Design of a data model for developing laboratory information management and analysis systems for protein production

Data management has emerged as one of the central issues in the high-throughput processes of taking a protein target sequence through to a protein sample. To simplify this task, and following extensive consultation with the international structural genomics community, we describe here a model of the data related to protein production. The model is suitable for both large and small facilities for use in tracking samples, experiments, and results through the many procedures involved. The model is described in Unified Modeling Language (UML). In addition, we present relational database schemas derived from the UML. These relational schemas are already in use in a number of data management projects.     

Landscape,soil and meteorological influences on canopy dynamics of northern flooding Pampa grasslands,Argentina

Question: How do meteorological variations at seasonal, interannual scales differentially affect the canopy dynamics of four contrasting landscape units within a region? Location: Flooding Pampa, Buenos Aires, Argentina. 5000 km². Central point: 35°15′S, 57°45′W. Methods: We used a 19‐year series of the normalized difference vegetation index (NDVI) derived from NOAA‐AVHRR PAL (Pathfinder AVHRR Land) images and meteorological data provided by a nearby weather station. The NDVI was used as surrogate of canopy photosynthetic status. The relationship between annually integrated NDVI and meteorological conditions was explored by stepwise multiple regressions for each defined unit. PC A was performed to compare units and growing seasons on a multivariate basis. Results: Mean seasonal NDVI curve was similarly shaped among landscapes. However, the absolute values differed widely. There was high interannual variation so that the mean seasonal pattern was seldom observed in any particular year. Annually integrated NDVI of all landscapes was negatively associated with summer temperature and positively with previous year precipitation. It was also directly related with current year winter precipitation in two landscapes and with summer precipitation in the others. NDVI response to September and March precipitation accounted for some of the differences in interannual variation among landscapes. Conclusions: Our results revealed a strong intra‐regional variation of canopy dynamics, closely linked to landscape (vegetation‐soil) and water availability (mainly in summer and during the previous year). These links may be used to predict forage production rates for livestock.     

Metabolic rate in diapause and nondiapause brown locust eggs correlated with embryonic development

Insects use dormancy to survive adverse conditions. Brown locust Locustana pardalina (Walk.) eggs offer a convenient model to study dormancy (diapause and quiescence), which contributes to their survival under arid conditions. The metabolic rates of developing nondiapause, diapause and quiescent eggs are compared in the present study using closed‐system respirometry. The embryo becomes committed to continue development and hatch or to enter diapause 6 days after the eggs are placed on moist soil. The metabolic rate of nondiapause eggs increases exponentially until hatching, whereas that of diapause eggs is low and stable. The metabolic rate of diapause laboratory eggs (1.9 ± 0.6 µL CO₂ mg^?1 h^?1) is significantly higher than that of field eggs (0.5 ± 0.3 µL CO₂ mg^?1 h^?1), although the ranges of metabolic rate overlap and the embryos are all in late anatrepsis. The metabolic rate of quiescent eggs is similar to that of diapause eggs but decreases with time. Low metabolic rates during arrested development allow eggs to persist over long periods before hatching.     

宁夏国外小麦种质资源考察、引进和利用

国外小麦种质资源引进在宁夏小麦引种中发挥着重要的作用。碧玉麦、阿勃、墨卡(卡杰姆F-71)、WC-20(宁春37)、9186(宁冬6号)等国外小麦品种在宁夏生产上直接利用。宁夏春小麦的品质杂交选育始于1953年,利用国外小麦种质资源先后培育出斗地1号、宁春4号等50余个春麦品种。1990年宁夏国外冬麦种质资源的引进带动了宁夏引黄灌区冬麦北移和耕作改制的研究,也引发了宁夏冬麦品种杂交选育的研究。宁夏引黄灌区冬小麦品种的杂交选育的工作始于1991年,经过15年的努力,杂交选育出第一批冬麦品种宁冬10号、宁冬11号,2010年在冬麦生产上取代了明丰5088,不仅实现了宁夏引黄灌区冬小麦品种第3次更新、实现了小麦品种的5次更新,而且使宁夏小麦生产水平跃上新台阶,有力地促进宁夏引黄灌区耕作制度改善和种植业结构的调整。     

Food-web studies in shallow eutrophic lakes by the Netherlands Institute of Ecology: Main results,knowledge gaps and new perspectives

For more than 20 years scientists of the ‘Food-chain studies’ Group of the former Limnological Institute have been studying interactions within the pelagic food web. Purpose of research was to explain the structure and dynamics of the zooplankton and fish communities in lakes and reservoirs in relation to biotic and abiotic environmental factors. A so-called multi-species approach was used, in which all common and abundant species within a specific ecosystem were studied on the individual and population level with the same degree of detail. The recent results and the scientific approach used are evaluated and the main gaps in knowledge about food-web dynamics in shallow eutrophic lakes are identified and discussed. It is concluded that instead of the purely functional approach used so far, future studies should also include evolutionary aspects which determine the success of an organism in a given environment and that more attention should be paid to central questions in ‘community ecology’. This paper is based on a lecture given by the first author for the Netherlands Society of Aquatic Ecology on May 12th, 1992, in Amsterdam, The Netherlands.     

ENDOLITHIC MICROFLORA ARE MAJOR PRIMARY PRODUCERS IN DEAD CARBONATE SUBSTRATES OF HAWAIIAN CORAL REEFS1

To quantify the contribution of endolithic phototrophs to primary production of dead carbonate substrates, experimental blocks of cleaned Porites lobata Dana skeleton were placed at three different sites in Kaneohe Bay, Hawaii: inshore, lagoonal, and oceanic. After 6 months of exposure, experimental blocks were colonized by communities characteristic of their estuarine (inshore, lagoonal) and oceanic (ocean) environments. Blocks were sub-sampled; net photosynthesis (NP) and chl a concentrations of the whole blocks (epi- and endoliths) and scrapped blocks (only endoliths) were quantified. Green turf algae colonized predominantly inshore and lagoonal blocks, while encrusting corallines were the dominant epiliths colonizing oceanic blocks. Four main species of endolithic phototrophs were identified in all blocks: Mastigocoleus testarum Lagerheim, Plectonema terebrans Bornet and Flahault (cyanobacteria), Phaeophila dendroides Crouan and Crouan, and Ostreobium quekettii Bornet and Flahault (Chlorophytes). While epiliths were very different between sites, NP rates and chl a concentration of endoliths did not vary significantly and were positively correlated (191±25 mmol C·m⁻²·day⁻¹ and 590±150 mg chl a·m⁻² of reef, respectively). Assimilation numbers for whole communities, including both epilithic and endolithic communities, were similar to those measured for endolithic communities alone (average of 0.3 g C·g chl a·h⁻¹). Under experimental conditions, the contribution of endolithic phototrophs to community NP rates of blocks ranged from 56% to 81%, and under natural conditions, we estimated that this contribution ranged between 32% and 46%. Thus, we showed that the endolithic phototrophs are one of the major primary producers in dead coral substrates in a wide range of coral reef environments.     

Annual and seasonal changes in fine root biomass of a Quercus ilex L. forest

The biomass, production and mortality of fine roots (roots with diameter <2.5 mm) were studied in a typical Mediterranean holm oak (Quercus ilex L.) forest in NE Spain using the minirhizotron methodology. A total of 1212 roots were monitored between June of 1994 and March of 1997. Mean annual fine root biomass in the holm oak forest of Prades was 71±8 g m^–2 yr^–1. Mean annual production for the period analysed was 260+11 g m^–2 yr^–1. Mortality was similar to production, with a mean value of 253±3 g m^–2 yr^–1. Seasonal fine root biomass presented a cyclic behaviour, with higher values in autumn and winter and lower in spring and summer. Production was highest in winter, and mortality in spring. In summer, production and mortality values were the lowest for the year. Production values in autumn and spring were very similar. The vertical distribution of fine root biomass decreased with increasing depth except for the top 10–20 cm, where values were lower than immediately below. Production and mortality values were similar between 10 and 50 cm depth. In the 0–10 cm and the 50–60 cm depth intervals, both production and mortality were lower.     

Variations in sexual and asexual reproduction of Scirpus mariqueter along an elevational gradient

In order to assess the importance of sexual and asexual reproduction during the life history of Scirpus mariqueter, its reproductive and growth characters were concurrently examined along an elevational gradient (from low elevation to high elevation). The proportions of flowering shoot and inflorescence mass, seed : flower ratio and seed weight were used to quantify the investment in sexual reproduction. The proportions of current-year shoot and rhizome mass were used to quantify the investment in asexual reproduction, and the proportion of corm mass was used for growth, respectively. It was found that vegetative propagation predominated at low elevation, whereas sexual reproduction predominated at high elevation; and that sexual reproduction increased with declining asexual reproduction along the gradient. The results suggest that asexual reproduction is relatively favored in the early life stage, whereas sexual reproduction is favored when the population becomes mature and aged, probably because of the functional differentiation between the two reproductive types. Sexual productive characters (i.e. the proportions of flowering shoot and inflorescence mass) were negatively correlated to both growth and asexual reproductive characters along the gradient, indicating there might exist some trade-offs among growth, sexual and asexual reproduction during the life history. However, no obvious pattern was found between asexual reproductive characters and growth characters along the elevational gradient, possibly because of the varied relationships between them at different life stages. The variations in sexual and asexual reproduction in the species and the relationship between them are thought to be of great significance for local population growth, species persistence and evolution.     

Inventory for energy production in Canada

Publicly available databases are analysed to demonstrate their relevance to life cycle inventory for energy production in the Canadian context. Site specific emissions along with sectoral emissions data are combined with production data to construct an energy production model, which has been applied to air emissions. The allocation procedure leads to reasonable results for coal, natural gas and electricity. The detailed allocation of the inventory among petroleum co-products is outside the scope of this study as it requires incorporating knowledge of physical relationship (unit process) or using economic data.