Integrating multiple techniques to identify stock boundaries of common bottlenose dolphins (Tursiops truncatus)

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Using a well‐being approach to develop a framework for an integrated socio‐economic evaluation of professional fishing

The principles of Ecologically Sustainable Development and Ecosystem Based Fisheries Management require that fisheries be managed for social as well as environmental and economic objectives. Comprehensive assessments of the success of fisheries in achieving all three objectives are, however, rare. There are three main barriers to achieving integrated assessments of fisheries. Firstly, disciplinary divides can be considered “too hard” to bridge with inherent conflicts between the predominately empirical and deductive traditions of economics and biophysical sciences and the inductive and interpretative approach of much of the social sciences. Secondly, understanding of the social pillar of sustainability is less well developed. And finally, in‐depth analysis of the social aspects of sustainability often involves qualitative analysis and there are practical difficulties in integrating this with largely quantitative economic and ecological assessments. This article explores the social well‐being approach as a framework for an integrated evaluation of the social and economic benefits that communities in New South Wales, Australia, receive from professional fish harvesting. Using a review of existing literature and qualitative interviews with more than 160 people associated with the fishing industry the project was able to identify seven key domains of community well‐being to which the industry contributes. Identification of these domains provided a framework through which industry contributions could be further explored, through quantitative surveys and economic analysis. This framework enabled successful integration of social and economic, and both qualitative and quantitative information in a manner that enabled a comprehensive assessment of the value of the fishery.     

Tryptophan-accelerated electron flow through proteins

Energy flow in biological structures often requires submillisecond charge transport over long molecular distances. Kinetics modeling suggests that charge-transfer rates can be greatly enhanced by multistep electron tunneling in which redox-active amino acid side chains act as intermediate donors or acceptors. We report transient optical and infrared spectroscopic experiments that quantify the extent to which an intervening tryptophan residue can facilitate electron transfer between distant metal redox centers in a mutant Pseudomonas aeruginosa azurin. Cu(I) oxidation by a photoexcited Re(I)-diimine at position 124 on a histidine(124)-glycine(123)-tryptophan(122)-methionine(121) beta strand occurs in a few nanoseconds, fully two orders of magnitude faster than documented for single-step electron tunneling at a 19 angstrom donor-acceptor distance.     

Effects of long-term administration of enalapril on clinical indicators of renal function in dogs with compensated mitral regurgitation

OBJECTIVE: To determine the effect of long-term administration of enalapril on renal function in dogs with severe, compensated mitral regurgitation. DESIGN: Randomized controlled trial. ANIMALS: 139 dogs with mitral regurgitation but without overt signs of heart failure. PROCEDURE: Dogs were randomly assigned to be treated with enalapril (0.5 mg/kg [0.23 mg/lb], PO, q 24 h) or placebo, and serum creatinine and urea nitrogen concentrations were measured at regular intervals for up to 26 months. RESULTS: Adequate information on renal function was obtained from 132 dogs; follow-up time ranged from 0.5 to 26 months (median, 12 months). Mean serum creatinine and urea nitrogen concentrations were not significantly different between dogs receiving enalapril and dogs receiving the placebo at any time, nor were concentrations significantly different from baseline concentrations. Proportions of dogs that developed azotemia or that had a +/- 35% increase in serum creatinine or urea nitrogen concentration were also not significantly different between groups. Conclusions: And Clinical Relevance: Results suggest that administration of enalapril for up to 2 years did not have any demonstrable adverse effects on renal function in dogs with severe, compensated mitral regurgitation.     

APOBEC-mediated editing of viral RNA

Retroviral DNA can be subjected to cytosine-to-uracil editing through the action of members of the APOBEC family of cytidine deaminases. Here we demonstrate that APOBEC-mediated cytidine deamination of human immunodeficiency virus (HIV) virion RNA can also occur. We speculate that the natural substrates of the APOBEC enzymes may extend to RNA viruses that do not replicate through DNA intermediates. Thus, cytosine-to-uracil editing may contribute to the sequence diversification of many viruses.     

RNA recognition and cleavage by a splicing endonuclease

The RNA splicing endonuclease cleaves two phosphodiester bonds within folded precursor RNAs during intron removal, producing the functional RNAs required for protein synthesis. Here we describe at a resolution of 2.85 angstroms the structure of a splicing endonuclease from Archaeglobus fulgidus bound with a bulge-helix-bulge RNA containing a noncleaved and a cleaved splice site. The endonuclease dimer cooperatively recognized a flipped-out bulge base and stabilizes sharply bent bulge backbones that are poised for an in-line RNA cleavage reaction. Cooperativity arises because an arginine pair from one catalytic domain sandwiches a nucleobase within the bulge cleaved by the other catalytic domain.     

Ligninolytic fungi in bioremediation: extracellular enzyme production and degradation rate

Ligninolytic fungi can be used for remediation of pollutants in water and soil. Extracellular peroxidases and laccases have been shown to oxidize recalcitrant compounds in vitro but the likely significance of individual enzyme levels in vivo remains unclear. This study documents the amounts and activities of Mn-dependent peroxidase (MnP), lignin peroxidase and laccase (LAC) in various species of ligninolytic fungi grown in liquid medium and soil and their effect on degradation of polycyclic aromatic hydrocarbons (anthracene and pyrene), a polychlorinated biphenyl mixture (Delor 106) and a number of synthetic dyes. Stationary cultures of a highly degradative strain Irpex lacteus exhibited 380-fold and 2-fold increase in production of MnP and LAC, respectively, compared to submerged cultures. Addition of Tween 80 to the submerged culture increased MnP levels 260-fold. High levels of MnP correlated with efficient decolorization of Reactive Orange 16 azo dye but not of Remazol Brilliant Blue R anthraquinone dye. Degradation of anthracene and pyrene in spiked soil by straw-grown explorative mycelium of Phanerochaete chrysosporium, Trametes versicolor and Pleurotus ostreatus showed the importance of MnP and LAC levels secreted into the soil. The importance of high fungal enzyme levels for efficient degradation of recalcitrant compounds was better demonstrated in liquid media compared to the same strains growing in soil.     

No ‘home’ versus ‘away’ effects of decomposition found in a grassland-forest reciprocal litter transplant study

Plant litter often decomposes faster in the habitat from which it was derived (i.e. home) than when placed in foreign habitats (i.e. away), which has been called the home-field advantage (HFA) of litter decomposition. We tested whether the HFA of litter decomposition is driven by decomposer communities being specialized at decomposing litter in their home habitat, by reciprocally transplanting litter from grassland to early-successional forest. Unexpectedly, we found an overall disadvantage for at-home decomposition despite large differences in litter quality (lignin:N) between the two habitats. We found more evidence for habitat specialization among secondary decomposers (mites) than the primary decomposers (bacteria and fungi), suggesting that soil animals may be important in driving HFA patterns where they do exist. Grass litter decomposition in forest slowed down and became more fungal-based, while tree litter decomposition in grassland increased yet showed no shift to being bacterially-based, relative to ‘at home’ decomposition. This suggests a biological explanation for why a positive HFA was not observed. Our results highlight that both environmental context and soil biology can play an important and sometimes counter-intuitive role in modifying decomposition. A better understanding of the interaction between all three primary drivers of decomposition (the environment, litter quality and soil organisms) is necessary for reliable prediction of decomposition at global scales.