In vivo measurement of protein functional changes

Conformational changes in proteins are fundamental to all biological functions. In protein science, the concept of protein flexibility is widely used to describe protein dynamics and thermodynamic properties that control protein conformational changes. In this study, we show that urea, which has strong sedative potency, can be administered to fish at high concentrations, and that protein functional changes related to anesthesia induction can be measured in vivo. Ctenopharyngodon idellus (the grass carp) has two different types of N-methyl d-aspartate (NMDA) receptors, urea-insensitive and urea-sensitive, which are responsible for the heat endurance of fish. The urea-sensitive NMDA receptor showed high protein flexibility, the gamma aminobutyric acid (GABA) receptor showed less flexibility, and the protein that is responsible for ethanol anesthesia showed the lowest flexibility. The results suggest that an increase in protein flexibility underlies the fundamental biophysical mechanisms of volatile general anesthetics.     

A proposed CO2-controlled mechanism of woody plant invasion in grasslands and savannas

We propose that elevated CO₂ may have a significant positive effect on woody plant success and thus favour tree invasion and thickening in grass‐dominated ecosystems. We note that savanna tree biomass is strongly constrained by disturbance, particularly fire, and that elevated CO₂ could act to reduce this constraint. Our argument combines knowledge of tree recovery from injury after grassland fires, with theory about carbon acquisition and carbohydrate storage patterns in C3 woody plants in response to elevated CO₂. We propose simply that elevated CO₂ will tend to favour regrowth of juvenile trees trapped (sometimes for decades) in the ‘topkill’ zone, thus allowing them to escape more readily from periodic fires as CO₂ continues to rise. Little empirical evidence exists to test this hypothesis, even though the process may have important implications for tree/grass codominated ecosystems currently in a dynamic equilibrium.     

Assessment of potential sources of protozoan contamination between two avian feeding guilds in a conservation area

Occasional screening of food and water quality available to organisms in protected areas could be beneficial to their successful conservation. This is important for areas receiving regular human visitors and exhibiting activities that may be detrimental to ecosystem health. This study determined the intestinal protozoan species harboured by insectivorous and granivorous birds within the Jos Wildlife Park, Nigeria and whether the two avian feeding guilds are more susceptible to protozoan infection through water or food (grass seeds and insects). Special boxes were used to collect faecal samples from trapped birds. Samples were later analysed in the laboratory for protozoans. Both food and water utilised by the birds in the area were microscopically screened. The composition and abundance of intestinal protozoans between the two feeding guilds did not show significant differences. However, considering parasite species individually, the degree of infection by protozoans such as Giardia lamblia was highly related to the range of infection sources that a feeding guild was exposed to. The composition of parasites observed in the two feeding guilds was strongly linked to both water bodies and avian diet obtainable in the Park. These observations showed that birds in the Park are orally susceptible to infection with protozoans, some of which have been reported to cause health implications in birds. Thus, any measure to curtail environmental contamination by the parasites may improve ecosystem health and survival of avian species in the Park.     

Phytoremediation Effect and Growth Responses of Cynodon spp. and Agropyron desertorum in a Petroleum-Contaminated Soil

In order to compare the petroleum tolerance and phytoremediation ability of a native grass, Agropyron desertorum (desert Wheatgrass) with Cynodon spp. (Bermuda grass) in a petroleum hydrocarbon-contaminated soil, a 7-month greenhouse experiment was performed. There were 4 soil treatments with 0% (uncontaminated soil), 2%, 4%, and 12% (w_oil/w_soil) petroleum concentration. Parameters including shoot and root fresh weight and dry weight, root penetration depth and root density depth, soil respiration, and total petroleum hydrocarbons (TPH) degradation were measured during and after experiments. The results showed an increase in shoot fresh weight of A. desertorum in soil polluted with 2% petroleum sludge compared to the uncontaminated soil, whereas the growth of Bermuda grass significantly decreased in corresponding treatment. Root growth of A. desertorum was decreased in 2% and 4% petroleum sludge, whereas it was increased in Bermuda grass species. Overall, root fresh weight of Bermuda grass was higher than that of A. desertorum in all treatments. Significant increase in microorganisms' activity was observed in the presence of petroleum sludge and plants in soil compared with uncontaminated soil without plants, and the highest soil respiration (37.6 mg C-CO₂/kg soil day) has been observed in the rhizosphere of Bermuda grass in treatment with 12% petroleum sludge. Plants had a significant role in the degradation of soil contaminants as TPH degradation in planted soils was significantly higher than that in unplanted soil (TPH degradation (%) was 30.4 and 38.9 in A. desertorum and Bermuda grass, respectively, whereas it was just 13.3 in unplanted soil). The rhizosphere of Bermuda grass had significantly less residual TPHs compared to A. desertorum. The results indicated that both Cynodon spp. and A. desertorum had a peculiar tolerance to petroleum pollution. Therefore, as Bermuda grass has already been suggested to be a typical and efficient species for phytoremediating petroleum-contaminated sites, A. desertorum may also prove to be a suitable native alternative.     

Centromeric DNA characterization in the model grass Brachypodium distachyon provides insights on the evolution of the genus

Brachypodium distachyon is a well‐established model monocot plant, and its small and compact genome has been used as an accurate reference for the much larger and often polyploid genomes of cereals such as Avena sativa (oats), Hordeum vulgare (barley) and Triticum aestivum (wheat). Centromeres are indispensable functional units of chromosomes and they play a core role in genome polyploidization events during evolution. As the Brachypodium genus contains about 20 species that differ significantly in terms of their basic chromosome numbers, genome size, ploidy levels and life strategies, studying their centromeres may provide important insight into the structure and evolution of the genome in this interesting and important genus. In this study, we isolated the centromeric DNA of the B. distachyon reference line Bd21 and characterized its composition via the chromatin immunoprecipitation of the nucleosomes that contain the centromere‐specific histone CENH3. We revealed that the centromeres of Bd21 have the features of typical multicellular eukaryotic centromeres. Strikingly, these centromeres contain relatively few centromeric satellite DNAs; in particular, the centromere of chromosome 5 (Bd5) consists of only ~40 kb. Moreover, the centromeric retrotransposons in B. distachyon (CRBds) are evolutionarily young. These transposable elements are located both within and adjacent to the CENH3 binding domains, and have similar compositions. Moreover, based on the presence of CRBds in the centromeres, the species in this study can be grouped into two distinct lineages. This may provide new evidence regarding the phylogenetic relationships within the Brachypodium genus.     

The impact of livestock grazing on the spatial pattern of vegetation in north-eastern Patagonia,Argentina

Background: The occurrence of shrub patches, alternating with either bare soil or low herbaceous cover, is a common feature in arid and semi-arid shrublands throughout the world. This patchy pattern of vegetation may result from water limitation, modulated by plant interactions; grazing (offtake and tramping) by livestock may cause further patchiness vegetation structure.

Aims: We hypothesised that vegetation patchiness in the semi-arid shrublands of north-eastern Patagonia would be increased by livestock grazing, but not by positive interactions between adult plants of shrubs and grasses.

Methods: We compared vegetation cover and pattern at three grazing intensities (exclosure, light and heavy grazing) and measured the growth of a representative shrub and grass in the presence and absence of the other to quantify the role of plant-to-plant interactions and its interaction with grazing for vegetation structure.

Results: In the grazing exclosure and in moderately grazed areas, vegetation cover among shrub patches was larger, whereas the top cover of shrubs was lower than in the heavily grazed areas. We did not find any evidence of positive interactions between shrub and grass life forms.

Conclusions: Our results were consistent with the hypothesis that livestock grazing increased the formation of patchy vegetation cover in arid and semi-arid shrublands.     

Public informatics resources for rice and other grasses

As an emerging model system, rice will benefit from an informatics infrastructure which organizes genome data and makes it available worldwide. RiceGenes and other Internet-accessible resources are evolving to meet these goals. Grass crops such as rice, maize, millet, sorghum and wheat are closely related but are represented by independent database projects; interlinking these resources would create a broad view of grass genetics and make it easier to compare data across genomes. The future success of grass informatics depends on the development of new comparative mapping displays as well as the participation of the research community in assembling and curating comparative map data.     

Native Alternatives for Non-Native Turfgrasses in Central Florida: Germination and Responses to Cultural Treatments

Little information exists about the establishment of native longleaf pine flatwoods species for use in restoration efforts and as buffers around natural areas in the southeastern United States. Composition of groundcover in these systems is dominated by perennial graminoid species. Vegetation in current buffers is generally non‐native turfgrass that can escape into natural areas, often reducing establishment and survival of native species. Where management objectives involve actively restoring native groundcover or reducing the probability of invasion by these non‐native turfgrasses, identification of native species and restoration methods is needed. We investigated seed germination and establishment of four species native to longleaf pine flatwoods in central Florida and one species native to the adjacent wetland communities. Paspalum setaceum, Panicum anceps, Eustachys petraea, and Eragrostis refracta were directly seeded, and P. distichum was planted as sprigs into three former P. notatum pastures. Irrigation, fertilization, weed control, and mowing treatments were assessed in terms of cover development of the sown species. Paspalum distichum developed the highest percent cover—over 80% in wet areas after 1 year. Mowing had mixed impacts depending on the species, and fertilization never significantly increased cover. Directly seeded species developed sparse cover (0–40%), probably as a result of drought conditions. However, E. petraea and E. refracta appeared more promising for use on rights‐of‐way when using high sowing rates. A second experiment conducted on a roadside included these two species and sprigged P. distichum. Both E. petraea and P. distichum developed more than 45% cover on the roadside. Establishment of these natives from seed or sprigs was significantly enhanced when site preparation effectively reduced the seedbank of other species present in the soil.