DNA-unstable decaploid mouse H1 (ES) cells established from DNA-stable pentaploid H1 (ES) cells polyploidized using demecolcine

Objectives: DNA content of diploid H1 (ES) cells (2H1 cells) has been shown to be stable in long‐term culture; however, tetraploid and octaploid H1 (ES) cells (4H1 and 8H1 cells, respectively) were DNA‐unstable. Pentaploid H1 (ES) cells (5H1 cells) established recently have been found to be DNA‐stable; how, then is cell DNA stability determined? To discuss ploidy stability, decaploid H1 (ES) cells (10H1 cells) were established from 5H1 cells and examined for DNA stability. Materials and methods: 5H1 cells were polyploidized using demecolcine (DC) and 10H1 cells were obtained by one‐cell cloning. Results: Number of chromosomes of 10H1 cells was 180 and durations of their G₁, S, and G₂/M phases were 3, 7 and 6 h respectively. Volume of 10H1 cells was double that of 5H1 cells and morphology of 10H1 cells was flagstone‐like in shape. 10H1 cells exhibited alkaline phosphatase activity and their DNA content decayed in 91 days of culture. 10H1 cells injected into mouse abdomen formed solid tumours that contained several kinds of differentiated cells with lower DNA content, suggesting that 10H1 cells were pluripotent and DNA‐unstable. Loss of DNA stability was explained using a hypothesis concerning DNA structure of polyploid cells as DNA reconstructed through ploidy doubling was arranged in mirror symmetry in a new configuration. Conclusion: In the pentaploid–decaploid transition of H1 cells, cell cycle parameters and pluripotency were retained, but morphology and DNA stability were altered.     

A novel xylanase,XynA4-2, from thermoacidophilic <Emphasis Type="Italic">Alicyclobacillus</Emphasis> sp. A4 with potential applications in the brewing industry

A xylanase gene, xynA4-2, was obtained from the genome sequence of thermoacidophilic Alicyclobacillus sp. A4 and expressed in Escherichia coli BL21 (DE3). xynA4-2 encodes a mature protein of 411 residues with a calculated molecular weight of 46.8 kDa. Based on the amino acid sequence similarities (highest identity of 61%), the enzyme was confined into glycoside hydrolase family 10. The purified recombinant XynA4-2 exhibited maximum activity at pH 6.2 and 55°C. The enzyme was stable over a broad pH range, retaining more than 90% of the original activity at pH 5.8–12.0, 37°C for 1 h. The substrate specificity of XynA4-2 was relatively narrow, exhibiting 100, 93, and 35% of the relative activity towards birchwood xylan, oat spelt xylan, and wheat arabinoxylan, respectively. Supplementation of XynA4-2 to mash caused the reduction of mash filtration rate (5.6%) and viscosity (4.0%). When combined with the commercial glucanase from Sunson, higher reduction was detected in the filtration rate (12.0%) and viscosity (17.2%). These favorable properties make XynA4-2 a good candidate in the brewing industry.     

Kinetics of the pyrolytic and hydrothermal decomposition of water hyacinth

The kinetics of water hyacinth decomposition using pyrolysis and hydrothermal treatment was compared. With pyrolysis, initial vaporization occurred at 453 K as determined by thermogravimetric analysis, while initial solubilisation occurred at 433 K with subcritical hydrothermal treatment. The “kinetic triplet” was determined for the ranges of 423-483 K (range I) and 473-553 K (range II) using the Coats-Redfern method for both treatments. The calculated activation energies for ranges I and II were 110 and 116 kJ/mol for conventional pyrolysis and 145 and 90 kJ/mol for hydrothermal treatment. The similar activation energies for the two temperature ranges observed for pyrolysis implied that only hemicellulose decomposition occurred. For hydrothermal treatment, both hemicellulose and cellulose decomposition occurred in temperature range II, in which a notable lower activation energy was observed. This implied hydrothermal treatment was more suitable for conversion lignocellulosic biomass under these conditions.     

Genetic diversity and genetic structure of different populations of the endangered species Davidia involucrata in China detected by inter-simple sequence repeat analysis

Dove tree (Davidia involucrate) is a Tertiary relic species endemic to China and is reputed to be a ‘living fossil’ in the plant kingdom. Genetic diversity and genetic structure of this species were analyzed for its conservation and management, using inter-simple sequence repeat (ISSR) data obtained from eight populations distributed throughout seven provinces of China. A relatively high level of genetic diversity, at both population and species levels, was detected using the POPGENE software. Analysis of molecular variance (AMOVA) revealed a moderate level of among-population variation (i.e., 33.21%). The genetic structure of dove tree was closely consistent with their isolated topographical distribution region based on the results of the STRUCTURE, POPGENE-UPGMA and PCA analysis. It is postulated that the relatively high level of genetic diversity has been maintained because of: (a) the original wild geographical distribution, (b) propagation through outcrossing seeds or root suckers, (c) the longevity of individuals and (d) the relatively little human disturbance. Genetic drift and restricted gene are important factors affecting genetic differentiation. There was no significant correlation between geographical distances and a pairwise comparison with genetic distances, as analyzed by the Mantel test, but the clustering result of genetic diversity was consistent with their isolated topographical distribution regions. Thus, maintaining the stable special habitats associated with this species is recommended for the in situ conservation. Furthermore, it is important to develop an effective seed germination system for the maintenance of an ex situ conservation pool of the germplasm resources.     

Virtual screening using molecular simulations

Effective virtual screening relies on our ability to make accurate prediction of protein-ligand binding, which remains a great challenge. In this work, utilizing the molecular-mechanics Poisson-Boltzmann (or Generalized Born) surface area approach, we have evaluated the binding affinity of a set of 156 ligands to seven families of proteins, trypsin β, thrombin α, cyclin-dependent kinase (CDK), cAMP-dependent kinase (PKA), urokinase-type plasminogen activator, β-glucosidase A, and coagulation factor Xa. The effect of protein dielectric constant in the implicit-solvent model on the binding free energy calculation is shown to be important. The statistical correlations between the binding energy calculated from the implicit-solvent approach and experimental free energy are in the range of 0.56-0.79 across all the families. This performance is better than that of typical docking programs especially given that the latter is directly trained using known binding data whereas the molecular mechanics is based on general physical parameters. Estimation of entropic contribution remains the barrier to accurate free energy calculation. We show that the traditional rigid rotor harmonic oscillator approximation is unable to improve the binding free energy prediction. Inclusion of conformational restriction seems to be promising but requires further investigation. On the other hand, our preliminary study suggests that implicit-solvent based alchemical perturbation, which offers explicit sampling of configuration entropy, can be a viable approach to significantly improve the prediction of binding free energy. Overall, the molecular mechanics approach has the potential for medium to high-throughput computational drug discovery.     

The activity of recombinant human neuroglobin as an antioxidant and free radical scavenger

Free radicals are by-products of metabolism and exist in a homeostasis between generation and scavenging in vivo. Excessive free radicals cause various diseases, including nervous system diseases. Neuroglobin (Ngb), a nervous system-specific oxygen-binding protein, has been suggested to be a potential free radical scavenger in the nervous system in vivo; however, its underlying mechanism remains unclear. In this study, we investigated the antioxidant potential and free radical scavenging properties of recombinant human Ngb (rhNgb) in vitro. Interestingly, we found that the rhNgb protein itself has a direct and distinct antioxidant capacity and can efficiently scavenge a variety of free radicals, including the [2,2'-azino-di-(3-ethyl-benzthiazoline-6-sulfonic acid)] (ABTS) cation, superoxide anion, hydrogen peroxide, and hydroxyl radical. The capacity of rhNgb to scavenge the superoxide anion and hydrogen peroxide was even comparable to that of vitamin C. In addition, rhNgb had Fe(2+) chelating activity but hemoglobin did not. In conclusion, our results indicated that the rhNgb protein itself has antioxidant and free radical scavenging activities, providing fundamental evidence for the neuroprotective function of Ngb. These data provide key information for the origin of the neuroprotective and physiological role of Ngb and will promote the treatment of reactive oxygen species (ROS)-related diseases using this novel oxygen-binding globin.     

A genetic algorithm for the optimization of the thermoinduction protocol for high-level production of recombinant human-like collagen from Escherichia coli

Production of recombinant human-like collagen (RHLC) by thermoinduction of recombinant Escherichia coli BL 21 during high cell density cultivation was investigated in a 30 L bioreactor. The effects of induction temperature (T), pH, and carbon-to-nitrogen molar ratio of the nutrient medium (C/N) were examined. The optimal thermoinduction protocol for RHLC production was determined by using a model coupling genetic algorithm and artificial neural networks. The optimal operating conditions were as follows: maintenance of induction temperature at 42°C for 3 H and then at 39.4°C until the end, induction pH at 7.03, and C/N at 4.8 (mol/mol). The theoretical maximum concentration of RHLC was 12.5 g/L, whereas the experimental value was 12.1 g/L under the optimal induction conditions.     

Mechanisms underlying host plant selection by Holcocerus hippophaecolus adults

We determined the mechanisms underlying host selection by adults of the seabuckthorn carpenterworm, Holcocerus hippophaecolus Hua, Chou, Fang et Chen. Four sea buckthorn (Hippophae rhamnoides L.) subspecies (varieties) with different degrees of resistance to H. hippophaecolus were chosen for artificial insect infection in cages. The results showed that olfactory and visual cues are very important for the selection of host plants by H. hippophaecolus, but that olfactory stimuli play a more vital role in this process. The relative abundance of branches and leaves had no effect on the likelihood that adults landed on plants from four subspecies (varieties), but did influence landing rates within the same subspecies (varieties). When considering only the most resistant sea buckthorn subspecies (varieties), the presence of luxuriant branches and leaves led to lower landing rates. These results provide a theoretical basis for the understanding of H. hippophaecolus damage to sea buckthorn and the means to implement effective measures of control.     

Isolation of a wild Morchella spp. strain and the effects of its extract on ethanol-induced gastric mucosal lesions in rats

A Morchella spp. strain was isolated from a wild morel mushroom, and the effects of its mycelia extract on the ethanol-induced gastric mucosal lesions of rats were investigated in vivo. Sequence analysis of internal transcribed spacer suggested that this Morchella spp. strain (strain No. M1) was clustered together with M. conica in the phylogenetic tree. The superoxide dismutase (SOD) activity increased significantly compared to the control. However, the malondialdehyde (MDA) level and myeloperoxidase (MPO) activity decreased significantly compared to the control. These results indicated that M1 is one member of M. conica and the protective effects of M1 extract against the ethanol-induced gastric lesions may be related to the increased SOD activity and decreased MDA level and MPO activity in rats.