Expression of putative zinc-finger protein lcn61 gene in lymphocystis disease virus China （LCDV-cn） genome

An open reading frame (lcn61) of lymphocystis disease virus China (LCDV-cn), probably responsible for encoding putative zinc-finger proteins was amplified and inserted into pET24a (+) vector. Then it expressed in E. coli BL21 (DE3), and His-tag fusion protein of high yield was obtained. It was found that the fusion protein existed in E. coli mainly as inclusion bodies. The bioinformatics analysis indicates that LCN61 is C2H2 type zinc-finger protein containing four C2H2 zinc-finger motifs. This work provides a theory for functional research of lcn61 gene. Supported by High Technology Research and Development Program of China (863 Program, No. 2006AA100309)     

Models of travel demand with endogenous preference change and heterogeneous agents

In the literatures of regional science, urban economics, and urban development planning, a working assumption is that individuals respond to incentives and regulations, given their preferences. Models for planning and policy analyses are used to consider what might occur if the incentives or regulations were different. In these models, however, preferences are usually assumed to be given and stable, and agents are usually assumed to be homogeneous. This paper focuses on the implications of making preferences in models of policy implementation endogenously determined and time varying heterogeneous agents. We consider first the recent literature on intertemporal choice and preference change, which cuts across many disciplines, and more briefly the literature on norm-regarding behavior. We then elaborate a simple model of transportation demand—from a static to a dynamic orientation, from fixed and exogenously given preferences of strictly self-regarding agents to endogenously determined and policy-induced preferences of heterogeneous agents—and illustrate its characteristics with simple numerical examples.     

Application of saddlepoint approximation in reliability analysis of dynamic systems

The application of the saddlepoint approximation to reliability analysis of dynamic systems is investigated. The failure event in reliability problems is formulated as the exceedance of a single performance variable over a prescribed threshold level. The saddlepoint approximation technique provides a choice to estimate the cumulative distribution function (CDF) of the performance variable. The failure probability is obtained as the value of the complement CDF at a specif ied threshold. The method requires computing the saddlepoint from a simple algebraic equation that depends on the cumulant generating function (CGF) of the performance variable. A method for calculating the saddlepoint using random samples of the performance variable is presented. The applicable region of the saddlepoint approximation is discussed in detail. A 10-story shear building model with white noise excitation illustrates the accuracy and effi ciency of the proposed methodology.     

Lateral continuity of basement seismic reflections in 15 Ma ultrafast-spreading crust at ODP Site 1256

The Ocean Drilling Program (ODP) initiated drilling at Site 1256D in the Guatemala Basin, about 1,000 km off the East Pacific Rise to penetrate plutonic rocks, anticipated to be relatively shallow in this region, formed at an ultra-fast spreading rate. IODP Expedition E312 successfully drilled into gabbros at ~1,150 m in basement. Multi-channel seismic traces show weak laterally coherent sub-basement reflections at borehole depths. Synthetic reflectivity seismograms were computed using a Ricker wavelet and impedance profiles from borehole sonic logs. These seismograms show significant sub-basement amplitude peaks. A zero-offset vertical seismic profile, shot on E312, was processed to investigate the authenticity of these reflections and their relationship to borehole geology. A dual scheme of the median filtering and F–K dip filtering was used. Tests with synthetic seismograms indicate the approach is effective at reasonable SNR levels. Downgoing energy is clearly identified but negligible upgoing energy is visible over random noise. These results indicate that lava flows and igneous contacts in upper ocean crust have significant topography on lateral scales less than the Fresnel Zone (~300 m) due to igneous and tectonic processes.     

An Analytical Model For Threshold Crossing Rates Of Concentration Fluctuations In Dispersing Plumes

A simple analytical model is developed for the meanupcrossing rate of plume concentration fluctuations assuming that thisprocess can be well approximated by a lognormal process. The resultingexpression requires only the specification of the in-plume fluctuationintensity and in-plume Taylor micro-time scale and, hence, does notexplicitly involve the joint probability density function of theconcentration and its derivative. The analytical model provides agood fit to some field measurements of the mean upcrossing rate ina dispersing plume.     

An inter-comparison of tidal solutions computed with a range of unstructured grid models of the Irish and Celtic Sea Regions

Three finite element codes, namely TELEMAC, ADCIRC and QUODDY, are used to compute the spatial distributions of the M₂, M₄ and M₆ components of the tide in the sea region off the west coast of Britain. This region is chosen because there is an accurate topographic dataset in the area and detailed open boundary M₂ tidal forcing for driving the model. In addition, accurate solutions (based upon comparisons with extensive observations) using uniform grid finite difference models forced with these open boundary data exist for comparison purposes. By using boundary forcing, bottom topography and bottom drag coefficients identical to those used in an earlier finite difference model, there is no danger of comparing finite element solutions for “untuned unoptimised solutions” with those from a “tuned optimised solution”. In addition, by placing the open boundary in all finite element calculations at the same location as that used in a previous finite difference model and using the same M₂ tidal boundary forcing and water depths, a like with like comparison of solutions derived with the various finite element models was possible. In addition, this open boundary was well removed from the shallow water region, namely the eastern Irish Sea where the higher harmonics were generated. Since these are not included in the open boundary, forcing their generation was determined by physical processes within the models. Consequently, an inter-comparison of these higher harmonics generated by the various finite element codes gives some indication of the degree of variability in the solution particularly in coastal regions from one finite element model to another. Initial calculations using high-resolution near-shore topography in the eastern Irish Sea and including “wetting and drying” showed that M₂ tidal amplitudes and phases in the region computed with TELEMAC were in good agreement with observations. The ADCIRC code gave amplitudes about 30 cm lower and phases about 8° higher. For the M₄ tide, in the eastern Irish Sea amplitudes computed with TELEMAC were about 4 cm higher than ADCIRC on average, with phase differences of order 5°. For the M₆ component, amplitudes and phases showed significant small-scale variability in the eastern Irish Sea, and no clear bias between the models could be found. Although setting a minimum water depth of 5 m in the near-shore region, hence removing wetting and drying, reduced the small-scale variability in the models, the differences in M₂ and M₄ tide between models remained. For M₆, a significant reduction in variability occurred in the eastern Irish Sea when a minimum 5-m water depth was specified. In this case, TELEMAC gave amplitudes that were 1 cm higher and phases 30° lower than ADCIRC on average. For QUODDY in the eastern Irish Sea, average M₂ tidal amplitudes were about 10 cm higher and phase 8° higher than those computed with TELEMAC. For M₄, amplitudes were approximately 2 cm higher with phases of order 15° higher in the northern part of the region and 15° lower in the southern part. For M₆ in the north of the region, amplitudes were 2 cm higher and about 2 cm lower in the south. Very rapid M₆ tidal-phase changes occurred in the near-shore regions. The lessons learned from this model inter-comparison study are summarised in the final section of the paper. In addition, the problems of performing a detailed model–model inter-comparison are discussed, as are the enormous difficulties of conducting a true model skill assessment that would require detailed measurements of tidal boundary forcing, near-shore topography and precise knowledge of bed types and bed forms. Such data are at present not available.     

Tectonics of southwestern Mexico,isotopic evidence,nuclear Central America,Late Cretaceous break up

In the paleogeographic reconstruction of Mexico and northern Central America, an ever-increasing amount of evidence shows that the entire region is a collage of suspect terranes transported from abroad, whose timing and sense of motion are now beginning to be understood. Among these, the Chortis block (nuclear Central America) and the Baja California Peninsula have been proposed as pieces of continent separated from the Pacific coast of southwestern Mexico, that have moved either southeastward by the Farallon plate or northwestward by the Kula plate. Previous studies mainly confined to the northern margin of the Chortis block, confirmed a left-lateral displacement of 130 km in Neogene time. Further studies made northwestward along the Mexican coast provided a better understanding of magmatic and metamorphic processes in the area, and suggested times of detachment increased to 30 Ma, 40 Ma, and 66 Ma. The pre-detachment westernmost position of the block has changed, depending on the model chosen, from Puerto Vallarta and beyond, to the current position. Here we show that the isotopic mineral ages from coastal granites along the coast from Puerto Vallarta, Jalisco (80 Ma) to Puerto Angel, Oaxaca (11 Ma) record systematic decrease of cooling ages from NW to SE. This pattern is interpreted to result from the progressive uplift of rocks exposed at the present-day coast in that direction, such uplift occurred in response to the development of the Middle America Trench at the newly formed continental margin when the Chortis block was sliding at an average rate of 1.5 cm/year in a sinistral sense to its present position. Our results also constrain the position of the Kula-Farallon spreading axis north of Puerto Vallarta. These observations led us to conclude that several indicators point to this time and region for the onset of strike-slip drifting of the Chortis block toward its current position. Here, we also present several view points in terms of other possilble interpretations to different tectonic, geologic and isotopic data sets published recently by different authors.     

Integration of reflection seismic and sediment grain-size data from Lake Khubsugul (Northern Mongolia): a reply to Prokopenko and Kendall

Prokopenko and Kendall (J Paleolimnol doi:, 2008) criticise the work presented in Fedotov et al. (J Paleolimnol 39:335–348, 2008), and instead propose an alternative interpretation for the grain-size evolution recorded in the KDP-01 core, retrieved from the central part of Lake Khubsugul. Their interpretation is based (i) on a seismic-stratigraphic re-interpretation of sparker seismic profile khub012 (which they copied from Fedotov et al. (EOS Trans 87:246–250, 2006)), (ii) on the presupposition that changes in lake level are the dominant control on facies distribution in Lake Khubsugul, and (iii) on the invalidation of our age-depth model. In this reply to their comment, we demonstrate that they interpreted seismic artefacts and geometries caused by changes in profile orientation as true stratigraphic features and that the lake-level reconstruction they derive from this interpretation is therefore incorrect. We also demonstrate that their grain-size predictions, which they consider to be predominantly driven by changes in lake level, are inconsistent with the measured sulphate concentration, which is a demonstrated proxy of lake level in Lake Khubsugul, and with the measured grain-size record. Finally, we point out that even if there would be a problem with the age-depth model, this problem would not affect the part of the sedimentary sequence discussed in Fedotov et al. (J Paleolimnol 39:335–348, 2008).     

Experimental research on the effect of slope morphology on bank collapse in mountain reservoir

Farmers along the Amazon River each year face multiple natural hazards that threaten crop production and limit the potential for agricultural development of the expansive floodplain and active channel. In this paper we report the findings of a study of natural hazard-related risk associated with rice production on silt bars in the active channel of the Amazon River near Iquitos, Peru. Data were gathered in four rice producing communities in 2014 using household surveys (n = 83 households), focus group discussions, surveying of land elevations along the Amazon River, and interpretation of remote sensing imagery. The probability, extent, and severity of rice crop shortfalls were estimated for recent production years and the economic losses to farming households were also assessed. Our findings point to a very high risk of crop shortfalls due to natural hazards, suggesting that a good year brings rice farmers bounty and a bad year, near penury. River stage reversals (repiquetes) and edaphic conditions were found to be more problematic than the often cited hazard of high and/or early floods. Also surprisingly, farmers’ perceptions of hazards and risk diverged markedly from actual shortfalls experienced during the production years studied. Our results provide the first quantitative estimates of risk due to the multiple natural hazards along the Amazon River and point to the need to assist lowland farmers with risk mitigation so as to unlock the considerable potential of Amazon floodlands for agricultural production.     

Artificial light at night: implications for early life stages development in four temperate freshwater fish species

Flora and fauna have both evolved under a natural cycle of light and dark. But especially in urban areas, the night is now increasingly disturbed by artificial light. Many traits and behaviours in fish are triggered by a circadian clock, for example hatching and swim bladder inflation, which predominantly take place at dusk or night. As lighting becomes brighter and extends farther into rural areas, the distinction between day and night becomes increasingly blurred. Therefore, the loss of diurnal trigger by artificial light at night was hypothesized having deleterious effects on these traits and impact fish reproduction. To assess these effects, eggs of four native freshwater fishes, Eurasian perch Perca fluviatilis, roach Rutilus rutilus, bleak Alburnus alburnus and chub Leuciscus cephalus, were incubated under two different light conditions: a photoperiod of 14 h light:10 h darkness (LD) and continuous illumination (LL). The time to hatch and swim bladder inflation was recorded. The species showed inconsistent reactions to the light treatments. In roach and bleak, the time to 50% hatch was longer in LL, whereas continuous lighting had an accelerating effect in chub. Incubation in LL elongated the hatching period in perch and roach and, in perch, the onset of darkness seemed to trigger hatching. The swim bladder inflation was significantly promoted by continuous light in chub and bleak but was not affected in roach. In conclusion, nocturnal artificial illumination could have an effect on hatching and initial swim bladder filling by masking the day–night-change and thereby diminish the trigger effect. However, the reactions were species specific and the increase in variation indicated a lack of diurnal triggering, whilst a general deleterious effect of artificial light at night has not been identified on early life stages.