Lucanidae)

Most wood-feeding insects need an association with microbes to utilize wood as food, and some have special organs to store and convey the microbes. We report here the discovery of the microbe-storage organ (mycangium) in stag beetles (Coleoptera: Lucanidae), which develop in decayed wood. The mycangium, which was discovered in the abdomen, is present in all adult females of 22 lucanid species examined in this study, but absent in adult males. By contrast, adult insects of both sexes of selected Passalidae, Geotrupidae, and Scarabaeidae, which are related to Lucanidae, lacked mycangia similar to those of the lucanid species. Yeast-like microbes were isolated from the mycangium of five lucanid species. DNA sequence analyses indicate that the microbes are closely related to the xylose-fermenting yeasts Pichia stipitis, Pichia segobiensis, or Pichia sp. known from the gut of a passalid species.     

Relationship between the growth and survival of larval Pacific bluefin tuna, Thunnus orientalis

We tested the hypothesis that a large body size and rapid growth rate affect the survival of larval Pacific bluefin tuna, Thunnus orientalis (PBT), and analyzed larval growth in relation to environmental conditions. Seven high density larval patches of PBT were tracked with reference buoys in the northwestern Pacific Ocean for 28–171 h in May–June from 2004 to 2008. The otolith radii and daily growth rates of the survivor larvae (collected on later tracking days of each tracking session) tended to be larger and more rapid, respectively, than those of original larvae (collected on earlier tracking days). A large body size was found to positively affect the survival of larval PBT, as did a rapid growth rate, even at an early larval stage (7 days after hatching). Generalized linear modeling showed that the otolith radius was influenced positively by the sea temperature, stratification parameter and food density, while the growth rate was influenced positively by the sea temperature and food density.     

Individual differences in nest defense in the colonial breeding Black-tailed Gulls

Often in colonial seabirds, all colony members are believed to defend against nest predators and experience equal nest predation risk. However, the variation of defense behavior among members and its reproductive consequences are largely unknown. We investigated (1) individual variation in the nest defense of breeding Black-tailed Gulls Larus crassirostris against a natural egg predator, the Jungle Crow Corvus macrorhynchos and (2) how this behavioral variation affects an individual’s own nest predation risk and that of their neighbors. Results were compared between 2 years where crow attack levels were manipulated to average 5 and 22 times normal rates (“low” and “high” predation risk years, respectively) by the placement of varying numbers of artificial nests containing unguarded eggs at the perimeter of the gull colony. In both years, 23–38% of parents, mostly males, showed “aggressive” defense behavior (strikes or chases) against crows and decoys. Other “non-aggressive” gulls showed no defense. In the year of low predation risk, intrusion rates by crows (landing within 0.5 m of an individual gull’s nest) were similar for aggressive and non-aggressive gulls. In the year of high predation risk, however, the rates of intrusion for aggressive gulls (4%) and for non-aggressive gulls with an aggressive neighbor (37%) were significantly lower than for non-aggressive gulls without an aggressive neighbor (76%). These results indicate that aggressive individuals reduce nest predation risk for themselves and conspecific neighbors in a colonially breeding species.     

Evaluation of current material stock and future demolition waste for urban residential buildings in Jakarta and Bandung,Indonesia: embodied energy and CO<Subscript>2</Subscript> emission analysis

First, this paper evaluates the current building material stock and future demolition waste for urban residential buildings in the cities of Jakarta and Bandung using a material-flow analysis. The actual on-site building measurements were conducted in Jakarta (2012) and Bandung (2011), focusing particularly on unplanned houses, to obtain building material inventory data. A total of 297 houses were investigated in Jakarta, whereas 247 houses were measured in Bandung. Second, this paper analyses the embodied energy and CO₂ emissions of building materials through an input–output analysis. The results show that, overall, the total material input intensity for the houses is 2.67 ton/m² in Jakarta and 2.54 ton/m² in Bandung. Two scenarios with zero and maximum reuse/recycling rates were designed to predict future demolition waste and the embodied energy/CO₂ emissions of building materials in Jakarta. Closed- and open-loop material flows were applied. If the maximum reuse/recycling rates are applied to the closed- and open-loop material flows in Jakarta, then it would become possible to not only decrease the final disposal waste (from 123.9 to 2.1 million ton) but also reduce the corresponding embodied energy (from 247.8 to 192.1 PJ) and CO₂ emissions (from 24.3 to 19.2 million ton CO₂-eq) compared with the zero reuse/recycling scenario from 2012 to 2020.     

A study on the self-assembly behavior of dark materials from molasses

We have previously demonstrated that dark materials (DM) in acidified molasses are effectively adsorbed to Amberlite XAD7HP resin and are eluted from the resin with 0.1 M sodium hydroxide. In this paper, we have characterized the self-assembly behavior of molasses DM by using dynamic and static light scattering in combination with isoelectric focusing and infrared absorption spectroscopy in order to better understand the resin adsorption mechanism. One of DM derivatives, X-G2, contained carboxyl and hydroxyl groups and had a weight-average molar mass of 9.39?×?10³ to 4.42?×?10⁴ at pH 2.1–11.5. The aggregates retained their spherical shape over the full pH range and the large gyration radius (66.4–80.0 nm) indicated that the inner structure was loosely packed. Furthermore, X-G2 had an isoelectric point of 1.8, and its density increased sharply at pH 5.9 and then approached a nearly constant value under alkaline conditions. In summary, the self-assembly processes of DM are controlled by intermolecular hydrogen-bonding and hydrophobic interactions. The aggregates adsorb to the resin through hydrophobic interactions and are eluted when excess carboxylate anions are generated.     

Evaluation of groundwater dynamic regime with groundwater depth evaluation indexes

An accurate quantitative evaluation of anthropogenic effects on regional groundwater dynamics is critical to the rational planning, management, and use of such resources and in maintaining the sustainability of groundwater-dependent ecosystems. Based on groundwater dynamics, a series of groundwater depth evaluation indexes were created to quantitatively evaluate the effects of anthropogenic activities on the groundwater system. These indexes were based on mathematical relationships relating groundwater depth to surface runoff (gammat), precipitation (rhot), and extraction (deltat). The anthropogenic effects on these relationships were evaluated statistically, with respect to both temporal and spatial variation. The anthropogenic effects on groundwater dynamics within the arid Zhangye Basin, located in the middle reaches of northwest China's Heihe River, were investigated. River valley plains in the western portion of the basin excepted, anthropogenic activities have, since 1995, dramatically altered the basin's groundwater dynamics; in particular, in the mid-upper and lower portions of alluvial-diluvial fans and in localized northerly fine-soil plains regions, the relationship of groundwater to surface runoff and atmospheric precipitation has shifted. This and other changes indicate that anthropogenic effects on groundwater systems in this region show clear spatiotemporal variation.     

Three-dimensional diffusion of non-sorbing species in porous sandstone: computer simulation based on X-ray microtomography using synchrotron radiation

The diffusion pathways of porous sandstone were examined by a three-dimensional (3-D) imaging technique based on X-ray computed tomography (CT) using the SPring-8 (Super Photon ring-8 GeV, Hyogo, Japan) synchrotron radiation facility. The analysis was undertaken to develop better understanding of the diffusion pathways in natural rock as a key factor in clarifying the detailed mechanism of the diffusion of radionuclides and water molecules through the pore spaces of natural barriers in underground nuclear waste disposal facilities. A cylindrical sample (diameter 4 mm, length 6 mm) of sandstone (porosity 0.14) was imaged to obtain a 3-D image set of 450(3) voxels=2.62(3) mm(3). Through cluster-labeling analysis of the 3-D image set, it was revealed that 89% of the pore space forms a single large pore-cluster responsible for macroscopic diffusive transport, while only 11% of the pore space is made up of isolated pores that are not involved in long-range diffusive transport. Computer simulations of the 3-D diffusion of non-sorbing random walkers in the largest pore cluster were performed to calculate the surface-to-volume ratio of the pore, tortuosity (diffusion coefficient in free space divided by that in porous rock). The results showed that (i) the simulated surface-to-volume ratio is about 60% of the results obtained by conventional pulsed-field-gradient proton nuclear magnetic resonance (NMR) laboratory experiments and (ii) the simulated tortuosity is five to seven times larger than the results of laboratory diffusion experiments using non-sorbing I(-) and Br(-). These discrepancies are probably attributed to the intrinsic sample heterogeneity and limited spatial resolution of the CT system. The permeability was also estimated based on the NMR diffusometry theory using the results of the random walk simulations via the Kozeny-Carman equation. The estimated permeability involved an error of about 20% compared with the permeability measured by the conventional method, suggesting that the diffusometry-based NMR well logging with gradient coils is applicable to the in-situ permeability measurement of strata. The present study demonstrated that X-ray CT using synchrotron radiation is a powerful tool for obtaining 3-D pore structure images without the beam-hardening artifacts inevitable in conventional CT using X-ray tubes.     

Elementary budget of stag beetle larvae associated with selective utilization of nitrogen in decaying wood

Wood degradation by insects plays important roles for the forest matter cycling. Since wood is deficient in nitrogen compared to the insect body, wood-feeding insects need to assimilate the nitrogen selectively and discard an excess carbon. Such a stoichiometric imbalance between food and body will cause high metabolic cost; therefore, wood-feeding insects may somehow alleviate the stoichiometric imbalance. Here, we investigated the carbon and nitrogen budgets of the larvae of stag beetle, Dorcus rectus, which feed on decaying wood. Assimilation efficiency of ingested wood was 22%, and those values based on the carbon and nitrogen were 27 and 45%, respectively, suggesting the selective digestion of nitrogen in wood. Element-based gross growth efficiency was much higher for nitrogen (45%) than for carbon (3%). As a result, the larvae released 24% of the ingested carbon as volatile, whereas almost no gaseous exchange was observed for nitrogen. Moreover, solubility-based elementary analysis revealed that the larvae mainly utilized alkaline-soluble-water-insoluble fraction of wood, which is rich in nitrogen. Actually, the midgut of the larvae was highly alkaline (pH 10.3). Stag beetle larvae are known to exhibit coprophagy, and here we also confirmed that alkaline-soluble-water-insoluble nitrogen increased again from fresh feces to old feces in the field. Stable isotope analysis suggested the utilization of aerial nitrogen by larvae; however, its actual contribution is still disputable. Those results suggest that D. rectus larvae selectively utilize alkaline-soluble nitrogenous substrates by using their highly alkaline midgut, and perhaps associate with microbes that enhance the nitrogen recycling in feces.