Linking colonies to fisheries: Spatio-temporal overlap between common murres (Uria aalge) from Tatoosh Island and coastal gillnet fisheries in the Pacific Northwest, USA

The population-level impact of seabird bycatch is difficult to assess because colony-of-origin is often unknown. As an alternative and complementary approach to ship-derived observations, we assessed the relative potential for bycatch of a known seabird population by quantifying spatio-temporal overlap with local fisheries. Common murres (Uria aalge) have been reported as the most abundant seabird inadvertently caught in Washington and British Columbia coastal gillnet fisheries. In 1999-2001, we tracked 48 common murres from Tatoosh Island, the closest colony to the fisheries, during post-breeding. Using capture-mark-recapture models, we estimated weekly murre movement probabilities to/from three strata (offshore of, centered around, and inshore of Tatoosh Island). Based on movement probabilities and population size, we projected strata- and week-specific murre abundance. We created an index of overlap by calculating the product of murre abundance × gillnet fishing effort as a function of strata and time. The majority of murres (80%) moved inshore, where fishing effort was consistently the highest, suggesting that up to 4000 Tatoosh murres were vulnerable to bycatch. Index scores in the inshore stratum were 5-25 times higher relative to the offshore and Tatoosh strata, respectively. Overlap was sensitive to phenology, as index scores increased by 50% when dispersal was shifted four weeks earlier, while a two weeks delay decreased scores by 20%. Until the long-term impact of cumulative mortality in gillnet fisheries is determined, we believe a precautionary approach is warranted in the inshore stratum where the potential for bycatch was highest. We advocate the use of visible netting in inshore fisheries, a proven solution that reduces murre bycatch while maintaining fishing efficiency.     

Structures of the CXCR4 chemokine GPCR with small-molecule and cyclic peptide antagonists

Chemokine receptors are critical regulators of cell migration in the context of immune surveillance, inflammation, and development. The G protein-coupled chemokine receptor CXCR4 is specifically implicated in cancer metastasis and HIV-1 infection. Here we report five independent crystal structures of CXCR4 bound to an antagonist small molecule IT1t and a cyclic peptide CVX15 at 2.5 to 3.2 angstrom resolution. All structures reveal a consistent homodimer with an interface including helices V and VI that may be involved in regulating signaling. The location and shape of the ligand-binding sites differ from other G protein-coupled receptors and are closer to the extracellular surface. These structures provide new clues about the interactions between CXCR4 and its natural ligand CXCL12, and with the HIV-1 glycoprotein gp120.     

Seasonal and long-term resource-related variations in soil microbial communities in wheat-based rotations of the Canadian prairie

Like all other living organisms, microorganisms depend on nutrients, carbon and energy. Since microorganisms are central to most soil processes, the sustainable management of agricultural soils may need to consider the impact of soil fertility management on the soil microbial community. We tested the hypothesis that different rates of N and P fertilizers, and cropping frequency (modifying C input to soil) influence the size, structure and physiological condition of soil microbial populations residing in the plough layer (top 7.5 cm). For this study, we used a 37-yr old long-term wheat-based rotation experiment located in the semiarid Brown soil zone of Saskatchewan. The experiment included (1) four input treatments: (i) no N or (ii) no P fertilizer application to wheat (Triticum aestivum L.) grown in fallow-wheat-wheat (F-W-W) rotations, and (iii) recommended rates of both N and P fertilizer applied to fallow-wheat (F-W) and (iv) to F-W-W; (2) two rotation phases: fallow and wheat-after-fallow; and (3) four sampling times: 8 June, 4 July, 5 August and 16 September 2003. Increased partitioning into storage lipids of the arbuscular mycorrhizal fungi (AMF) fatty acid methyl ester (FAME) biomarker 16:1ω5 (P=0.04), suggested the accumulation of storage material under low soil N availability. Discriminant analysis detected modifications in soil microbial community structure due to cropping frequency (P=0.001) and sampling time, the effect of which was different in the fallow (P<0.0001) and wheat-after-fallow (P<0.0001) phases of the rotations. Correlation analysis of soil variables conducted in plots growing wheat revealed a dual effect of plants, which stimulated active soil microbial biomass (SMB), possibly through the release of soluble extractable C (C_sol−ext) in soil and, at the same time, SMB competed with wheat for soil water and N. The 37 y of different nutrient input treatments had no effect upon the active soil microbial biomass according to PLFA measurements, despite changes in soil resource-related variables (soil water potential, soil PO₄-P and NO₃-N fluxes, and C_sol−ext concentrations) (P?0.003). The biomass of each of three microbial populations monitored was lowest on 4 July, when the amounts of the soil resources monitored were average, and greatest on 5 August, when N, P and soil moisture availability was lowest. The temporal effect on the biomass of microbial populations seemed unrelated to variation in nutrient or water availability. We conclude that the soil microbial community is adaptable to a wide range of soil conditions. We propose therefore that the occurrence of sudden and dramatic events, such as a heavy rainfall on a dry soil, is the most important determinant of seasonal variation in active soil microbial biomass.     

From forest to fen: Microarthropod abundance and litter decomposition in a southern Appalachian floodplain/fen complex

Our study compared decomposition and litter microarthropod abundance among five plant communities in a mountain floodplain/fen complex located in the southern Appalachian Mountains, USA. We found that the least disturbed plant communities, red maple in particular, have the quickest decomposition, the greatest number of litter microarthropods, the highest soil organic carbon, and the lowest soil pH. Positive correlations were shown between soil organic carbon and total microarthropods; negative correlations were found between soil pH and total microarthropods. No correlations were found between soil moisture and decomposition or total microarthropod numbers. We conclude that soil characteristics related to disturbance, rather than to the presence of a closed canopy, are the main influences on decomposition and litter microarthropods.     

Linking stakeholder research needs and the Federal Data Quality Act: A case study of an endangered forest shrub in the southeastern United States

The need for knowledge, ranging from development of new products or processes to the effects of specific actions on the environment, is greater now than at any point in the past. The greater need for research has generated stakeholder involvement in the research process. As a result, all facets of research, from planning through publication of results, are often scrutinized by stakeholders. While the basic nature of scientific inquiry has not changed, now more than ever the credibility of scientific results is based on thorough planning, peer reviews of experimental designs and analytical approaches, and assurance that data are of the highest quality. Public interest in the quality and accuracy of federal research rose to a level that resulted in the Data Quality Act of 2001. The Act required the establishment of guidelines for Federal research organizations and cooperators. We present a case study of the U. S. Forest Service's policies for research quality assurance and quality control, including developing quality assurance statements and plans, as applied to comprehensive research on the federally-listed, endangered forest shrub pondberry (Lindera melissifolia (Walt.) Blume).     

Assessment of a channel catfish population in a large open river system

Estimates of dynamic rate functions for riverine channel catfish, Ictalurus punctatus (Rafinesque), populations are limited. The open nature and inherent difficulty in sampling riverine environments and the propensity for dispersal of channel catfish impede estimation of population variables. However, contemporary population models (i.e. robust design models) can incorporate the open nature of these systems. The purpose of this study was to determine channel catfish population abundance, survival and size structure and to characterise growth in the lower Platte River, Nebraska, USA. Annual survival estimates of adult channel catfish were 13%–49%, and channel catfish abundance estimates ranged from 8,281 to 24,261 fish within a 10‐km sampling reach. Channel catfish were predominantly (90%) <age 5 and <400 mm total length, and adult growth was similar to other populations across the species’ range. The channel catfish population characteristics in the lower Platte River are likely a result of a combination of factors including recreational harvest and potential shifts in habitat during different life stages. A multifaceted sampling and analytical approach provided additional information such as movement and abundance estimates and may also help to decipher abiotic and biotic factors that interact when managing fish populations in riverine environments.     

Buying in: the influence of interactions at farmers’ markets

Many consumers are motivated to attend Farmers’ Markets (FMs) because of the opportunity to purchase fresh and local products. The subsequent interactions at FMs provide an important pathway for the direct exchange of information. While previous research suggests that people value local food and the FM shopping experience and that purchasing directly from producers can lead to transformative learning, little is known about exactly how the shopping experience at FMs can influence consumer purchasing behavior. This study examines the extent of and mechanism for such “influencing.” Using data from surveys, observations, and interviews gathered at six FMs, we analyze the interactions between consumers and vendors, including the motivations and values of both parties. We explore the question, “How do farmers’ markets facilitate change in consumer purchasing behavior?” We propose that the dynamic of change in consumer purchasing behavior at FMs takes root in the exchange of information between consumers and vendors during interactions. Our results suggest that there are three specific characteristics shared by FM consumers and vendors that lead to these meaningful interactions at FMs: symmetry of motivations to attend FMs, shared values, and mutual dependence on interactions. Then, when a consumer learns new information from a FM vendor during an interaction, the consumer is more likely to make a change in their immediate purchase. Information about the products for sale and the modes of production of those items can especially impact consumers’ immediate purchases at FMs. We found that FM interactions can also impact long-term purchasing behavior, such as purchasing more organic or locally produced foods. Our results suggest that FM interactions may have significant implications for consumer health, local economies, and the environment.     

PCR detection and characterization of type-2 porcine circovirus.

A polymerase chain reaction (PCR) assay was developed for detecting porcine circovirus (PCV). The assay readily detected type-2 PCV (PCV-2) and type-1 PCV (PCV-1). The PCR primers were designed based on DNA sequences conserved in all reported PCV genomes. Type 1 PCV and type 2 PCV both produced 438 bp amplification products, which were easily identified and differentiated from one another by restriction fragment length polymorphism (RFLP) analysis. Porcine circovirus was detected in 55% (931/1693) of randomly tested pigs with various clinical signs and lesions, most of which were difficult to differentiate from those associated with porcine reproductive and respiratory syndrome (PRRS). The PCR products from all positive clinical samples were identified by RFLP to be only PCV-2; DNA tested by PCR was extracted directly from one or more of lung, mesenteric or mediastinal lymph nodes, and tonsil. Type 2 PCV was also detected in 6% (2/34) of DNA extracted directly from semen of randomly chosen healthy boars. Positive PCR reactions from 554 diseased pigs were characterized by RFLP and categorized into 5 different profiles (A-E), of which 82.8% were PCV-2A (456/554), 3.0% were PCV-2B (17/554), 9.9% were PCV-2C (55/554), 1.1% were PCV-2D (6/554), and 3.2% were PCV-2E (18/554). The complete genomic nucleotide sequences of PCV-2A, B, C, D, and E were determined and found to have at least 95% homology compared with one another and with all other PCV-2 found in the GenBank database. All PCV-2 had less than 76% homology with PCV-1. This PCR assay will hopefully be useful to veterinary diagnostic laboratories for routine testing and surveillance of infection with PCV-2. The RFLP profiling system might be useful for preliminary characterization and identification of PCV isolates and might also benefit studies on the molecular epidemiology of PCV.     

Analytical determination of the distribution of flumethrin on the body surface of cattle following topical pour-on application.

By means of chemical analysis, the distribution behaviour of flumethrin was determined in the hair coat of cattle following topical pour-on application. Flumethrin was applied at 1 mg active ingredient (a.i.) kg-1 body weight along the backline of cattle. It was demonstrated that this compound could be recovered from all hair samples taken on Day 1 following application from dorsal, lateral, ventral and distal body regions in concentrations ranging from 670 to 1 micrograms a.i. g-1 hair, depending on the distance from the site of application. On Days 3, 5 and 10 after treatment, the corresponding concentrations were 125.0-1.5, 23.0-1.0, and 44.0-0.9 micrograms a.i. g-1 hair, respectively. When correlating these values to the body surface of cattle, it is evident that on all sample days and body regions, a concentration of more than 0.01 microgram a.i. cm-2 body surface was present. This amount of active substance is sufficient for effective acaricidal action, as shown by laboratory and field data.