Preservation of ancient DNA in thermally damaged archaeological bone

Evolutionary biologists are increasingly relying on ancient DNA from archaeological animal bones to study processes such as domestication and population dispersals. As many animal bones found on archaeological sites are likely to have been cooked, the potential for DNA preservation must be carefully considered to maximise the chance of amplification success. Here, we assess the preservation of mitochondrial DNA in a medieval cattle bone assemblage from Coppergate, York, UK. These bones have variable degrees of thermal alterations to bone collagen fibrils, indicative of cooking. Our results show that DNA preservation is not reliant on the presence of intact collagen fibrils. In fact, a greater number of template molecules could be extracted from bones with damaged collagen. We conclude that moderate heating of bone may enhance the retention of DNA fragments. Our results also indicate that ancient DNA preservation is highly variable, even within a relatively recent assemblage from contexts conducive to organic preservation, and that diagenetic parameters based on protein diagenesis are not always useful for predicting ancient DNA survival.     

Lead in New York City community garden chicken eggs: influential factors and health implications

Raising chickens for eggs in urban areas is becoming increasingly common. Urban chickens may be exposed to lead, a common urban soil contaminant. We measured lead concentrations in chicken eggs from New York City (NYC) community gardens and collected information on factors that might affect those concentrations. Lead was detected between 10 and 167 μg/kg in 48 % of NYC eggs. Measures of lead in eggs from a henhouse were significantly associated (p < 0.005) with lead concentrations in soil. The association between soil and egg lead has been evaluated only once before, by a study of a rural region in Belgium. In our study, the apparent lead soil-to-egg transfer efficiency was considerably lower than that found in Belgium, suggesting that there may be important geographic differences in this transfer. We developed models that suggested that, for sites like ours, lead concentrations in >50 % of eggs from a henhouse would exceed store-bought egg concentrations (<7–13 μg/kg; 3 % above detection limit) at soil lead concentrations >120 mg/kg and that the concentration in one of six eggs from a henhouse would exceed a 100 μg/kg guidance value at soil lead concentrations >410 mg/kg. Our models also suggested that the availability of dietary calcium supplements was another influential factor that reduced egg lead concentrations. Estimates of health risk from consuming eggs with the lead concentrations we measured generally were not significant. However, soil lead concentrations in this study were <600 mg/kg, and considerably higher concentrations are not uncommon. Efforts to reduce lead transfer to chicken eggs and associated exposure are recommended for urban chicken keepers.     

Introducing a common taxonomy to support learning from failure in conservation

Although some sectors have made significant progress in learning from failure, there is currently limited consensus on how a similar transition could best be achieved in conservation and what is required to facilitate this. One of the key enabling conditions for other sectors is a widely accepted and standardized classification system for identifying and analyzing root causes of failure. We devised a comprehensive taxonomy of root causes of failure affecting conservation projects. To develop this, we solicited examples of real-life conservation efforts that were deemed to have failed in some way, identified their underlying root causes of failure, and used these to develop a generic, 3-tier taxonomy of the ways in which projects fail, at the top of which are 6 overarching cause categories that are further divided into midlevel cause categories and specific root causes. We tested the taxonomy by asking conservation practitioners to use it to classify the causes of failure for conservation efforts they had been involved in. No significant gaps or redundancies were identified during this testing phase. We then analyzed the frequency that particular root causes were encountered by projects within this test sample, which suggested that some root causes were more likely to be encountered than others and that a small number of root causes were more likely to be encountered by projects implementing particular types of conservation action. Our taxonomy could be used to improve identification, analysis, and subsequent learning from failed conservation efforts, address some of the barriers that currently limit the ability of conservation practitioners to learn from failure, and contribute to establishing an effective culture of learning from failure within conservation.     

Effects of sheltering fish on growth of their host corals

Stony corals are the foundation species of tropical reefs, and their structures can harbor a diverse range of mutualist taxa that can confer important benefits, including provision of nutrients. Prominent among the associates of branching coral in the genus Pocillopora are groups of zooplanktivorous damselfishes that take refuge in the coral to avoid their predators. In field and laboratory experiments, we explored the effects of colonies of resident damselfishes on growth of their host corals. Laboratory studies revealed a positive relationship between biomass of fish and output of ammonium. In the field, levels of ammonium were significantly elevated in the water surrounding the branches of Pocillopora occupied by colonies of damselfish, particularly in time periods following active feeding by the fish. Experimental manipulation of the presence of fish on host corals during a month-long field experiment revealed that corals hosting fish grew significantly more than those that lacked fish, and coral growth was positively correlated with the biomass of resident fish. The Pocillopora colonies in the field experiment varied in the degree of openness of their branching structure, and dye studies indicated that this affected their ability to retain waterborne nutrients. Together with biomass of resident fish, colony openness explained 76% of the variation in coral growth rate during the experiment. Corals can exhibit considerable morphological variability, and mutualistic fish respond to colony architecture during habitat selection, with some species preferring more open-branched forms. This makes it likely that corals may face tradeoffs in attracting resident fish and in retaining the nutrients they provide.     

The effectiveness of katydid (<Emphasis Type="Italic">Neoconocephalus ensiger</Emphasis>) song cessation as antipredator defence against the gleaning bat <Emphasis Type="Italic">Myotis septentrionalis</Emphasis>

Many nocturnal katydids (Orthoptera: Tettigoniidae) produce intense calling songs, and some bat species use these songs to detect and locate prey. One Nearctic katydid species, Neoconocephalus ensiger, ceases or pauses singing in response to bat echolocation calls. We tested the hypothesis that song cessation is an effective defence against gleaning bats (i.e., bats that take prey from surfaces). We observed Myotis septentrionalis, a sympatric bat species that uses prey-generated sounds when gleaning, attack and feed on singing N. ensiger in an outdoor flight room. These bats demonstrated a preference for the calling song of N. ensiger over a novel cricket calling song when they were broadcast from a speaker in the flight room. Bats attacked speakers broadcasting N. ensiger calling song as long as the song was continuous and aborted their attack if the sound stopped as they approached, regardless of whether a katydid was present as a physical target on the speaker. Echolocation calls were recorded during attacks and no significant differences were found between continuous and interrupted song approaches for four call parameters, suggesting that M. septentrionalis may not use echolocation to locate silent prey. Therefore, song cessation by katydids in response to ultrasound is an effective defence against gleaning bats.     

A global empirical typology of anthropogenic drivers of environmental change in deltas

It is broadly recognized that river delta systems around the world are under threat from a range of anthropogenic activities. These activities occur at the local delta scale, at the regional river and watershed scale, and at the global scale. Tools are needed to support generalization of results from case studies in specific deltas. Here, we present a methodology for quantitatively constructing an empirical typology of anthropogenic change in global deltas. Utilizing a database of environmental change indicators, each associated with increased relative sea-level rise and coastal wetland loss, a clustering analysis of 48 global deltas provides a quantitative assessment of systems experiencing similar or dissimilar sources and degrees of anthropogenic stress. By identifying quantitatively similar systems, we hope to improve the transferability of scientific results across systems, and increase the effectiveness of delta management best practices. Both K-Means and Affinity Propagation clustering algorithms find similar clusters, with relative stability across small changes in K-Means cluster number. High-latitude deltas appear similar, in terms of anthropogenic environmental stress, to several low-population, low-latitude systems, including the Amazon delta, despite substantially different climatic regimes. Highly urbanized deltas in Southeast Asia form a distinct cluster. By providing a quantitative boundary between groups of delta systems, this approach may also be useful for assessing future delta change and sustainability given projected population growth, urbanization, and economic development trends.     

Do Conservative Media Provide a Forum for Skeptical Voices? The Link Between Ideology and the Coverage of Climate Change in British,German, and Swiss Newspapers

This study analyzes whether the ideological orientation of a newspaper has an influence on the salience of skeptical arguments (trend, attribution, impact, and response skeptics) in the coverage of climate change in the UK, Germany, and Switzerland, and examines whether certain newspaper titles act as advocates of the skeptical countermovement. A quantitative content analysis of a broad newspaper sample for each country over the course of one year (June 2012–May 2013) was conducted. The results reveal that conservative newspapers do not amplify skeptical voices in general; the difference between conservative and more liberal outlets is only found in the case of impact and response skepticism. Second, in each country, certain conservative newspapers are particularly open to skeptical arguments.     

Framing natural assets for advancing sustainability research: translating different perspectives into actions

Sustainability is a key challenge for humanity in the context of complex and unprecedented global changes. Future Earth, an international research initiative aiming to advance global sustainability science, has recently launched knowledge–action networks (KANs) as mechanisms for delivering its research strategy. The research initiative is currently developing a KAN on “natural assets” to facilitate and enable action-oriented research and synthesis towards natural assets sustainability. ‘Natural assets’ has been adopted by Future Earth as an umbrella term aiming to translate and bridge across different knowledge systems and different perspectives on peoples’ relationships with nature. In this paper, we clarify the framing of Future Earth around natural assets emphasizing the recognition on pluralism and identifying the challenges of translating different visions about the role of natural assets, including via policy formulation, for local to global sustainability challenges. This understanding will be useful to develop inter-and transdisciplinary solutions for human–environmental problems by (i) embracing richer collaborative decision processes and building bridges across different perspectives; (ii) giving emphasis on the interactions between biophysical and socioeconomic drivers affecting the future trends of investments and disinvestments in natural assets; and (iii) focusing on social equity, power relationships for effective application of the natural assets approach. This understanding also intends to inform the scope of the natural asset KAN’s research agenda to mobilize the translation of research into co-designed action for sustainability.     

Evaluation of wetland methyl mercury export as a function of experimental manipulations

Mercury associated with natural enrichment, historic mining, and ore processing is a contaminant of concern in watersheds of the western USA. In this region, water is a highly managed resource and wetlands, known to be important sites of methyl mercury production, are often an integral component of watersheds. This study applied controlled manipulations of four replicated experimental wetland designs with different water and soil mercury concentrations to determine the potential impacts on methyl mercury export. Wetlands were manipulated by drying and wetting, changing hydraulic retention time, and adding sulfate and nitrate to influent waters. In a summer drying and wetting manipulation, an immediate increase in total methyl mercury release was observed with rewetting, however, concentrations decreased quickly. Drying all wetlands over the winter and rewetting in the spring resulted in high net methyl mercury output relative to that observed before drying. Net methyl mercury output was not influenced by changes in hydraulic retention time from 4 to 8 h or to 30 min, or by increasing the nitrate concentration from 0.1 to 10 mg L(-1). The addition of sulfate to the inlet waters of two mesocosms to increase concentrations from approximately 100 to 250 mg L(-1) did not result in a clear effect on methyl mercury output, most likely due to sulfate concentrations being higher than optimal for methyl mercury production. Despite the lack of response to sulfate amendments, the change in sulfate concentration between the inlet and outlet of the mesocosms and temperature were the parameters best correlated with methyl mercury outputs.