Differential effect of IL-4 and IL-13 on the expression of recombination-activating genes in mature B cells from human peripheral blood

We examined the expression of recombination-activating genes (RAG-1 and RAG-2) and activation-induced cytidine deaminase (AID) by mature human blood B cells stimulated with anti-CD40 in the presence of IL-4 or IL-13. IL-4 was an effective cofactor for RAG-1 and RAG-2 expression, whereas IL-13 was not. In addition, IL-4-dependent RAG expression combined with AID and IgE expression allowed predominant expression of newly rearranged lambda light chains on IgE+ cells generated from kappa+ cells. Although the magnitudes of IL-4- and IL-13-dependent AID and IgE expression were related to expression levels of binding subunits of the IL-4 and IL-13 receptors, IL-13 was ineffective for light chain replacement in the induced IgE+ cells due to the failure in RAG expression. Our studies using mature blood B cells indicate that IL-4-responsive cells, unlike IL-13-responsive cells, undergo lambda gene rearrangement leading to replacement in parallel with RAG expression and suggest that this replacement may contribute to the regulation of affinity maturation of IgE antibodies.     

How to analyze long-term insect population dynamics under climate change: 50-year data of three insect pests in paddy fields

We can precisely predict the future dynamics of populations only if we know the underlying mechanism of population dynamics. Long-term data are important for the elucidation of such mechanisms. In this article we analyze the 50-year dynamics of annual light-trap catches of three insect pest species living in paddy fields in Japan: the rice stem borer, Chilo suppressalis (Walker) (Lepidoptera: Pyralidae); the green rice leafhopper, Nephotettix cincticeps (Uhler) (Hemiptera: Deltocephalidae); and the small brown planthopper, Laodelphax striatellus (Fallén) (Hemiptera: Delphacidae). We separate the long-term dynamics into two components by using locally weighted scatterplot smoothing: (1) the underlying dynamics of populations, and (2) the influence of the past changes in the environment. The former component is analyzed by response surface analysis and vector autoregression to evaluate the nonlinearity of density-dependence and the inter-specific influence of density, respectively. On the basis of these analyses, we perform the state-space model analyses. The state-space model selected by Akaikes information criterion indicates that the observed number of light-trap catches of C. suppressalis and N. cincticeps in summer increases with increasing temperatures in the previous winter. It also indicates that the influence of temperature is not carried over to the next year. We utilize the selected model to predict the impact of global warming on these species, by substituting the temperature predicted by a general circulation model.     

Task-dependent spatial distribution of neural activation pattern in human rectus femoris muscle

Compartmentalization of skeletal muscle by multiple motor nerve branches, named as neuromuscular compartment (NMC), has been demonstrated in animals as well as humans. While different functional roles among individual NMCs were reported in the animal studies, no studies have clarified the region-specific functional role within a muscle related with NMCs arrangement in human skeletal muscle. It was reported that the rectus femoris (RF) muscle is innervated by two nerve branches attached at proximal and distal parts of the muscle. The purpose of the present study is to clarify the possible region-specific functional role in the human RF muscle. Multi-channel surface electromyography (SEMG) were recorded from the RF muscle by using 128 electrodes during two different submaximal isometric contractions that the muscle contributes, i.e. isometric knee extension and hip flexion, at 20%, 40%, 60% and 80% of maximal voluntary contraction (MVC). Results indicated that the central locus activation for the amplitude map of SEMG during hip flexion located at more proximal region compared with that during knee extension. Significant higher normalized root mean square (RMS) values were observed at the proximal region during the hip flexion in comparison to those at middle and distal regions at 60% and 80% of MVC (p<0.05). In while, significant higher normalized RMS values were demonstrated at the distal region comparing with that at the proximal region at 80% of MVC (p<0.05). The results of the present study suggest possible region-specific functional role in the human RF muscle.     

Analysis of peptide uptake and location of root hair‐promoting peptide accumulation in plant roots

Peptide uptake by plant roots from degraded soybean‐meal products was analyzed in Brassica rapa and Solanum lycopersicum. B. rapa absorbed about 40% of the initial water volume, whereas peptide concentration was decreased by 75% after 24 h. Analysis by reversed‐phase HPLC showed that number of peptides was absorbed by the roots during soaking in degraded soybean‐meal products for 24 h. Carboxyfluorescein‐labeled root hair‐promoting peptide was synthesized, and its localization, movement, and accumulation in roots were investigated. The peptide appeared to be absorbed by root hairs and then moved to trichoblasts. Furthermore, the peptide was moved from trichoblasts to atrichoblasts after 24 h. The peptide was accumulated in epidermal cells, suggesting that the peptide may have a function in both trichoblasts and atrichoblasts. Copyright © 2012 European Peptide Society and John Wiley & Sons, Ltd.     

Distinct activation patterns of EGF receptor signaling in the homoplastic evolution of eggshell morphology in genus Drosophila

Homoplasy is a phenomenon in which organisms in different phylogenetic groups independently acquire similar traits. However, it is largely unknown how developmental mechanisms are altered to give rise to homoplasy. In the genus Drosophila, all species of the subgenus Sophophora, including Drosophila (D.) melanogaster, have eggshells with two dorsal appendages (DAs); most species in the subgenus Drosophila, including D. virilis, and in the subgenus Dorsilopha, have four-DAs. D. melanica belongs to the Drosophila subgenus, but has two-DAs, and phylogenetic analyses suggest that it acquired this characteristic independently. The patterning of the DAs is tightly regulated by epidermal growth factor receptor (EGFR) signaling in D. melanogaster. Previous studies suggested that a change in the EGFR signal activation pattern could have led to the divergence in DA number between D. melanogaster and D. virilis. Here, we compared the patterns of EGFR signal activation across the Drosophila subgenera by immunostaining for anti-activated MAP kinase (MAPK). Our analysis revealed distinct patterns of EGFR signal activation in each subgenus that was consistent with their phylogenetic relationship. In addition, the number of DAs always corresponded to the number of EGFR signaling activation domains in two, three, and four-DA species. Despite their common two-DA characteristic, the EGFR signaling activation pattern in D. melanica diverged significantly from that of species in the subgenus Sophophora. Our results suggest that acquisition of the homoplastic two-DA characteristic could be explained by modifications of the EGFR signaling system in the genus Drosophila that occurred independently and at least twice during evolution.     

The simple and rapid detection of specific PCR products from bacterial genomes using Zn finger proteins

A novel method of rapid and specific detection of polymerase chain reaction (PCR) products from bacterial genomes using Zn finger proteins was developed. Zn finger proteins are DNA-binding proteins that can sequence specifically recognize PCR products. Since Zn finger proteins can directly detect PCR products without undergoing dehybridization, unlike probe DNA, and can double check the specific PCR amplification and sequence specificity of the PCR products, this novel method would be quick and highly accurate. In this study, we tried to detect Legionella pneumophila using Sp1. It was found that a 49 bp L. pneumophila-specific region containing the Sp1 recognition site is located on the flhA gene of the L. pneumophila genome. We succeeded in specifically detecting PCR products amplified from L. pneumophila in the presence of other bacterial genomes by ELISA, and demonstrated that Sp1 enables the discrimination of L. pneumophila-specific PCR products from others. By fluorescence depolarization measurement, these specific PCR products could be detected within 1 min. These results indicate that the rapid and simple detection of PCR products specific to L. pneumophila using a Zn finger protein was achieved. This methodology can be applied to the detection of other bacteria using various Zn finger proteins that have already been reported.     

Biotransformation of (+)-catechin into taxifolin by a two-step oxidation: primary stage of (+)-catechin metabolism by a novel (+)-catechin-degrading bacteria, Burkholderia sp. KTC-1, isolated from tropical peat

Peat contains various persistent compounds derived from plant materials. We isolated a novel (+)-catechin-degrading bacterium, Burkholderia sp. KTC-1 (KTC-1), as an example of a bacterium capable of degrading persistent aromatic compounds present in tropical peat. This bacterium was isolated by an enrichment technique and grew on (+)-catechin as the sole carbon source under acidic conditions. The reaction of a crude enzyme extract and a structural study of its products showed that (+)-catechin is biotransformed into taxifolin during the preliminary stages of its metabolism by KTC-1. HPLC analysis showed that this transformation occurs in two oxidation steps: 4-hydroxylation and dehydrogenation. Furthermore, both (+)-catechin 4-hydroxylanase and leucocyanidin 4-dehydrogenase were localized in the cytosol of KTC-1. This is the first report on biotransformation of (+)-catechin into taxifolin via leucocyanidin by an aerobic bacterium. We suggest that tropical peat could become a unique resource for microorganisms that degrade natural aromatic compounds.     

Dynamic mechanism of the self-assembly process of tobacco mosaic virus protein studied by rapid temperature-jump small-angle X-ray scattering using synchrotron radiation

The self-assembly process of tobacco mosaic virus protein (TMVP) was observed by rapid temperature-jump time-resolved solution X-ray small-angle scattering using synchrotron radiation. The temperature-jump device used for the X-ray measurements is rapid enough to cope with even the fastest-assembling process of TMVP, and accumulates data of reasonable signal-to-noise ratios with a minimum total counting time of 7.5 seconds. The measurements suggested that the 20 S disk of TMVP polymerized to stacked disks (short rods). The time to complete stacking varied from approximately 25 seconds to approximately 1200 seconds, depending on the solution condition and magnitude of the temperature gap. Higher protein concentration, ionic strength and temperature favoured faster association. The results were analysed in terms of a set of kinetic equations that describe the two-stage aggregation of TMVP with an equilibrium constant K1, and two rate constants k+2 and k-2 for association and dissociation of disks, respectively. The consistency of the analysis suggests that the TMVP assembly proceeds in two steps of: (1) the aggregation of A-proteins into double-layered disks; and (2) the stacking of double-layered disks. The kinetic analysis indicated that the stacking belongs to the lowest range of protein-protein interaction system.     

Scale dependency of two endangered charismatic species as biodiversity surrogates

Charismatic megafauna have been used as icons and financial drivers of conservation efforts worldwide given that they are useful surrogates for biodiversity in general. However, tests of this premise have been constrained by data limitations, especially at large scales. Here we overcome this problem by combining large-scale citizen-sourced data with intensive expert observations of two endangered charismatic species, Blakiston’s fish owl (forest specialist) and the red-crowned crane (wetland specialist). We constructed large-scale maps of species richness for 52 forest and 23 grassland/wetland bird species using hierarchical community modeling and citizen-sourced data at 1, 2, 5, and 10-km grid resolutions. We compared the species richness of forest and grassland/wetland birds between the breeding and non-breeding sites of the two charismatic birds at each of the four spatial resolutions, and then assessed the scale dependency of the biodiversity surrogates. Regardless of the habitat amounts, owl and crane breeding sites had higher forest and grassland/wetland bird species richness, respectively. However, this surrogacy was more effective at finer scales (1–2-km resolutions), which corresponds to the charismatic species’ home range sizes (up to 9.4 ± 2.0 km² for fish owls, and 3–4 km² for cranes). Species richness showed the highest spatial variations at 1–2-km resolutions. We suggest that the agreement of functional scales between surrogate species and broader biodiversity is essential for successful surrogacy, and that habitat conservation and restoration targeting multiple charismatic species with different specialties can complement to biodiversity conservation.