Comparative genomics of multiple plasmids from APEC associated with clonal outbreaks demonstrates major similarities and identifies several potential vaccine-targets

Avian pathogenic Escherichia coli (APEC) is associated with several types of extraintestinal infections, collectively known as colibacillosis. A heterogeneous population structure has hindered development of vaccines protective against all APEC. Recently, however, the existence of different APEC subpathotypes have been suggested, which are defined by specific disease syndromes and associated virulence genes. A collection of 14 APEC isolates representing clonal outbreaks of salpingitis accompanied by peritonitis and sepsis were characterized in the present study. All the strains carried large plasmids and the aim of the study was to investigate the similarity of these by sequencing, annotating and comparative analysis to identify potential vaccine targets. In addition, a comparison with gene content of human extraintestinal E. coli (ExPEC) subtypes was conducted. Results obtained demonstrated highly similar plasmid contents of the 14 APEC strains, despite the diversity of their chromosomal background. All 14 APEC carried the colicin V operon and numerous virulence genes. These included iss, traT, hlyF, eitABC, ompT, iroBCDEN, sitABCD, iutA and lucABCD. Several of these are shared with human ExPEC, implicating a possible zoonotic potential. Despite a diverse chromosomal background, it was concluded that the plasmid content of virulence genes are highly similar for the investigated APEC subpathotype. Based on their frequency, protein uniformity and subcellular localization iroN, iutA, iss, traT, ompT and etsC are suggested as vaccine-candidates. Experimental studies are, however, necessary to determine the protective potential of the candidates against the APEC subpathotype characterized by salpingitis, peritonitis and possibly septicaemia.     

A synthesis of the life history and ecology of juvenile Pacific herring in Prince William Sound,Alaska

Physical and biological variables affecting juvenile Pacific herring (Clupea pallasi) in Prince William Sound (PWS) from 1995 to 1998 were investigated as part of a multifaceted study of recruitment, the Sound Ecosystem Assessment (SEA) program. Though more herring larvae were retained in eastern PWS bays, ages‐0 and ‐1 herring used bays throughout PWS as nursery areas. Water transported into PWS from the Gulf of Alaska (GOA) contributed oceanic prey species to neritic habitats. Consequently, variations in local food availability resulted in different diets and growth rates of herring among bays. Summer food availability and possible interspecific competition for food in nursery areas affected the autumn nutritional status and juvenile whole body energy content (WBEC), which differed among bays. The WBEC of age‐0 herring in autumn was related to over‐winter survival. The limited amount of food consumption in winter was not sufficient to meet metabolic needs. The smallest age‐0 fish were most at risk of starvation in winter. Autumn WBEC of herring and winter water temperature were used to model over‐winter mortality of age‐0 herring. Differences in feeding and energetics among nursery areas indicated that habitat quality and age‐0 survival were varied among areas and years. These conditions were measured by temperature, zooplankton abundance, size of juvenile herring, diet energy, energy source (GOA vs. neritic zooplankton), WBEC, and within‐bay competition.     

Selectivity of flexible size-sorting grid in Mediterranean multispecies trawl fishery

ABSTRACT:   The demersal multispecies trawl fishery in the western Mediterranean Sea has a poor selectivity; large numbers of juvenile fish are caught when using the legislated 40-mm diamond mesh cod end. The selectivity of a flexible sorting grid with 20-mm bar spacing (BS20) installed in front the conventional trawl cod end was investigated. The standard covered cod end method was used. Data was adequate for analyzing the selectivity of European hake Merluccius merluccius , poor cod Trisopterus minutus , greater forkbeard Phycis blennoides and Norway lobster Nephrops norvegicus . The selectivity of the 20-mm sorting grid was compared with the performance of 40-mm diamond (DM40) and square mesh (SM40) cod ends. The effect of a guiding funnel on the performance of the grid (BS20-f) was also explored. Finally, the potential changes in yield per recruit (Y/R) and biomass per recruit (B/R) after implementing a sorting grid were explored. An overall improvement in the 50% selection length ( L ₅₀ ) with all four species was substantial when comparing the BS20 to the DM40. Higher improvement in L ₅₀ s was achieved when the grid was equipped with the guiding funnel. When comparing the performance of the BS20-f to the SM40, there was no marked difference in L ₅₀ s. The Y/R and B/R, however, are substantially higher with BS20-f for poor cod and about the same for European hake. BS20 compared to SM40 achieved lower Y/R and B/R for all four species; the smallest difference was observed for Norway lobster. Further development is required if the sorting grid is to be introduced into commercial fisheries.     

Trawl fishing impacts on the status of seabed fauna in diverse regions of the globe

Bottom trawl fishing is a controversial activity. It yields about a quarter of the world's wild seafood, but also has impacts on the marine environment. Recent advances have quantified and improved understanding of large‐scale impacts of trawling on the seabed. However, such information needs to be coupled with distributions of benthic invertebrates (benthos) to assess whether these populations are being sustained under current trawling regimes. This study collated data from 13 diverse regions of the globe spanning four continents. Within each region, we combined trawl intensity distributions and predicted abundance distributions of benthos groups with impact and recovery parameters for taxonomic classes in a risk assessment model to estimate benthos status. The exposure of 220 predicted benthos‐group distributions to trawling intensity (as swept area ratio) ranged between 0% and 210% (mean = 37%) of abundance. However, benthos status, an indicator of the depleted abundance under chronic trawling pressure as a proportion of untrawled state, ranged between 0.86 and 1 (mean = 0.99), with 78% of benthos groups > 0.95. Mean benthos status was lowest in regions of Europe and Africa, and for taxonomic classes Bivalvia and Gastropoda. Our results demonstrate that while spatial overlap studies can help infer general patterns of potential risk, actual risks cannot be evaluated without using an assessment model that incorporates trawl impact and recovery metrics. These quantitative outputs are essential for sustainability assessments, and together with reference points and thresholds, can help managers ensure use of the marine environment is sustainable under the ecosystem approach to management.     

Survival of Atlantic salmon captured in and released from a commercial trap-net: Potential for selective harvesting of stocked salmon

The major wild Atlantic salmon stocks in the Baltic Sea began to recover in the late 1990s. This recovery has been partly due to strict regulations in the Gulf of Bothnia that effectively prevent salmon fisheries during the peak migration. About half of the migrating salmon, however, are reared fish that could be harvested. We simulated a limited trap-net fishery that selectively harvested reared salmon and released wild fish, and studied the survival and migration of the released salmon. We tagged and released 1970 salmon caught in the trap-nets along the coast in 2001 and 2002. The mean maximum capture and release induced mortality of salmon was 11%, ranging between 4% and 21% in different release groups by year, sea age and number of releases. The cumulative mortality for the total salmon population on their spawning migration in the Gulf of Bothnia was below 5%, and it would not increase considerably after the first capture and release events, provided fishing effort is not excessive and fish are handled properly. Survival of trap-net captured and released Baltic salmon appears high and their migration behavior is not altered due to this handling. Several preconditions, however, should be considered before selective fishing is introduced in the Gulf of Bothnia salmon fishery.     

Restoring wetland biodiversity using research: Whole‐community facilitation by beaver as framework

• 1. Wetlands are declining worldwide, and there is a great need for their restoration and creation. One natural agent of wetland engineering is beavers, Castor spp., which have returned or are returning to many parts of their former range.
• 2. We initially studied the facilitative effect of the beaver Castor canadensis on a waterbird community consisting of three waders and four ducks in boreal wetlands in southern Finland. Both waterbird species diversity and abundance increased when beavers impounded a pond. Common teal Anas crecca and green sandpiper Tringa ochropus were the species showing the most positive numerical response, but the other five species also increased upon flooding.
• 3. This article evaluates how the results of the study have been used in management, both in theory and practice. The whole‐community facilitation concept has been taken up in numerous articles considering the restorative effects of beavers. It has also been used as ecological background when planning and executing man‐made wetland projects in Finland within both the public and the private sectors.
• 4. Our study and its publication in Aquatic Conservation: Marine and Freshwater Ecosystems have set a foundation for further evidence‐based management of waterbird communities. As the results show, having beavers as wetland managers is a feasible tool for creating and restoring wetlands for waterbirds and other biota. Moreover, wetland restoration projects are becoming more popular endeavours, owing to an understanding of the diverse benefits of wetlands. Flooding by beavers is used as a model for managers when creating man‐made wetlands; for example, in urban areas where it is difficult to maintain beavers.

     

Prioritizing refuge sites for migratory geese to alleviate conflicts with agriculture

Expanding populations of geese feeding on farmland during winter and spring conflict with agricultural interests along their migratory flyway in north-western Europe. In Mid-Norway, farmers scare spring-staging pink-footed geese Anser brachyrhynchus off their land to protect crops, and this has had clear effects on goose distribution. To protect the geese, Norwegian authorities have implemented economic compensation to farmers to discourage scaring, but this has not been prioritised to accommodate the biological requirements and dispersal patterns of the geese, though such an approach is clearly needed. To address this need, we assessed the negative effects of scaring geese during 2004-2007, and built a species distribution model to identify sites suitable for goose foraging. We subsequently combined known foraging sites with sites identified by our model and prioritised these sites according to their connectivity, perimeter area ratio, years of historic use and proximity to roost. By combining historic data on foraging sites, a species distribution model, and a simple, accountable site selection process we demonstrate how the current compensation scheme can be made 10 times more efficient through strategic prioritisation. Our approach has direct implications for alleviating similar goose-agriculture conflicts throughout Europe.     

Effects of Carbohydrate-free Diets on the Performance of Lactating Mink (Mustela vison) and the Growth Performance of Suckling Kits

The effects of carbohydrate-free diets on body weight changes, feed consumption, and plasma concentrations of nutrients, metabolites, and hormones in lactating mink and on growth performance in kits were investigated in a total of 108 litters during the lactation period of seven weeks. The litters were distributed in three experimental groups fed different ratios of metabolisable energy (ME) derived from protein and fat (61:38; 47:52; 33:66). The females and kits were weighed at parturition and 2, 3, 4, and 7 weeks after parturition. Blood samples were collected from females in the second, fourth, and sixth week of the lactation period. Carbohydrate-free diets fed to lactating mink can in principle support normal performance, health of the females, and growth performance of the kits. However, mink need a sufficient supply of available gluconeogenic precursors in the form of amino acids. In the present experiment, the diet with 33% of ME from protein contained insufficient amounts of gluconeogenic precursors for lactating mink, and three weeks post partum this group was excluded from the experiment. The differences in dietary protein level (61% and 47% of ME) and fat level (38% and 52% of ME) influenced the plasma concentrations of free fatty acids (FFA) and urea, but had minimal influence on plasma concentrations of other nutrients, metabolites, and hormones.