A three-dimensional model of the U1 small nuclear ribonucleoprotein particle

Most of the pre-mRNAs in the eukaryotic cell are comprised of protein-coding exons and non-protein-coding introns. The introns are removed and the exons are ligated together, or spliced, by a large, macromolecular complex known as the spliceosome. This RNA-protein assembly is made up of five uridine-rich small nuclear RNAs (U1-, U2-, U4-, U5- and U6-snRNA) as well over 300 proteins, which form small nuclear ribonucleoprotein particles (snRNPs). Initial recognition of the 5′ exon/intron splice site is mediated by the U1 snRNP, which is composed of the U1 snRNA as well as at least ten proteins. By combining structural informatics tools with the available biochemical and crystallographic data, we attempted to simulate a complete, three dimensional U1 snRNP from the silk moth, Bombyx mori. Comparison of our model with empirically derived crystal structures and electron micrographs pinpoints both the strengths and weaknesses in the in silico determination of macromolecular complexes. One of the most striking differences between our model and experimentally generated structures is in the positioning of the U1 snRNA stem-loops. This highlights the continuing difficulties in generating reliable, complex RNA structures; however, three-dimensional modeling of individual protein subunits by threading provided models of biological significance and the use of both automated and manual docking strategies generated a complex that closely reflects the assembly found in nature. Yet, without utilizing experimentally-derived contacts to select the most likely docking scenario, ab initio docking would fall short of providing a reliable model. Our work shows that the combination of experimental data with structural informatics tools can result in generation of near-native macromolecular complexes.     

Ethnobotanical review of wild edible plants in Spain

This paper compiles and evaluates the ethnobotanical data currently available on wild plants traditionally used for human consumption in Spain. Forty-six ethnobotanical and ethnographical sources from Spain were reviewed, together with some original unpublished field data from several Spanish provinces. A total of 419 plant species belonging to 67 families was recorded. A list of species, plant parts used, localization and method of consumption, and harvesting time is presented. Of the seven different food categories considered, green vegetables were the largest group, followed by plants used to prepare beverages, wild fruits, and plants used for seasoning, sweets, preservatives, and other uses. Important species according to the number of reports include: Foeniculum vulgare , Rorippa nasturtium-aquaticum , Origanum vulgare , Rubus ulmifolius , Silene vulgaris , Asparagus acutifolius , and Scolymus hispanicus . We studied data on the botanical families to which the plants in the different categories belonged, overlapping between groups and distribution of uses of the different species. Many wild food plants have also been used for medicinal purposes and some are considered to be poisonous. This review highlights the rich traditional knowledge on edible plants that has remained in rural Spain. Until recently, many wild plants were used as dietary supplements. However, most of this knowledge survives only in the memory of the elderly, and will probably disappear in a few decades.  © 2006 The Linnean Society of London, Botanical Journal of the Linnean Society , 2006, 152 , 27–71.     

Leaf waxes in Coincya Rouy (Brassicaceae)

A total of 55 populations belonging to the genus Coincya Rouy (Brassicaceae) from the Iberian Peninsula were examined for their leaf wax composition. The total wax content and the relative proportions of the five main lipid fractions, hydrocarbons, esters, ketones, free alcohols and free sterols were determined. It was observed that there was a positive correlation between chemical composition and environmental adaptation, and also with certain morphological characterS. Changes relate to low temperatures or to high relative humidity, and there is a positive correlation between chemical composition and leaf glaucosity.     

Early Cambrian coelobiontic communities in tectonically unstable crevices developed in Neoproterozoic andesites, Ossa-Morena, southern Spain

A well-preserved biota of Lower Cambrian cavity-dwelling organisms is recorded within fissures in Neoproterozoic andesites in Ossa-Morena (southern Spain). The cavities are unique among described Lower Cambrian coelobiontic communities due to the igneous character of the host rock. Coelobiontic habitat was episodically enlarged by synsedimentary tectonic fracturing reflecting polyphase infill of recurrent facies. The pioneer coelobiontic biota was diverse, and consisted of encrusting stromatolites and thromboids (dominated by Epiphyton and Renalcis), attached to walls and ceilings of the cavities, associated with archaeocyaths. Sponge spicules and chancelloriid sclerites occur as dense clusters indicating in situ growth, death and decay of spiculate sponges and coeloscleritophorans. Other organisms, such as echinoderms, trilobites and brachiopods, are also found within the cavities as reworked skeletons, indicating that they were washed in from the overlying, open seafloor. The main feature of the coelobiontic biota is the dominance of a sessile, chemosynthetic and filter-feeding epibenthos, composed of microbial communities, archaeocyaths, spiculate sponges (demosponges and rarer hexactinellides) and coeloscleritophorans.     

Influence of temporal fluctuations in seed abundance on the foraging behaviour of harvester ants (Pogonomyrmex spp.) in the central Monte desert,Argentina

The simultaneous study of the temporal dynamics of foraging behaviour, diet and seed abundance is essential to assess the way in which resources affect the behaviour and ecology of harvester ants. Here, we evaluate how fluctuations in grass seed abundance during three consecutive growing seasons influenced the foraging behaviour and diet of the harvester ants Pogonomyrmex rastratus, P. mendozanus and P. inermis in the central Monte desert, Argentina. Seed abundance of the most consumed grasses varied greatly through ant activity season, and ants altered their foraging behaviour in response to those changes. Foragers spent more time travelling and searching for food, and their foraging trips took longer during the low seed availability season. Foraging distance was very similar among species and, contrary to our expectations, did not vary between seasons. Foraging success of P. rastratus and P. inermis increased during the high availability season. This matched the seasonal pattern of foraging activity, suggesting that colonies may detect seed abundance and regulate their foraging effort with the rate of forager success. Although grass seeds were the main item in the diet of the three species, P. mendozanus, and to a lesser extent P. rastratus, turned more generalist when grass seeds were scarce. In contrast, P. inermis showed a very narrow diet breadth, only harvesting grass seeds in both seasons. Our results indicate the relevance of seed availability on foraging behaviour of harvester ants, which should be taken into account when predicting and evaluating the effect of ants on seed resources as well as numerical responses of harvester ant populations to the temporal and spatial variations in grass seed abundance.     

Size-fractionated phytoplankton biomass and its implications for the dynamics of an oligotrophic tropical lake

1. Size-fractionated phytoplankton biomass was examined in relation to the hydrodynamics of tropical Lake Alchichica from 1999 to 2002.
2. Alchichica is a warm monomictic lake, in which mixing takes place from late December to early March. The lake is oligotrophic (mean total chlorophyll- a concentration 4.2 ± 4.2  μ g L⁻¹) and its phytoplankton biomass is dominated (72.3 ± 16.4%) by large individuals (>2  μ m). The degree of dominance of the large size class (nano- and microplankton) over the small size class (picoplankton) throughout the year is mainly determined by the availability of silicate and the Si/N ratio in the hypolimnion prior to the mixing period.
3. This is the first record of an oligotrophic tropical lake dominated by large size fractions of phytoplankton. Because of this dominance, the fate of most primary productivity is rapid sedimentation to the bottom followed by decomposition that promotes an anoxic hypolimnion.
4. Our findings in tropical Lake Alchichica challenge the idea that oligotrophic waters are dominated by small phytoplankton, as has been well established for the oligotrophic ocean and temperate lakes.     

Origin and evolution of the endemic Macaronesian Inuleae (Asteraceae): evidence from the internal transcribed spacers of nuclear ribosomal DNA

The tribe Inuleae (Asteraceae) has 10 species endemic to the Macaronesian islands, including the three endemic genera Allagopappus, Schizogyne, and Vierea. Phylogenetic analyses of DNA sequence data from the internal transcribed spacers (ITS) of the nuclear ribosomal DNA of 47 taxa were performed using all Macaronesian endemics and representative species from 21 of the 36 genera of the Inuleae. The resulting ITS phylogeny reveals that Allagopappus is sister to a large clade that contains all genera with a predominantly Mediterranean distribution. This finding suggests that Allagopappus may represent an ancient lineage that found refuge in the Canary Islands following the major climatic and/or geologic changes in the Mediterranean basin after the Tertiary. The Macaronesian endemic genus Schizogyne is sister to Limbarda from the Mediterranean. The third Macaronesian endemic genus, Vierea, is sister to Perralderia, which is restricted to Morocco and Algeria. Pulicaria canariensis is sister to P. mauritanica, a species endemic to Morocco and Algeria. In contrast, P. diffusa from the Cape Verde Islands is sister to a broadly distributed species, P. crispa, that occurs from North Africa to the Arabian peninsula. Based on the ITS data, the genera Blumea, Inula, and Pulicaria are not monophyletic. The ITS trees suggested that Blumea mollis belongs to the tribe Plucheeae, a finding that is congruent with recent morphological evidence. A possible southern African origin for the core of the Laurasian taxa of the Inuleae is also suggested.