Construction and screening of a functional metagenomic library to identify novel enzymes produced by Antarctic bacteria

A metagenomic fosmid library of approximately 52 000 clones was constructed to identify functional genes encoding cold-adapted enzymes. Metagenomic DNA was extracted from a sample of glacial meltwater,...     

A Method of Positional Quality Control Testing for 2D and 3D Line Strings

This article presents a positional quality acceptance control method for 2D and 3D line strings based on a statistical hypothesis test. Two statistical models are applied together: a Binomial Model is applied over a Base Model. By means of the Base Model the method can be applied to any parametric or non‐parametric error model. The Base Model represents the hypothesis about the error behavior. The Binomial Model is fixed and consists of counting the number F of fail events in a sample of a determined size. The π parameter of the Binomial Model is derived from the Base Model by means of a desired tolerance. By comparing the probabilities associated to F and π a statistical acceptance/rejection decision is achieved. This method allows us to know and control the user's and producer's risk of acceptance/rejection. An example using a 2D line string data set from a commercial product is presented. The extension of the method to the 3D line string case is also presented. In order to facilitate the application of the method, some tables linking π with F and the control sample sizes are presented.     

The Mar Menor lagoon (SE Spain): A singular natural ecosystem threatened by human activities

The Mar Menor lagoon is one of the most important ecological singularities in the Mediterranean area. At the same time, it is an area where many economic and industrial activities meet. The sum of the impacts of mining, agriculture and urban development in the surroundings to the lagoon during the last decades has affected its ecosystem. In this paper, we have reviewed the studies done by researchers over two decades regarding the impacts of human activities in the lagoon, reporting data of contamination levels and the effects generated in the ecosystem of the lagoon. The discharge of enriched nutrient waters seems to be the most important input in the lagoon. Changes to more friendly agricultural techniques in the surrounding areas are therefore necessary. After our review, we can conclude that it is necessary to have higher efforts from the public administrations and stricter environmental regulations in order to preserve, on one hand, the important ecological values of the lagoon, and on other hand, public health.     

Spatial and temporal changes in benthic communities of the Galician continental shelf after the Prestige oil spill

Two years after the Prestige oil spill (POS) an assessment of the effects on benthic fauna was carried out using the data obtained in five multidisciplinary surveys. Otter trawl, beam trawl, suprabenthic sled and box corer were used to study the main benthic compartments, along eight transects perpendicular to the coastline. Beam trawl was also employed to quantify the amount of tar aggregates on the continental shelf. No significant correlations between tar aggregates and species richness, biomass and diversity of benthic communities were found. This result was corroborated when the role of depth, season, latitude and sediment characteristics was examined by canonical ordination, in which POS-related variables had low influence on spatial distribution patterns. Depth and sediment grain diameter profoundly influence epibenthic communities. Sediment organic content is a third key variable for the infaunal, suprabenthic and lower-sized epibenthic communities, but not for the larger epibenthic communities. Nevertheless, a decrease in the densities of several epibenthic indicators was detected the first year after spill, followed by a noteworthy recovery in 2004. Non-macroscopic toxicity and some oceanographic agents are suggested as possible causes of these shifts.     

Biogeomorphological influence of slope processes and sedimentology on vascular talus vegetation in the southern Cascades, California

The vascular vegetation of alpine talus slopes between 2035 and 3095 m altitude was studied at Lassen Volcanic National Park (California) in the Cascade Range. Taluses show a diverse flora, with 79 plant species; growth forms include coniferous trees, shrubs, suffrutices, herbs, graminoids, and ferns. Spatial patterns of plant distribution were studied along 40 point-intercept transects. Plant cover was low (0-32.7%) on all slopes, spatially variable, and showed no consistent trends. Sedimentological characteristics were determined by photosieving next to 1500 plants; this census indicated preferential plant growth on blocks and cobbles, with 43.2% and 23.3% of the plants growing on these stones, respectively; fewer specimens were rooted on pebbles (13%) or on stone-free gravel areas (20.5%). Growth forms displayed different substrate preferences: 92.5% of the shrubs and 83% of the suffrutices colonized blocks or cobbles, but only 57.2% of the herbs and 59.8% of the graminoids grew on large stones. Plants are associated with large clasts because (1) coarse talus is more stable than fine sediment areas, which are more frequently disturbed by various geomorphic processes, and (2) large stones help conserve substrate water beneath them while moisture quickly evaporates from fine debris.Root patterns were studied for 30 plant species; 10 specimens for each species were excavated and inspected, and several root growth ratios calculated. All species exhibited pronounced root asymmetry, as roots for most plants grew upslope from their shoot base. For 23 species, all specimens had 100% of their roots growing upslope; for the other 7 species, 92.2-99.3% of below-ground biomass extended uphill. This uneven root distribution is ascribed to continual substrate instability and resulting talus shift; as cascading debris progressively buries roots and stems, plants are gradually pushed and/or stretched downhill. Various disturbance events affect root development. Slope erosion following rubble removal often exposes plant roots. Debris deposition can completely bury plants; some may survive sedimentation, producing new shoots that grow through accumulated debris. Shrubs may propagate by layering, as adventitious roots develop along buried stems; or produce new clones along their roots. Slope processes may damage and transport plant pieces downhill; some species can sprout from severed, displaced root or stem fragments. Vegetation interacts with several geomorphic processes, including debris flows, grain flows, rockfall, snow avalanches, frost creep, and runoff. Larger plants may alter local patterns of debris movement and deposition, damming cascading debris on their upslope side and deflecting sediments laterally to plant margins, where they form narrow elongated stone stripes.     

The DEEP2 Galaxy Redshift Survey: the red sequence AGN fraction and its environment and redshift dependence

We measure the dependence of the active galactic nuclei (AGN) fraction on local environment at   z ∼ 1  , using spectroscopic data taken from the DEEP2 Galaxy Redshift Survey, and Chandra X-ray data from the All-Wavelength Extended Groth Strip International Survey (AEGIS). To provide a clean sample of AGN, we restrict our analysis to the red sequence population; this also reduces additional colour–environment correlations. We find evidence that high-redshift LINERs in DEEP2 tend to favour higher density environments relative to the red population from which they are drawn. In contrast, Seyferts and X-ray selected AGN at   z ∼ 1  show little (or no) environmental dependencies within the same underlying population. We compare these results with a sample of local AGN drawn from the Sloan Digital Sky Survey (SDSS). Contrary to the high-redshift behaviour, we find that both LINERs and Seyferts in the SDSS show a slowly declining red sequence AGN fraction towards high-density environments. Interestingly, at   z ∼ 1  red sequence Seyferts and LINERs are approximately equally abundant. By   z ∼ 0  , however, the red Seyfert population has declined relative to the LINER population by over a factor of ∼4.5. We speculate on possible interpretations of our results.     

Ostracods as tsunami tracers in Holocene sequences

This review analyses the ostracod record in Holocene tsunami deposits, using an overview of the 2004 Indian Ocean tsunami impact on its recent populations and the associated tsunamigenic deposits, together with results from numerous investigations of other Holocene sequences. Different features such as the variability of the local assemblages, population density, species diversity, age population structure (e.g., percentages of adults and juvenile stages) or taphonomical signatures suggest that these microorganisms may be included amongst the most promising tracers of these high-energy events in marshes, lakes, lagoons or shallow marine areas.