Accurate multiplex polony sequencing of an evolved bacterial genome

We describe a DNA sequencing technology in which a commonly available, inexpensive epifluorescence microscope is converted to rapid nonelectrophoretic DNA sequencing automation. We apply this technology to resequence an evolved strain of Escherichia coli at less than one error per million consensus bases. A cell-free, mate-paired library provided single DNA molecules that were amplified in parallel to 1-micrometer beads by emulsion polymerase chain reaction. Millions of beads were immobilized in a polyacrylamide gel and subjected to automated cycles of sequencing by ligation and four-color imaging. Cost per base was roughly one-ninth as much as that of conventional sequencing. Our protocols were implemented with off-the-shelf instrumentation and reagents.     

Pharmacokinetics and pharmacodynamics of furosemide after oral administration to horses

Furosemide is the most common diuretic drug used in horses. Furosemide is routinely administered as IV or IM bolus doses 3-4 times a day. Administration PO is often suggested as an alternative, even though documentation of absorption and efficacy in horses is lacking. This study was carried out in a randomized, crossover design and compared 8-hour urine volume among control horses that received placebo, horses that received furosemide at 1 mg/kg PO, and horses that received furosemide at 1 mg/kg IV. Blood samples for analysis of plasma furosemide concentrations, PCV, and total solids were obtained at specific time points from treated horses. Furosemide concentrations were determined by reversed-phase high-performance liquid chromatography with fluorescent detection. Systemic availability of furosemide PO was poor, erratic, and variable among horses. Median systemic bioavailability was 5.4% (25th percentile, 75th percentile: 3.5, 9.6). Horses that received furosemide IV produced 7.4 L (7.1, 7.7) of urine over the 8-hour period. The maximum plasma concentration of 0.03 microg/mL after administration PO was not sufficient to increase urine volume compared with control horses (1.2 L [1.0, 1.4] PO versus 1.2 L [1.0, 1.4] control). There was a mild decrease in urine specific gravity within 1-2 hours after administration of furosemide PO, and urine specific gravity was significantly lower in horses treated with furosemide PO compared with control horses at the 2-hour time point. Systemic availability of furosemide PO was poor and variable. Furosemide at 1 mg/kg PO did not induce diuresis in horses.     

Integrated pest management approach for a new pest, Lacanobia subjuncta (Lepidoptera: Noctuidae), in Washington apple orchards

Bioassays of Lacanobia subjuncta (Grote and Robinson) larvae established baseline LC50 values and identified the potential of reduced-risk, organophosphate replacement and naturally derived insecticides (eg chloronicotinyls, spinosyns, oxadiazines, insect growth regulators, microbial insecticides and particle films) to control this pest. The toxicities of these products were compared with those of organophosphate, carbamate, chlorinated cyclodiene and synthetic pyrethroid insecticides used in the management of lepidopteran pests in Washington apple orchards. Field trials were conducted comparing candidate insecticides to conventional alternatives. Several new insecticides (eg spinosad, methoxyfenozide, indoxacarb and an aluminosilicate particle film) proved to be effective for the management of L subjuncta. We summarize the goals and challenges of developing an integrated pest management program for new and resurgent pests as insecticide tools continue to change, and propose a hypothesis for the sudden increase in pest status of L subjuncta based on organophosphate tolerances. The role of novel insecticides with unique modes of action in resistance management and the encouragement of biological control are also discussed.     

Clinical field study of the safety and efficacy of spinosad chewable tablets for controlling fleas on dogs

Preliminary Studies showed spinosad to be rapidly effective and safe in controlling fleas on dogs. To validate these studies, a clinical trial was undertaken using 470 flea-infested client-owned dogs allocated to receive three monthy treatments with either beef-flavored chewable spinosad tablets (30-60 mg/kg) or selamectin applied to label instructions. Flea counts 15 days after enrollment were reduced by 98.6% and 90.9% for spinosad- and selamectin-treated dogs, respectively; at 90 days, flea count reductions were 99.9% and 98.9%, respectively. Compared with baseline, all flea reductions were significant (P less than .001) for both products and spinosad was significantly (P less than or equal to .0172) more effective than selamectin at each postenrollment flea count.     

Towards a better mechanistic understanding of edge effects

Context

Predicting and managing edge effects requires an understanding of the mechanisms that drive them. However, analytical methods that dominate edge effects research are not well suited to discriminating mechanisms, because they do not measure ‘indirect’ edge effects: effects that are mediated by covariates in statistical models.

Objective

To discuss the value of indirect effects for improving mechanistic understanding of edge effects.

Methods

We explain how measuring indirect effects improves mechanistic understanding, and provide guidance on how to do so. We also conduct a literature review to examine awareness of indirect effects in empirical studies of mechanisms underpinning edge effects. Finally, we use a recent paper in Villaseñor et al. (Landscape Ecol 30:229–245, 2015) as a case study to discuss how failure to measure indirect edge effects may limit mechanistic understanding.

Results

Indirect effects provide a means to translate conceptual models of edge effects into mechanistic pathways that are testable and quantifiable. Moreover, failure to measure indirect edge effects can result in impacts of habitat edges being underestimated. However, few studies that we identified in our literature review quantified indirect effects (7 %, n = 72). Worryingly, 11 % of studies did not account for indirect effects despite using statistical models that potentially contained them, possibly resulting in incorrect inference.

Conclusions

A better awareness of indirect effects will help researchers to understand the mechanisms that underpin edge effects, while ensuring that impacts of habitat edges are not underestimated.

     

The Effect of Wildfire on Soil Mercury Concentrations in Southern California Watersheds

Mercury (Hg) stored in vegetation and soils is known to be released to the atmosphere during wildfires, increasing atmospheric stores and altering terrestrial budgets. Increased erosion and transport of sediments is well-documented in burned watersheds, both immediately post-fire and as the watershed recovers; however, understanding post-fire mobilization of soil Hg within burned watersheds remains elusive. The goal of the current study is to better understand the impact of wildfire on soil-bound Hg during the immediate post-fire period as well as during recovery, in order to assess the potential for sediment-driven transport to and within surface waters in burned watersheds. Soils were collected from three southern California watersheds of similar vegetation and soil characteristics that experienced wildfire. Sampling in one of these watersheds was extended for several seasons (1.5 years) in order to investigate temporal changes in soil Hg concentrations. Laboratory analysis included bulk soil total Hg concentrations and total organic carbon of burned and unburned samples. Soils were also fractionated into a subset of grain sizes with analysis of Hg on each fraction. Low Hg concentrations were observed in surface soils immediately post-fire. Accumulation of Hg coincident with moderate vegetative recovery was observed in the burned surface soils 1 year following the fire, and mobilization was also noted during the second winter (rainy) season. Hg concentrations were highest in the fine-grained fraction of unburned soils; however, in the burned soils, the distribution of soil-bound Hg was less influenced by grain size. The accelerated accumulation of Hg observed in the burned soils, along with the elevated risk of erosion, could result in increased delivery of organic- or particulate-bound Hg to surface waters in post-fire systems.     

Environmental System Analysis for River Pollution Control

This paper presents a new tool, developed with the aim of assessing the environmental impact from industrial effluents and sewage systems in Hanumante River and to recommend the finest procedures to control water pollution so as to improve the water quality of Hanumante River using environmental system analysis. Hanumante River is heavily polluted due to inefficient management resulting in water-associated problems. The time horizon for this study is from 2000 to 2030, yearly, and the spatial boundary is considered to be Hanumante River, Bhaktapur, Nepal. The stakeholder, function, and scenario analyses are employed as three tools for study. The participation of main stakeholders aids in resolving their various conflicting interests in Hanumante River, thus creating a common understanding about the crisis under study. A complete functional analysis illustrates various functions fulfilled by the river and their associated services. Based on the interests of the stakeholders and their priorities, two alternatives resulting in four scenarios are identified and ranked against four selected criteria. A combination of improved industrial technology and efficient municipal waste management gives the best solution to the pollution problem in Hanumante River. Different alternative themes have corresponding effects on the selected criteria. The choice is in the hands of the decision makers of Bhaktapur City. The outcome of this paper will ultimately help decision and policy makers to analyze the environmental impact of river systems and find efficient and better-quality decision making for water resource management incorporating the knowledge and experiences of various stakeholders.