Hepatitis B virus regulation of Raf1 promoter activity through activation of transcription factor AP-2α

The X protein of hepatitis B virus (HBx) is one of the important factors in the development of hepatocellular carcinoma. Raf1 kinase is a central component of many signaling pathways that are involved in normal cell growth and oncogenic transformation. We previously demonstrated that hepatitis B virus regulates Raf1 expression in HepG2.2.15 cells by enhancing its promoter activity and that HBx and HBs might play an important role in this process. However, the underlying molecular mechanisms remain unclear. In this study, we show that nucleotides -209 to -133 of the Raf1 promoter sequence constitute the core region where hepatitis B virus is regulated. This regulation was found to require the involvement of cis-regulatory element AP-2α. We further demonstrated that AP-2α expression was higher in HepG2.2.15 cells (HBV-expressing cells) than in HepG2 cells in vitro. Silencing AP-2α expression by siRNA significantly inhibited the Raf1 promoter activity in HepG2.2.15 cells. These findings indicated that HBV regulates Raf1 promoter activity, possibly through AP-2α.

Enhanced Čerenkov second-harmonic emission in nonlinear photonic structures

We study experimentally and theoretically the Čerenkov-type second-harmonic generation in a one-dimensional nonlinear photonic crystal. We demonstrate that the power of emitted second-harmonic can be enhanced 270 times by varying the angle of incidence of the fundamental beam such that the reciprocal lattice vector of the crystal can be used to compensate for the phase mismatch in the transverse direction enabling interaction in the nonlinear Bragg diffraction regime.

Trace organic contaminants and their sources in surface sediments of Santa Monica Bay, California, USA

Spatial distribution of selected contaminants in the surface sediments of Santa Monica Bay (SMB), California was investigated. Sediments were analyzed for DDTs (DDT and metabolites), polychlorinated biphenyls (PCBs), polycyclic aromatic hydrocarbons (PAHs), linear alkylbenzenes (LABs) and coprostanol. Effluent samples from the Hyperion Treatment Plant (HTP), which discharges treated municipal wastewater effluents into SMB, were also analyzed. The inter-correlation in the distribution trends of contaminants was examined. The concentrations of contaminants were interpolated in a geographic information system to visualize their spatial distribution in the Bay. Inventories of the contaminants were also estimated. The concentrations of coprostanol, LABs and PCBs are very high only in the vicinity of the sewage outfall whereas PAHs and DDTs occur widespread in the Bay. The poor correlation of DDTs with LABs, PAHs or coprostanol content confirms the historic origin of DDTs and their absence in the contemporary wastewaters. Moderate correlation of DDTs with PCBs implies historic deposits as a major origin of PCBs. There are hot spots of DDTs at water depths of 60 and 100m and the inventory of DDTs in Bay sediments is insignificant compared to that estimated in the Palos Verdes Shelf which extends from the southern edge of Redondo Canyon around Palos Verdes Peninsula. The concentration of toxic contaminants was examined according to published sediment quality guidelines. About 20 stations contain p, p'-DDE and/or total DDTs above ERM and, PCBs between ERL and ERM indicating potential for adverse biological effects.

Ytterbium fiber laser based on first-order fiber Bragg gratings written with 400 nm femtosecond pulses and a phase-mask

A Fiber Bragg grating of 369 nm pitch was inscribed in a germanium-free double-clad ytterbium doped silica fiber using a femto-second pulse train at 400 nm wavelength and a phase mask. The photo-induced refractive index modulation of higher than 4 x 10(-3) was obtained and the accompanying photo-induced losses were subsequently removed by thermal annealing, resulting in a low loss (<0.1 dB), stable and high reflectivity (>40 dB) FBG. Based on this FBG, a monolithic Ytterbium fiber laser operating at 1073 nm with slope efficiency of 71% and output power of 13 W was demonstrated.

MESPEUS: a database of the geometry of metal sites in proteins

A database with details of the geometry of metal sites in proteins has been set up. The data are derived from metalloprotein structures that are in the Protein Data Bank [PDB; Berman, Henrick, Nakamura & Markley (2006).Nucleic Acids Res.35, D301–D303] and have been determined at 2.5 Å resolution or better. The database contains all contacts within the crystal asymmetric unit considered to be chemical bonds to any of the metals Na, Mg, K, Ca, Mn, Fe, Co, Ni, Cu or Zn. The stored information includes PDB code, crystal data, resolution of structure determination, refinement program andRfactor, protein class (from PDB header), contact distances, atom names of metal and interacting atoms as they appear in the PDB, site occupancies,Bvalues, coordination numbers, information on coordination shapes, and metal–metal distances. This may be accessed by SQL queries, or by a user-friendly web interface which searches for contacts between specified types of atoms [for example Ca and carboxylate O of aspartate, Co and imidazole Nδ of histidine] or which delivers details of all the metal sites in a specified protein. The web interface allows graphical display of the metal site, on its own or within the whole protein molecule, and may be accessed at http://eduliss.bch.ed.ac.uk/MESPEUS/. Some applications are briefly described, including a study of the characteristics of Mg sites that bind adenosine triphosphate, the derivation of an average Mg—Ophosphatedistance and some problems that arise when average bond distances with high precision are required.

Transmission enhancement through a trench-surrounded nano metallic slit by bump reflectors

We propose using a pair of bumps bordering the conventional trench-surrounded metal nano slit in order to confine the surface waves and further enhance the slit transmission. The bump height of 1.mum is larger than the depth of penetration on air side of the surface waves. The reflectivity of such bumps is larger than 95%. A very large slit transmission, which is 50% of the energy of the incident beam impinging on the entire size 13.mum of the trench-surrounded slit structure, is obtained through the metallic slit of 50nm width and 400nm depth. The bumps enhance the transmission by 1.75 fold.

Bragg gratings photoinduced in ZBLAN fibers by femtosecond pulses at 800 nm

Fiber Bragg gratings were written in thulium-doped and undoped single-mode ZBLAN fibers by focusing femtosecond laser pulses on the fiber core through a phase mask. Maximum index modulation of the order of 1 x 10(-3) was induced in both types of fibers. Measurements of the transverse refractive index changes across the core and cladding regions indicate that the grating formation originates from a negative index change.

Anion effect on the nanostructure of a metal ion binding self-assembling peptide

Effects of copper salts containing different anions (SO(4)(2)(-), Cl(-), and NO(3)(-)) on the self-assembly of a designed peptide EAK16(II)GGH with affinity for Cu(2+) have been investigated. The peptide secondary structure, self-assembled nanostructures, and surface activity were observed to depend strongly on the type of anion. Over a salt concentration range from 0.05 to 10.0 mM, SO(4)(2)(-) induced long fiber formation, whereas Cl(-) and NO(3)(-) caused short fiber formation. The fiber length increased with copper sulfate concentration, but the concentration of copper chloride and copper nitrate did not affect the peptide nanostructures significantly. Analysis by Fourier transform infrared spectroscopy (FTIR) revealed that the addition of the copper salts tended to cause the peptide conformation to change from alpha-helix/random coil to beta-sheet, the extent to which depended on the anion type. This evidence of the anion effect was also supported by surface tension measurements using the axisymmetric drop shape analysis-profile (ADSA-P) technique. An explanation for the effect of anions on the peptide self-assembly was proposed. The divalent anion SO(4)(2)(-) might serve as a bridge by electrostatically interacting with two lysine residues from different peptide molecules, promoting beta-sheet formation. The extensive beta-sheet formation may further promote peptide self-assembly into long fibers. On the other hand, monovalent anions Cl(-) and NO(3)(-) may only electrostatically interact with one charged residue of the peptide; hence, a mixed secondary structure of alpha-helix/random coil and beta-sheet was observed. This observation might explain the predominant formation of short fibers in copper chloride and copper nitrate solutions.

Estimation of solids loadings to rainfall-runoff unit operations using a unit pollutograph concept for source area watersheds

Source area watershed in the built environment deliver significant loads of solids and constituents such as metals, organics and phosphorus associated with solids. The ability to model the mass delivery process of solids in small urban watersheds is essential for advancement of rainfall-runoff quantity and quality control design in the built environment. In this study the hydrologic concepts of the unit hydrograph (UH) and instantaneous unit hydrograph (IUH) were used to support the concepts of a unit pollutograph (UP) and an instantaneous unit pollutograph (IUP). These latter two concepts were developed as analogous concepts for estimation of solids mass transport loading as a pollutograph from source area watersheds. Relationships between solids mass and hydrologic volume were based on relationships that expressed either a first-order or zero-order relationship between solids mass and volumetric transport. The resulting concepts were applied to historical rainfall-runoff events where the hydrologic and water quality measurements had been conducted. From this development a site mean IUH and IUP determined from the rainfall-runoff record and water quality data, the corresponding site mean UH and UP were developed for solids. The hydrographs and solid pollutographs generated by convolution of the UH and UP compared well with measurements, indicating the feasibility of the concept.

The transcriptional landscape of the mammalian genome

This study describes comprehensive polling of transcription start and termination sites and analysis of previously unidentified full-length complementary DNAs derived from the mouse genome. We identify the 5' and 3' boundaries of 181,047 transcripts with extensive variation in transcripts arising from alternative promoter usage, splicing, and polyadenylation. There are 16,247 new mouse protein-coding transcripts, including 5154 encoding previously unidentified proteins. Genomic mapping of the transcriptome reveals transcriptional forests, with overlapping transcription on both strands, separated by deserts in which few transcripts are observed. The data provide a comprehensive platform for the comparative analysis of mammalian transcriptional regulation in differentiation and development.

Disappearing Arctic Lakes

Historical archived satellite images were compared with contemporary satellite data to track ongoing changes in more than 10,000 large lakes in rapidly warming Siberia. A widespread decline in lake abundance and area has occurred since 1973, despite slight precipitation increases to the region. The spatial pattern of lake disappearance suggests (i) that thaw and "breaching" of permafrost is driving the observed losses, by enabling rapid lake draining into the subsurface; and (ii) a conceptual model in which high-latitude warming of permafrost triggers an initial but transitory phase of lake and wetland expansion, followed by their widespread disappearance.

Formulation and in vitro/in vivo evaluation of combining DNA repair and immune enhancing nutritional supplements

Combining nutritional supplements to achieve synergistic benefit is a common practice in the nutraceutical industry. However, establishing added health benefit from a combination of natural ingredients is often assumed, untested and without regard to the principle of metabolic competition between the active components. Here, we report on the combination of a cat's claw water extract (C-Med-100, carboxy alkyl esters = active ingredients) + medicinal mushroom extracts (Cordyceps sinensis, Grifola blazei, Grifolafrondosa, Trametes versicolor and Ganoderma lucidum, polysaccharides = active ingredients) + nicotinamide + zinc into a formulation designed to optimize different modes of immunostimulatory action, and yet that would avoid metabolic antioxidant competition yielding less than expected efficacious effects. Isobole curve analyses of these two active classes of ingredients determined by growth inhibition of HL-60 human leukemic cells in vitro confirmed they were indeed synergistic when in combination, and not metabolically competitive. Furthermore, an in vivo study showed significant health benefit for 14 subjects treated for 4 weeks with the unique C-Med-100/mushroom extract formulation in that they had reduced pain, reduced fatigue, weight loss and a reduced presence of DNA damage in peripheral blood assessed by (8-OH) guanine DNA adducts and elevation in serum protein thiols. Because this broad-based panel of clinical parameters indicating clinical efficacy has never been demonstrated before for either of the active ingredients evaluated alone in humans, these data were taken as strong evidence that the combination of C-Med-100 + mushroom extracts + nicotinamide + zinc gave additive or synergistic effects to health benefit, and thus supported no efficacious limits from metabolic competition regarding this particular formulation.

Effects of sucrose concentration on the developmental potential of human frozen–thawed oocytes at different stages of maturity

BACKGROUND

Success of human oocyte cryopreservation depends on multiple cryobiological factors that could influence the developmental potential of the oocytes. The objective of this study was to examine the effects of different sucrose concentrations on the developmental potential of human frozen-thawed oocytes at different maturity stages.

METHODS

A total of 355 oocytes collected from small follicles were randomly divided into three groups and two groups (B and C) were cryopreserved using slow-freezing method. Group A included 131 oocytes at different maturity stages without freezing. Another 119 oocytes in Group B were cryopreserved with 0.1 M sucrose and 105 oocytes in Group C with 0.2 M sucrose concentration.

RESULTS

The post-thaw survival rate of the oocytes and the cleavage rate in Group C were significantly higher than that of Group B (P<0.05). For immature metaphase I (MI) stage oocytes, a significant difference was found in the maturation rate between Group C and Group B (P<0.05). The maturation rate for the GV oocytes in Groups A and C was significantly higher than Group B (P<0.01).

CONCLUSIONS

The results suggested that sucrose concentration of 0.2 M in the cryoprotectant solution is more suitable for human oocyte cryopreservation.

Siberian Peatlands a Net Carbon Sink and Global Methane Source Since the Early Holocene

Interpolar methane gradient (IPG) data from ice cores suggest the "switching on" of a major Northern Hemisphere methane source in the early Holocene. Extensive data from Russia's West Siberian Lowland show (i) explosive, widespread peatland establishment between 11.5 and 9 thousand years ago, predating comparable development in North America and synchronous with increased atmospheric methane concentrations and IPGs, (ii) larger carbon stocks than previously thought (70.2 Petagrams, up to approximately 26% of all terrestrial carbon accumulated since the Last Glacial Maximum), and (iii) little evidence for catastrophic oxidation, suggesting the region represents a long-term carbon dioxide sink and global methane source since the early Holocene.

[Investigation on genotype constitution of different Plasmodium vivax isolates and its geographical distribution in China]

OBJECTIVE

To investigate the population constitution and geographical distribution of Plasmodium vivax in China using molecular technique.

METHODS

Blood-spot filter paper samples with related epidemiological data were collected from vivax malaria patients living in malarious area of 10 provinces (autonomous region) in China. Semi-nested- or nested-allelic-specific PCR genotyping method was used to identify CSP genotypes, families and types of Plasmodium vivax of each isolate from these patients.

RESULTS

Of 384 field isolates of Plasmodium vivax, 258 temperate zone family strains were identified, including 14 allelic variant genotypes spreading among 10 sampling provinces; allelic variants sized less than 731 bp were only seen in 5 provinces in southern China; 79 tropical zone family strains including 5 genotypes were also distributed in 5 provinces of southern China south to 25 degrees N. lat; and 14 PV Type-2 strains including 2 genotypes were found in some areas of Hainan and Yunnan Provinces. In addition, 33 isolates from genotype-mixed infections were revealed.

CONCLUSION

At present, area north to 25 degrees N. lat. of the country is the sole area prevalent for Plasmodium vivax family strains of temperate zone; there is overlapping distribution of P. v. of temperate zone family and tropical zone family of this parasite in the southern China south to 25 degrees N. lat; where the most complex isolate constitution is in Yunnan and Hainan Provinces, and PV Type-2 strains have been found in some areas of the two provinces. Besides, there were 2 groups of genotype with distinct geographic distribution feature within the temperate zone family.