Improved traceability of Shiga-toxin-producing <Emphasis Type="Italic">Escherichia coli</Emphasis> using CRISPRs for detection and typing

Among strains of Shiga-toxin-producing Escherichia coli (STEC), seven serogroups (O26, O45, O103, O111, O121, O145, and O157) are frequently associated with severe clinical illness in humans. The development of methods for their reliable detection from complex samples such as food has been challenging thus far, and is currently based on the PCR detection of the major virulence genes stx1, stx2, and eae, and O-serogroup-specific genes. However, this approach lacks resolution. Moreover, new STEC serotypes are continuously emerging worldwide. For example, in May 2011, strains belonging to the hitherto rarely detected STEC serotype O104:H4 were identified as causative agents of one of the world’s largest outbreak of disease with a high incidence of hemorrhagic colitis and hemolytic uremic syndrome in the infected patients. Discriminant typing of pathogens is crucial for epidemiological surveillance and investigations of outbreaks, and especially for tracking and tracing in case of accidental and deliberate contamination of food and water samples. Clustered regularly interspaced short palindromic repeats (CRISPRs) are composed of short, highly conserved DNA repeats separated by unique sequences of similar length. This distinctive sequence signature of CRISPRs can be used for strain typing in several bacterial species including STEC. This review discusses how CRISPRs have recently been used for STEC identification and typing.     

Effects of sediment burial disturbance on macro and microelement dynamics in decomposing litter of <Emphasis Type="Italic">Phragmites australis</Emphasis> in the coastal marsh of the Yellow River estuary,China

From April 2008 to November 2009, a field decomposition experiment was conducted to investigate the effects of sediment burial on macro (C, N) and microelement (Pb, Cr, Cu, Zn, Ni, and Mn) variations in decomposing litter of Phragmites australis in the coastal marsh of the Yellow River estuary. Three one-off sediment burial treatments [no sediment burial (0 mm year^?1, S₀), current sediment burial (100 mm year^?1, S₁₀), and strong sediment burial (200 mm year^?1, S₂₀)] were laid in different decomposition sites. Results showed that sediment burials showed significant influence on the decomposition rate of P. australis, in the order of S₁₀ (0.001990 day^?1)?≈?S₂₀ (0.001710 day^?1)?>?S₀ (0.000768 day^?1) (p?<?0.05). The macro and microelement in decomposing litters of the three burial depths exhibited different temporal variations except for Cu, Zn, and Ni. No significant differences in C, N, Pb, Cr, Zn, and Mn concentrations were observed among the three burial treatments except for Cu and Ni (p?>?0.05). With increasing burial depth, N, Cr, Cu, Ni, and Mn concentrations generally increased, while C, Pb, and Zn concentrations varied insignificantly. Sediment burial was favorable for C and N release from P. australis, and, with increasing burial depth, the C release from litter significantly increased, and the N in litter shifted from accumulation to release. With a few exceptions, Pb, Cr, Zn, and Mn stocks in P. australis in the three treatments evidenced the export of metals from litter to environment, and, with increasing burial depth, the export amounts increased greatly. Stocks of Cu and Ni in P. australis in the S₁₀ and S₂₀ treatments were generally positive, evidencing incorporation of the two metals in most sampling times. Except for Ni, the variations of C, N, Pb, Cr, Cu, Zn, and Mn stocks in P. australis in the S₁₀ and S₂₀ treatments were approximated, indicating that the strong burial episodes (S₂₀) occurred in P. australis marsh in the future would have little influence on the stocks of these elements. With increasing burial depths, the P. australis was particularly efficient in binding Cu and Ni and releasing C, N, Pb, Cr, Zn, and Mn, implying that the potential eco-toxic risk of Pb, Cr, Zn, and Mn exposure might be very serious. This study emphasized the effects of different burials on nutrient and metal cycling and mass balance in the P. australis marsh of the Yellow River estuary.     

A boreal invasion in response to climate change? Range shifts and community effects in the borderland between forest and tundra

It has been hypothesized that climate warming will allow southern species to advance north and invade northern ecosystems. We review the changes in the Swedish mammal and bird community in boreal forest and alpine tundra since the nineteenth century, as well as suggested drivers of change. Observed changes include (1) range expansion and increased abundance in southern birds, ungulates, and carnivores; (2) range contraction and decline in northern birds and carnivores; and (3) abundance decline or periodically disrupted dynamics in cyclic populations of small and medium-sized mammals and birds. The first warm spell, 1930–1960, stands out as a period of substantial faunal change. However, in addition to climate warming, suggested drivers of change include land use and other anthropogenic factors. We hypothesize all these drivers interacted, primarily favoring southern generalists. Future research should aim to distinguish between effects of climate and land-use change in boreal and tundra ecosystems.     

Baltic Sea ecosystem-based management under climate change: Synthesis and future challenges

Ecosystem-based management (EBM) has emerged as the generally agreed strategy for managing ecosystems, with humans as integral parts of the managed system. Human activities have substantial effects on marine ecosystems, through overfishing, eutrophication, toxic pollution, habitat destruction, and climate change. It is important to advance the scientific knowledge of the cumulative, integrative, and interacting effects of these diverse activities, to support effective implementation of EBM. Based on contributions to this special issue of AMBIO, we synthesize the scientific findings into four components: pollution and legal frameworks, ecosystem processes, scale-dependent effects, and innovative tools and methods. We conclude with challenges for the future, and identify the next steps needed for successful implementation of EBM in general and specifically for the Baltic Sea.     

Interannual variability of phyto-bacterioplankton biomass and production in coastal and offshore waters of the Baltic Sea

The microbial part of the pelagic food web is seldom characterized in models despite its major contribution to biogeochemical cycles. In the Baltic Sea, spatial and temporal high frequency sampling over three years revealed changes in heterotrophic bacteria and phytoplankton coupling (biomass and production) related to hydrographic properties of the ecosystem. Phyto- and bacterioplankton were bottom-up driven in both coastal and offshore areas. Cold winter temperature was essential for phytoplankton to conform to the successional sequence in temperate waters. In terms of annual carbon production, the loss of the spring bloom (diatoms and dinoflagellates) after mild winters tended not to be compensated for by other taxa, not even summer cyanobacteria. These results improve our ability to project Baltic Sea ecosystem response to short- and long-term environmental changes.     

Toxicity of sediment cores from Yangtze River estuary to zebrafish (<Emphasis Type="Italic">Danio rerio</Emphasis>) embryos

Toxicity evaluation is an important segment in sediment quality monitoring in order to protect aquatic organisms and human health. The purpose of this study is to assess the toxicity of sediments from three sediment cores in Yangtze River Estuary, China, using the zebrafish (Danio rerio) embryo tests. Fertilized zebrafish eggs were exposed to both whole sediments and sediment organic extracts prepared from collected sediments, in order to provide a comprehensive and realistic insight into the bioavailable toxicity potential of the sediments. As end points, development parameters (mortality, hatching rate, and abnormality) in the developing embryos were recorded during the 96-h exposure. The results showed that some samples increased mortality, inhibited the hatching of embryos, and induced morphological abnormalities. The embryonic toxicities presented serrated changes and irregular distribution with depth, which may be related to hydrodynamic effect and unstable environmental input. However, lethal and sub-lethal effects were more significant at the sub-surface sediments (10～40 cm), which indicated that the pollution is more serious in recent decades.     

Levels and distribution of Dechloranes in sediments of Lake Taihu,China

The occurrence and spatial distribution of dechloranes including mirex, dechlorane plus (DP), dechlorane (Dec) 602, Dec 603, and Dec 604 in surficial sediments of Lake Taihu were investigated in this study. The concentrations of mirex and DP ranged from below detection limit (BDL) to 1.29 ng g^?1 dw and 0.051 to 2.10 ng g^?1 dw, respectively. Dec 602, Dec 603, and Dec 604 on the other hand, were BDL in any of the samples. The contamination levels of DP were higher than that of Mirex at 21 of all 22 sampling sites. Levels of mirex and DP in the lake sediments were correlated when an extremely high mirex value was removed. Both mirex and DP levels were correlated with the amount of organic matters in the sediment samples. Spatial distribution of mirex and DP suggested that these two chemicals in the lake had similar input sources except for one site. Comparison to previously reported flame retardants’ levels in the sediments shows that DP levels were similar with the levels of tetrabromobisphenol A, hexabromocyclododecane but lower than PBDEs and organophosphates levels in Lake Taihu. The higher levels in the north-east part of Lake Taihu adjacent to two major cities: Wuxi and Suzhou, indicated that city effluent might be a major source for DP contamination in the lake.     

The effect of the addition of fly ash to municipal digested sludge on its electroosmotic dewatering

Effective handling of municipal digested sludge requires that the product cake have low water content. To this end, we investigated the change in sludge dewaterability after the addition of fly ash to municipal digested sludge, dewatering of which is difficult because of its high organic content. The performance of the dewatering is compared with that of electroosmotic dewatering (EDW) and conventional mechanical dewatering (CMD). Fly ash classified by sieving to the size of 25–75 μm and >75 μm is added to the municipal digested sludge by 10, 20, and 50 wt% by wet base. When adding fly ash particles to municipal digested sludge, dewatering efficiency improved with smaller fly ash particle size and with increase in the amount. When sludge was dewatered using an electroosmotic dewatering method, the dewatering efficiency is improved about 40% by adding fly ash of 25–75 μm particle size with 20 wt% when compared with conventional mechanical dewatering method without adding the fly ash. It is concluded that fly ash particles rich in inorganic material are helpful in the dewatering process when added to municipal digested sludge and EDW is more effective than CDW.     

A study on legislative and policy tools for promoting the circular economic model for waste management in China

The circular economy has been developing rapidly in recent years in China. A legislative system has been created to provide legal protection for the development of a circular economy, including a series of price and tax measures in the waste management area. These measures form the basic foundation for promoting better waste management under the circular economic model. Many challenges, however, remain. For instance, the legal system needs to incorporate more sophisticated science, and China lacks key waste treatment technology that could support the further development of a circular economy. There is also a need to educate the public about the concept of the circular economy and its benefits. Specific suggestions are made for the development and implementation of the circular economic model.     

Archaeal Poly (3-hydroxybutyrate) Polymer Production from Glycerol: Optimization by Taguchi Methodology

In this study the possibility of poly (3-hydroxybutyrate) production from glycerol was investigated and optimized by Halorcula sp. IRU1, a novel archaea isolated from Urmia lake, Iran in batch experiments. Using Taguchi methodology, three important independent parameters (glycerol, yeast extract and KH₂PO₄) were evaluated for their individual and interactive effects on poly (3-hydroxybutyrate) production. It was shown that the glycerol concentration was the most significant factor affecting the yield of poly (3-hydroxybutyrate). The optimum factor levels were a glycerol concentration of 8% (v/v), yeast extract 0.8% (w/v) and KH₂PO₄ 0.002% (w/v). The predicted value obtained for poly (3-hydroxybutyrate) production under these conditions was about 81.87%. We can conclude that Haloarcula sp. IRU1 has a high potential for synthesis of poly (3-hydroxybutyrate) from glycerol.