Multi-scale factors affecting bird use of isolated remnant oak trees in agro-ecosystems

With recent emphasis on sustainable agriculture, conservation of native biota within agricultural systems has become a priority. Remnant trees have been hypothesized to increase biological diversity in agro-ecosystems. We investigated how remnant Oregon white oak (Quercus garryana) trees contribute to conserving bird diversity in the agro-ecosystem of the Willamette Valley, Oregon, USA. We compared bird use of isolated oak trees in three landscape contexts - croplands, pastures, and oak savanna reserves - and ranked the relative importance of four factors thought to influence bird use of individual trees: (i) tree architecture; (ii) tree isolation; (iii) tree cover in the surrounding landscape; and (iv) landscape context, defined as the surrounding land use. We evaluated species-specific responses and four community-level responses: (i) total species richness; (ii) richness of oak savanna-associates; (iii) tree forager richness; and (iv) aerial and ground forager richness. We documented 47 species using remnant oaks, including 16 species typically occurring in oak savanna. Surprisingly, landscape context was unimportant in predicting frequency of use of individual trees. Tree architecture, in particular tree size, and tree cover in the surrounding landscape were the best predictors of bird use of remnant trees. Our findings demonstrate that individual remnant trees contribute to landscape-level conservation of bird diversity, acting as keystone habitat structures by providing critical resources for species that could not persist in otherwise treeless agricultural fields. Because remnant trees are rarely retained in contemporary agricultural landscapes in the United States, retention of existing trees and recruitment of replacement trees will contribute to regional conservation goals.     

Amending Soil with Sludge,Manure, Humic Acid,Orthophosphate and Phytic Acid: Effects on Infiltration,Runoff and Sediment Loss

Application of organic wastes to cultivated lands can replace mineral fertilizers but may also alter soil physical properties and enhance pollution potential. The objective of this study was to investigate the effects of biosolids [composted manure (MC) and activated sludge (AS)] and specific biosolid component [orthophosphate (OP), phytic acid (PA) and humic acid (HA)] application on soils differing in texture [loamy‐sand (Ramat‐HaKovesh, RH), loam (Gilat, GL) and clay (Bet‐Dagan, BD)], infiltration rate, runoff volume and soil sediment loss. The soils were packed in erosion boxes (400 × 200 × 40 mm) and subjected to six consecutive simulated rainstorms, each of 186 mm deionized water. The results showed that runoff volume and sediment loss from untreated soils increased with increasing clay contents. In treated soils, the response to AS application differed from the response to other amendments; in the BD clay and GL loam, it was the only amendment that caused a decrease in sediment removed by runoff. In the RH loamy‐sand, all amendments reduced the final infiltration rate, but only AS and HA increased the measured runoff. It is proposed that the difference in the response of the soils to the amendments is associated with the soil's ability to attenuate changes in the negative charge on the clay edges following the increase in the specific adsorption of charged anions, thus controlling clay swelling and maintaining aggregate integrity. The effects of amending soils with a source of organic matter in order to control runoff and soil erosion are not straight forward and depend on soil and amendment properties. Copyright © 2015 John Wiley & Sons, Ltd.     

Enzymatic coupling of cholesterol intermediates to a mating pheromone precursor and to the ras protein

The post-translational processing of the yeast a-mating pheromone precursor, Ras proteins, nuclear lamins, and some subunits of trimeric G proteins requires a set of complex modifications at their carboxyl termini. This processing includes three steps: prenylation of a cysteine residue, proteolytic processing, and carboxymethylation. In the yeast Saccharomyces cerevisiae, the product of the DPR1-RAM1 gene participates in this type of processing. Through the use of an in vitro assay with peptide substrates modeled after a presumptive a-mating pheromone precursor, it was discovered that mutations in DPR1-RAM1 cause a defect in the prenylation reaction. It was further shown that DPR1-RAM1 encodes an essential and limiting component of a protein prenyltransferase. These studies also implied a fixed order of the three processing steps shared by prenylated proteins: prenylation, proteolysis, then carboxymethylation. Because the yeast protein prenyltransferase could also prenylate human H-ras p21 precursor, the human DPR1-RAM1 analogue may be a useful target for anticancer chemotherapy.     

Methylmalonic aciduria: metabolic block localization and vitamin B 12 dependency

Methylmalonic aciduria is an inborn error of metabolism characterized by neonatal or infantile ketoacidosis. Leukocytes isolated from the peripheral blood of a 1-year-old child with this disorder converted negligible quantities of propionate-3-C(14) to carbon dioxide, but oxidized succinate-1,4-C(14) normally, an indication of a block in the conversion of propionate to succinate. Parenteral administration of vitamin B(18) resulted in a reduction in methylmalonic acid excretion and an increase in propionate oxidation by leukocytes in vitro. The results suggest a mutation of methylmalonyl-CoA isomerase, a vitamin B(12), dependent enzyme which converts methylmalonyl-CoA to succinyl-CoA, and provide the first demonstration of vitamin B(12) "dependency" in man.     

Mutational inactivation of STAG2 causes aneuploidy in human cancer

Most cancer cells are characterized by aneuploidy, an abnormal number of chromosomes. We have identified a clue to the mechanistic origins of aneuploidy through integrative genomic analyses of human tumors. A diverse range of tumor types were found to harbor deletions or inactivating mutations of STAG2, a gene encoding a subunit of the cohesin complex, which regulates the separation of sister chromatids during cell division. Because STAG2 is on the X chromosome, its inactivation requires only a single mutational event. Studying a near-diploid human cell line with a stable karyotype, we found that targeted inactivation of STAG2 led to chromatid cohesion defects and aneuploidy, whereas in two aneuploid human glioblastoma cell lines, targeted correction of the endogenous mutant alleles of STAG2 led to enhanced chromosomal stability. Thus, genetic disruption of cohesin is a cause of aneuploidy in human cancer.     

Genetic structure of human populations

We studied human population structure using genotypes at 377 autosomal microsatellite loci in 1056 individuals from 52 populations. Within-population differences among individuals account for 93 to 95% of genetic variation; differences among major groups constitute only 3 to 5%. Nevertheless, without using prior information about the origins of individuals, we identified six main genetic clusters, five of which correspond to major geographic regions, and subclusters that often correspond to individual populations. General agreement of genetic and predefined populations suggests that self-reported ancestry can facilitate assessments of epidemiological risks but does not obviate the need to use genetic information in genetic association studies.     

Circumsporozoite protein heterogeneity in the human malaria parasite Plasmodium vivax

Phenotypic heterogeneity in the repetitive portion of a human malaria circumsporozoite (CS) protein, a major target of candidate vaccines, has been found. Over 14% of clinical cases of uncomplicated Plasmodium vivax malaria at two sites in western Thailand produced sporozoites immunologically distinct from previously characterized examples of the species. Monoclonal antibodies to the CS protein of other P. vivax isolates and to other species of human and simian malarias did not bind to these nonreactive sporozoites, nor did antibodies from monkeys immunized with a candidate vaccine made from the repeat portion of a New World CS protein. The section of the CS protein gene between the conserved regions I and II of a nonreactive isolate contained a nonapeptide repeat, Ala-Asn-Gly-Ala-Gly-Asn-Gln-Pro-Gly, identical at only three amino acid positions with published nonapeptide sequences. This heterogeneity implies that a P. vivax vaccine based on the CS protein repeat of one isolate will not be universally protective.     

A comparison of North American avian conservation priority ranking systems

The need to prioritize species based on their perceived endangerment has led to the development of systems for categorizing and assessing their degree of vulnerability. Systems with divergent biological and geographical scopes can result in conflicting lists of high-priority species, potentially confusing conservationists and hampering the efficient allocation of resources. To assess conservation priorities for North American birds, we compare three priority-setting systems; those of the International Union for the Conservation of Nature (IUCN), NatureServe, and Partners in Flight (PIF). We found highest correspondence among the three systems in the highest and lowest categories of the respective systems with lower levels of correspondence in intermediate categories. We suggest that this is because the systems, while using different formulations of criteria, are based on the major factors known to be correlated with extinction risk. The few examples of species listed as a high conservation priority by one group but not one or both of the others appear to be the result of differences in availability or interpretation of data. Better communication and collaboration among those responsible for compiling the priority lists for each system is needed.A primary difference among the systems was the total number of species identified as conservation priorities. IUCN identified the fewest species (47) and PIF the most (157). This difference is the result of differences in geographic and taxonomic scope of each system. However, when considered as the percent of the total number of taxa evaluated by each system, all systems identified approximately 20% of species as of conservation concern. To reconcile disparate lists, we urge that conservationists use a hierarchical approach that first considers species that meet thresholds for endangerment under global systems, followed by species considered most vulnerable relative to all continental biota.     

Water use efficiency in a soybean field: influence of plant water stress

Measurements were made in 1980 over a fully-developed soybean (Glycine max (L.) Merrill) canopy at Mead, Nebraska to determine how crop water status influences photosynthesis, evapotranspiration and water use efficiency. Water use efficiency was calculated in terms of the CO₂—water flux ratio (CWFR). Micrometeorological techniques were used to measure the exchange rates of CO₂ and water vapor above the crop canopy. Crop water status was evaluated by reference to volumetric soil moisture (θ_v), stomatal resistance (r_s), and leaf water potential (ψ) measurements.Stomatal resistance (r_s) was independent of ψ when the latter was greater than ?1.1 MPa. r_s increased sharply as ψ dropped below this threshold. Canopy CO₂ exchange (F_c) decreased logarithmically with increasing r_s under strong irradiance. Although F_c was found to be strongly correlated with r_s, the influence of low values of ψ and of high air temperature cannot be discounted since these factors affect the enzymatic reactions associated with photosynthesis. Stomatal closure also reduced evapotranspiration and influenced the partitioning of net radiation.Under strong irradiance the CO₂ water flux ratio (CWFR) decreased with increasing stomatal resistance. This observation is at variance with predictions of certain early ‘resistance’ models, but substantiates predictions of some recent models in which leaf energy balance considerations are incorporated.