Modeling of the pharyngeal muscle in Caenorhabditis elegans based on FitzHugh-Nagumo equations

The pharyngeal pumping motion to send food to the bowel is a rhythmic movement in Caenorhabditis elegans. This paper proposes a simulation-based approach to investigate the mechanisms of rhythm phenomena in the pharyngeal pumping motion. To conduct the simulations, first, we developed a pharyngeal muscle model including 29 cell models which simulate the activity of each cell as a membrane potential based on FitzHugh-Nagumo equations. Then, to compare the response of the model with that of C. elegans, we calculated the electropharyngeogram (EPG), which represents the electrophysiological responses of the pharyngeal cells, using the simulated membrane potentials. The results confirmed that our model could generate the EPG similar to that measured from C. elegans. We proposed a computer simulation of the pumping motion to investigate the mechanisms of rhythm phenomena in living organisms.     

The Crystal and Molecular Structure of Ethyl p-Chloro α-Cyano-β-Methyl-Cis-Cinnamate,C13H12No2Cl

Crystals of ethyl p-chloro α-cyano-β-methyl-cis-cinnamate, C₁₃H₁₂NO₂Cl, are orthorhombic, space group Pbcn, with eight molecules per unit cell, a = 17.31, b = 8.68 and c = 17.20 Å. The structure was solved by direct methods and refined subsequently by Fourier techniques. The benzene ring makes a dihedral angle of 60.0° with the ethylenic group. This suggests significant steric effects of the β-methyl group and of the carbonyl group on the orientation of the benzene ring. The conformation of the ethylene bond and the carbonyl group around the C_α? C bond is roughly cisoid and the angle of twist is 16.5°. Nearest-neighbour >C = C <groups make contact across a two-fold axis at a center-to-center distance of 4.33 Å.     

Structure of a novel phytoecdysteroid,vitexirone, and efficient isolation of phytoecdysteroids fromVitex fisherii

A novel phytoecdysteroid, vitexirone, has been isolated from a MeOH extract of the root bark of the East African medicinal plantVitex fisherii by recycling high-performance liquid chromatography on a semipreparative scale. In addition, three known phytoecdysteroids, 20-hydroxyecdysone, ajugasterone C, and turkesterone, also were isolated. The structure of vitexirone has been established spectroscopically. The position and stereochemistry of the 11--hydroxy group of ajugasterone C and vitexirone were confirmed by the¹H-¹H homonuclear COSY NMR data. These phytoecdysteroids disrupt the molting process of the pink bollwormPectinophora gossypiella.     

A comparative study of important risk factors involved in offshore and domestic outsourcing of software development projects: A two-panel Delphi study

We investigated the risk factors of outsourced software development. Our first objective was to create empirically generated lists of risk factors for both domestically- and offshore-outsourced projects. Our second objective was to compare these two contexts: how do the risk factors change and which ones are most important in each. To address these objectives, we conducted two Delphi surveys to identify the important risk factors from a client perspective, in domestic and offshore settings. We qualitatively compared the results of the surveys to identify similarities and differences across their risk profiles. We identified three types of risks: those that appeared in both contexts; those that appeared in both but were exacerbated in the offshore context; and those that were unique to the offshore context. Our findings suggested that traditional project management risks were important in both contexts; however, the offshore context seemed to be more vulnerable to some traditional risks as well as factors that were unique to it.     

Theoretical and evolutionary parameter tuning of neural oscillators with a double-chain structure for generating rhythmic signals

A neural oscillator with a double-chain structure is one of the central pattern generator models used to simulate and understand rhythmic movements in living organisms. However, it is difficult to reproduce desired rhythmic signals by tuning an enormous number of parameters of neural oscillators. In this study, we propose an automatic tuning method consisting of two parts. The first involves tuning rules for both the time constants and the amplitude of the oscillatory outputs based on theoretical analyses of the relationship between parameters and outputs of the neural oscillators. The second involves an evolutionary tuning method with a two-step genetic algorithm (GA), consisting of a global GA and a local GA, for tuning parameters such as neural connection weights that have no exact tuning rule. Using numerical experiments, we confirmed that the proposed tuning method could successfully tune all parameters and generate sinusoidal waves. The tuning performance of the proposed method was less affected by factors such as the number of excitatory oscillators or the desired outputs. Furthermore, the proposed method was applied to the parameter-tuning problem of some types of artificial and biological wave reproduction and yielded optimal parameter values that generated complex rhythmic signals in Caenorhabditis elegans without trial and error.     

A longest common subsequence algorithm suitable for similar text strings

Summary Efficient algorithms for computing the longest common subsequence (LCS for short) are discussed. O(pn) algorithm and O(p(m-p) log n) algorithm [Hirschberg 1977] seem to be best among previously known algorithms, where p is the length of an LCS and m and n are the lengths of given two strings (mn). There are many applications where the expected length of an LCS is close to m.In this paper, O(n(m-p)) algorithm is presented. When p is close to m (in other words, two given strings are similar), the algorithm presented here runs much faster than previously known algorithms.     

Bench-scale and field-scale evaluation of catechol 2,3-dioxygenase specific primers for monitoring BTX bioremediation

The objective of this work was to test a molecular genetic method for in situ monitoring of aerobic benzene, toluene, and xylene (BTX) biodegrading microorganisms. Catechol 2,3-dioxygenase (C23DO) genes occur in bacteria that biodegrade benzene, toluene, xylenes, phenol, biphenyl, and naphthalene. A competitive quantitative polymerase chain reaction (QC-PCR) technique using a single set of primers specific for an entire subfamily of C23DO genes was recently developed. To determine whether bacteria containing these C23DO genes actually exist in environments contaminated by BTX, aerobic microcosms containing previously uncontaminated soil were amended with different aromatic hydrocarbons and DNA extracts were analyzed by QC-PCR for C23DO genes. Anaerobic microcosms were established to confirm that oxygen was also necessary for the enrichment of C23DO genes. Field testing was done at two sites undergoing monitored natural attenuation. In microcosm experiments naphthalene, m-xylene, and p-xylene strongly enriched for C23DO genes while benzene, toluene, and o-xylene produced only transient, weakly detectable genes. In the field study, C23DO genes were detected in groundwater samples contaminated with either xylenes or naphthalene. The results of this study demonstrated that molecular genetic techniques can provide an accurate and rapid method to detect microorganisms capable of aromatic hydrocarbon biodegradation. Such a technique would be useful for monitoring the effectiveness of aeration technologies and for documenting microbial processes for monitored natural attenuation.     

Electron microscopic observation of 137Cs-irradiated rat testis: production of basal laminae for germ cells, despite their absence

Whole body gamma-ray irradiation of rats with caesium-137 (137Cs) at embryonic day 20 induced marked reduction of the weight of the testis. Body weight and other tissues, however, seemed to remain normal. By light microscopy, complete loss of germ cells was observed in the testis. Other components, such as Sertoli cells and interstitial cells, seemed to be normal. The testes from day 8 postpartum rats contained very few spermatogonia compared with newborn rats, indicating loss of germ cells between days 0 and 8. In the adult, 137Cs-irradiated testes showed two conspicuous features other than the loss of germ cells: empty vacuolar spaces between Sertoli cells and multilayered seminiferous tubule basal laminae (lamina densa). The junctional structures (ectoplasmic specializations) between Sertoli cells, however, seemed normal. The thickness of each layer of multilayered basal laminae was the same as that of normal rats and electron-lucent layers similar to lamina lucida were interposed between them. Of the empty vacuolar spaces between Sertoli cells, basal laminae bridge the gap. The basal laminae contained laminin, type IV collagen and heparan sulphate proteoglycan evenly distributed among layers, suggesting a normal composition. Rough estimation of the amount of basal laminae deposited in 137Cs-irradiated rats indicates that it is within a range similar to that in normal testis. These features imply that Sertoli cells are, in part, determined perinatally to produce basal laminae for germ-line cells.