Novel N4-like bacteriophages of pectobacterium atrosepticum

Pectobacterium atrosepticum is an economically important phytopathogen that is responsible for potato blackleg and soft rot, and for which current control strategies are limited. In this study, stem samples of potato crops exhibiting blackleg were taken from three farms in Co. Cork, Ireland, and they were found to be infected with P. atrosepticum. Three closely related bacteriophages (phages) that are specific to this phytopathogen were isolated and characterized, namely vB_PatP_CB1, vB_PatP_CB3, and vB_PatP_CB4 (abbreviated as CB1, CB3, and CB4). Both CB1 and CB3 were determined to infect 12 strains and CB4 10 strains of the 19 strains of P. atrosepticum tested. Morphology, latent periods, burst sizes, and their stability at various temperatures and pHs were also examined. Genome sequencing of the three phages revealed that they shared a minimum nucleotide identity of 93% with each other. Their genomes exhibited an Enquartavirinae genome organization, possessing several conserved proteins that were associated with phages of this group, like the type species Escherichia virus N4. Tandem electrospray ionization-mass spectrometry (ESI-MS/MS) allowed for the identification of ten structural proteins that form the virion of CB1, six that are conserved in phage N4. Biocontrol experiments demonstrated that the phages suppress soft rot formation upon co-inoculation with P. atrosepticum on whole tubers. The results of this study indicate that CB1 related phages could be good candidates for phage-based control

A Line Through the Sacred Lands of the Altai Mountains: Perspectives on the Altai Pipeline Project

In 2006 preliminary plans were made public showing that Gazprom intended to construct a pipeline through the Altai republic (Russia, south-west Siberia). Unfortunately, there was almost no attention to integrating the conservation of cultural heritage (both archaeological and landscape) into the planning of the pipeline, though the Altai is well-known for its rich cultural heritage. Hitherto, no assessment has been made of the potential impact of the project, nor did Gazprom release detailed information about the exact course of the route. The present article aims to illustrate the potential impact of the pipeline based on a detailed study of a small segment of the route, using remote sensing images and data gathered during fieldwork. This assessment underlines the need for a well-thought-out strategy, which is required if sustainable integration of heritage conservation into the construction plan is to be realized. If such a balance is not found, thousands of archaeological monuments could disappear, which would result in a huge cultural and scientific loss. As a possible solution, an integrative strategy founded on a desk-based study of remote sensing images and a well-directed field survey is suggested

A model for pricing real estate derivatives with stochastic interest rates

The real estate derivatives market allows participants to manage risk and return from exposure to property, without buying or selling directly the underlying asset. Such market is growing very fast hence the need to rely on simple yet effective pricing models is very great. In order to take into account the real estate market sensitivity to the interest rate term structure in this paper is presented a two-factor model where the real estate asset value and the spot rate dynamics are jointly modeled. The pricing problem for both European and American options is then analyzed and since no closed-form solution can be found a bidimensional binomial lattice framework is adopted. The model proposed allows calibration to the interest rate and volatility term structures

Landscape science: a Russian geographical tradition

The Russian geographical tradition of landscape science (landshaftovedenie) is analyzed with particular reference to its initiator, Lev Semenovich Berg (1876-1950). The differences between prevailing Russian and Western concepts of landscape in geography are discussed, and their common origins in German geographical thought in the late nineteenth and early twentieth centuries are delineated. It is argued that the principal differences are accounted for by a number of factors, of which Russia's own distinctive tradition in environmental science deriving from the work of V. V. Dokuchaev (1846-1903), the activities of certain key individuals (such as Berg and C. O. Sauer), and the very different social and political circumstances in different parts of the world appear to be the most significant. At the same time it is noted that neither in Russia nor in the West have geographers succeeded in specifying an agreed and unproblematic understanding of landscape, or more broadly in promoting a common geographical conception of human-environment relationships. In light of such uncertainties, the latter part of the article argues for closer international links between the variant landscape traditions in geography as an important contribution to the quest for sustainability

Geography and Post-phenomenology

This paper examines geography’s engagements with phenomenology. Tracing phenomenology’s influence, from early humanist reflections on the lifeworld to non-representational theories of practice, the paper identifies the emergence of a distinct post-phenomenological way of thinking. However, there is currently no clear articulation of what differentiates post-phenomenology from phenomenology as a set of theories or ideas, nor is there a clear set of trajectories along which such difference can be pursued further. In response to this, the paper outlines three key elements that differentiate phenomenology from post-phenomenology and that require further exploration. First is a rethinking of intentionality as an emergent relation with the world, rather than an a priori condition of experience. Second is a recognition that objects have an autonomous existence outside of the ways they appear to or are used by human beings. Third is a reconsideration of our relations with alterity, taking this as central to the constitution of phenomenological experience given our irreducible being-with the world. Unpacking these differences, the paper offers some suggestions as to how post-phenomenology contributes to the broader discipline of human geography

Influence of the Environment on Participation in Social Roles for Young Adults with Down Syndrome

Background: The concept of disability is now understood as a result of the interaction between the individual, features related to impairment, and the physical and social environment. It is important to understand these environmental influences and how they affect social participation. The purpose of this study is to describe the social participation of young adults with Down syndrome and examine its relationship with the physical and social environment. Methods: Families ascertained from the Down syndrome ‘Needs Opinion Wishes’ database completed questionnaires during 2011. The questionnaires contained two parts, young person characteristics and family characteristics. Young adults’ social participation was measured using the Assessment of Life Habits (LIFE-H) and the influences of environmental factors were measured by the Measure of the Quality of the Environment (MQE). The analysis involved descriptive statistics and linear and logistic regression. Results: Overall, participation in daily activities was higher (mean 6.45) than in social roles (mean 5.17) (range 0 to 9). When the physical and/or social environment was reported as a facilitator, compared to being no influence or a barrier, participation in social roles was greater (coef 0.89, 95%CI 0.28, 1.52, coef 0.83, 95%CI 0.17, 1.49, respectively). The relationships between participation and both the physical (coef 0.60, 95% CI -0.40, 1.24) and social (coef 0.20, 95%CI -0.47, 0.87) environments were reduced when age, gender, behavior and functioning in ADL were taken into account. Conclusion: We found that young adults’ participation in social roles was influenced more by the physical environment than by the social environment, providing a potentially modifiable avenue for intervention

Challenges and opportunities for biogeography - what can we still learn from von Humboldt?

Alexander von Humboldt was arguably the most influential scientist of his day. Although his fame has since lessened relative to some of his contemporaries, we argue that his influence remains strong-mainly because his approach to science inspired others and was instrumental in furthering other scientific disciplines (such as evolution, through Darwin, and conservation science, through Muir)-and that he changed the way that large areas of science are done and communicated. Indeed, he has been called the father of a range of fields, including environmental science, earth system science, plant geography, ecology and conservation. His approach was characterized by making connections between non-living and living nature (including humans), based on interdisciplinary thinking and informed by large amounts of data from systematic, accurate measurements in a geographical framework. Although his approach largely lacked an evolutionary perspective, he was fundamental to creating the circumstances for Darwin and Wallace to advance evolutionary science. He devoted considerable effort illustrating, communicating and popularizing science, centred on the excitement of pure science. In biogeography, his influence remains strong, including in relating climate to species distributions (e.g. biomes and latitudinal and elevational gradients) and in the use of remote sensing and species distribution modelling in macroecology. However, some key aspects of his approach have faded, particularly as science fragmented into specific disciplines and became more reduc-tionist. We argue that asking questions in a more Humboldtian way is important for addressing current global challenges. This is well-exemplified by researching links between geodiversity and biodiversity. Progress on this can be made by (a) systematic data collection to improve our knowledge of biodiversity and geodiversity around the world; (b) improving our understanding of the linkages between biodiversity and geodiversity; and (c) developing our understanding of the interactions of geological, biological, ecological, environmental and evolutionary processes in biogeography

Impact of a phage cocktail targeting Escherichia coli and Enterococcus faecalis as members of a gut bacterial consortium in vitro and in vivo

Escherichia coli and Enterococcus faecalis have been implicated as important players in human gut health that have been associated with the onset of inflammatory bowel disease (IBD). Bacteriophage (phage) therapy has been used for decades to target pathogens as an alternative to antibiotics, but the ability of phage to shape complex bacterial consortia in the lower gastrointestinal tract is not clearly understood. We administered a cocktail of six phages (either viable or heat-inactivated) targeting pro-inflammatory Escherichia coli LF82 and Enterococcus faecalis OG1RF as members of a defined community in both a continuous fermenter and a murine colitis model. The two target strains were members of a six species simplified human microbiome consortium (SIHUMI-6). In a 72-h continuous fermentation, the phage cocktail caused a 1.1 and 1.5 log (log10 genome copies/mL) reduction in E. faecalis and E. coli numbers, respectively. This interaction was accompanied by changes in the numbers of other SIHUMI-6 members, with an increase of Lactiplantibacillus plantarum (1.7 log) and Faecalibacterium prausnitzii (1.8 log). However, in germ-free mice colonized by the same bacterial consortium, the same phage cocktail administered twice a week over nine weeks did not cause a significant reduction of the target strains. Mice treated with active or inactive phage had similar levels of pro-inflammatory cytokines (IFN-y/IL12p40) in unstimulated colorectal colonic strip cultures. However, histology scores of the murine lower GIT (cecum and distal colon) were lower in the viable phage-treated mice, suggesting that the phage cocktail did influence the functionality of the SIHUMI-6 consortium. For this study, we conclude that the observed potential of phages to reduce host populations in in vitro models did not translate to a similar outcome in an in vivo setting, with this effect likely brought about by the reduction of phage numbers during transit of the mouse GIT

Can, Want and Try: Parents' Viewpoints Regarding the Participation of Their Child with an Acquired Brain Injury

BACKGROUND: Acquired brain injury (ABI) is a leading cause of permanent disability, currently affecting 20,000 Australian children. Community participation is essential for childhood development and enjoyment, yet children with ABI can often experience barriers to participation. The factors which act as barriers and facilitators to community participation for children with an ABI are not well understood. AIM: To identify the viewpoints of parents of children with an ABI, regarding the barriers and facilitators most pertinent to community participation for their child. METHODS: Using Q-method, 41 parents of children with moderate/severe ABI sorted 37 statements regarding barriers and facilitators to community participation. Factor analysis identified three viewpoints. RESULTS: This study identified three distinct viewpoints, with the perceived ability to participate decreasing with a stepwise trend from parents who felt their child and family "can" participate in viewpoint one, to "want" in viewpoint two and "try" in viewpoint three. CONCLUSIONS: Findings indicated good participation outcomes for most children and families, however some families who were motivated to participate experienced significant barriers. The most significant facilitators included child motivation, supportive relationships from immediate family and friends, and supportive community attitudes. The lack of supportive relationships and attitudes was perceived as a fundamental barrier to community participation. SIGNIFICANCE: This research begins to address the paucity of information regarding those factors that impact upon the participation of children with an ABI in Australia. Findings have implications for therapists, service providers and community organisations