Data-driven design for Architecture and Environment Integration

Rapid urbanization and related land cover and land use changes are primary causes of climate change, and of environmental and ecosystem degradation. Sustainability problems are becoming increasingly complex due to these developments. At the same time vast amounts of data on urbanization, construction and resulting environmental conditions are being generated. Yet it is hardly possible to gain insights for sustainable plan-ning and design at the same rate as data is generated. Moreover, the complexity of compound sustainability problems requires interdisciplinary approaches that address multiple knowledge fields, multiple dynamics and multiple spatial, temporal and functional scales. This raises a question regarding methods and tools available to planners and architects for tackling these complex issues. To address this problem we are developing an interdisciplinary approach, computational framework and related workflows for multi-domain and trans-scalar modelling that integrate planning and design scales. For this article two lines of research were selected. The first focuses on understanding environments for the purpose of discovering, recovering and adapting land knowledge to different conditions and contexts. This entails an analytical data-integrated computational workflow. The second line of research focuses on designing environments and developing an approach and computational workflow for data-integrated planning and design. These two lines converge in a combined analytical and generative data-integrated computational workflow. This combined approach aims for an intense integration of architectures and environments that we call embedded architectures. In this article we discuss the two lines of research, their convergence, and further research questions

Functional dissection of translocon proteins of the Salmonella Pathogenicity Island 2-encoded type III secretion system

<p>Abstract</p> <p>Background</p> <p>Type III secretion systems (T3SS) are essential virulence factors of most Gram-negative bacterial pathogens. T3SS deliver effector proteins directly into the cytoplasm of eukaryotic target cells and for this function, the insertion of a subset of T3SS proteins into the target cell membrane is important. These proteins form hetero-oligomeric pores acting as translocon for the delivery of effector proteins. <it>Salmonella enterica </it>is a facultative intracellular pathogen that uses the <it>Salmonella </it>Pathogenicity Island 2 (SPI2)-encoded T3SS to manipulate host cells in order to survive and proliferate within the <it>Salmonella</it>-containing vacuole of host cells. Previous work showed that SPI2-encoded SseB, SseC and SseD act to form the translocon of the SPI2-T3SS.</p> <p>Results</p> <p>Here we investigated the structural requirements of SseB and SseD to form a functional translocon. Based on bioinformatic predictions, deletional analyses of SseB and SseD were performed and the effect on secretion by the T3SS, formation of a translocon, translocation of effector proteins and intracellular replication was investigated. Our data showed that both SseB and SseD are very sensitive towards alterations of the primary structure of the proteins. Although proteins encoded by mutant alleles were still secreted, we observed that all mutations resulted in a loss of function of the SPI2-T3SS.</p> <p>Conclusion</p> <p>These observations indicate that translocon proteins of the SPI2-T3SS are highly evolved towards the formation of multi-subunit complex in the host cell membrane. Structural alterations are not tolerated and abrogate translocon function.</p

Intersecting Knowledge Fields and Integrating Data-Driven Computational Design en Route to Performance-Oriented and Intensely Local Architectures

This paper discusses research by design efforts in architectural education, focused on developing concepts and methods for the design of performance-oriented and intensely local architectures. The pursued notion of performance foregrounds the interaction between a given architecture and its local setting, with consequences not only for the design product but also for the related processes by which it is generated. Integrated approaches to data-driven computational design serve to generate such designs. The outlined approach shifts the focus of design attention away from the delivery of finite architectural objects and towards an expanded range of architecture-environment interactions that are registered, instrumentalised and modulated over time. This paper examines ongoing efforts in integrating specific architectural goals and approaches, computational data-driven design methods and generative design processes, based on a range of context-specific and often real-time data sets. The work discussed is produced in the context of the Research Centre for Architecture and Tectonics (RCAT) and the Advanced Computational Design Laboratory (ACDL) at the Oslo School of Architecture and Design

Functional Dissection of SseF, a Membrane-Integral Effector Protein of Intracellular Salmonella enterica

During intracellular life, the bacterial pathogen Salmonella enterica translocates a complex cocktail of effector proteins by means of the SPI2-encoded type III secretions system. The effectors jointly modify the endosomal system and vesicular transport in host cells. SseF and SseG are two effectors encoded by genes within Salmonella Pathogenicity Island 2 and both effector associate with endosomal membranes and microtubules and are involved in the formation of Salmonella-induced filaments. Our previous deletional analyses identified protein domains of SseF required for the effector function. Here we present a detailed mutational analysis that identifies a short hydrophobic motif as functionally essential. We demonstrate that SseF and SseG are still functional if translocated as a single fusion protein, but also mediate effector function if translocated in cells co-infected with sseF and sseG strains. SseF has characteristics of an integral membrane protein after translocation into host cells

Salmonella Pathogenicity Island 2 Mediates Protection of Intracellular Salmonella from Reactive Nitrogen Intermediates

Salmonella typhimurium causes an invasive disease in mice that has similarities to human typhoid. A type III protein secretion system encoded by Salmonella pathogenicity island 2 (SPI2) is essential for virulence in mice, as well as survival and multiplication within macrophages. Reactive nitrogen intermediates (RNI) synthesized by inducible nitric oxide synthase (iNOS) are involved in the control of intracellular pathogens, including S. typhimurium. We studied the effect of Salmonella infection on iNOS activity in macrophages. Immunofluorescence microscopy demonstrated efficient colocalization of iNOS with bacteria deficient in SPI2 but not wild-type Salmonella, and suggests that the SPI2 system interferes with the localization of iNOS and Salmonella. Furthermore, localization of nitrotyrosine residues in the proximity was observed for SPI2 mutant strains but not wild-type Salmonella, indicating that peroxynitrite, a potent antimicrobial compound, is excluded from Salmonella-containing vacuoles by action of SPI2. Altered colocalization of iNOS with intracellular Salmonella required the function of the SPI2-encoded type III secretion system, but not of an individual “Salmonella translocated effector.” Inhibition of iNOS increased intracellular proliferation of SPI2 mutant bacteria and, to a lesser extent, of wild-type Salmonella. The defect in systemic infection of a SPI2 mutant strain was partially restored in iNOS−/− mice. In addition to various strategies to detoxify RNI or repair damage due to RNI, avoidance of colocalization with RNI is important in adaptation of a pathogen to an intracellular life style

Salmonella enterica: a surprisingly well-adapted intracellular lifestyle

The infectious intracellular lifestyle of Salmonella enterica relies on the adaptation to nutritional conditions within the Salmonella-containing vacuole (SCV) in host cells. We summarize latest results on metabolic requirements for Salmonella during infection. This includes intracellular phenotypes of mutant strains based on metabolic modeling and experimental tests, isotopolog profiling using (13)C-compounds in intracellular Salmonella, and complementation of metabolic defects for attenuated mutant strains towards a comprehensive understanding of the metabolic requirements of the intracellular lifestyle of Salmonella. Helpful for this are also genomic comparisons. We outline further recent studies and which analyses of intracellular phenotypes and improved metabolic simulations were done and comment on technical required steps as well as progress involved in the iterative refinement of metabolic flux models, analyses of mutant phenotypes, and isotopolog analyses. Salmonella lifestyle is well-adapted to the SCV and its specific metabolic requirements. Salmonella metabolism adapts rapidly to SCV conditions, the metabolic generalist Salmonella is quite successful in host infection

Territorial Integrity Treaties, Uti Possidetis, and Armed Conflict over Territory

Paper presented at the 2006 Shambaugh Conference Building Synergies: Institutions and Cooperation in World Politics, University of Iowa, 13 October 2006. Earlier versions of this paper were presented at the 37th Annual Meeting of the Peace Science Society (International), Ann Arbor, November 2003, and the 45th Annual Meeting of the International Studies Association, Montreal, March 2004. The authors wish to thank Ashley Leeds, Bumba Mukherjee, Chris Reenock, and Jeff Staton for their valuable comments and suggestions, while taking full blame for all errors and interpretations herein. Abstract A recent article suggests that a norm of territorial integrity spread rapidly across the globe during the twentieth century. While the successful acquisition of territory by force has become much less frequent, though, there have been numerous attempts to acquire territory by force during this time, and there appear to be several different types of obligations in territorial integrity treaties. Drawing from the content of treaties with territorial integrity provisions, we reconceptualize the norm to distinguish between treaties guaranteeing territorial integrity in a general sense and those that only proscribe the acquisition of territory by force, and we examine an important precursor in the nineteenth-century Latin American norm of uti possidetis juris. We find that both norms seem to have been associated with generally increased low-level conflict over territory but (at least for general territorial integrity obligations and for the Latin American states that developed uti possidetis) less of the more intense forms of conflict

Analysis of T-DNA integration and generative segregation in transgenic winter triticale (x Triticosecale Wittmack)

BACKGROUND: While the genetic transformation of the major cereal crops has become relatively routine, to date only a few reports were published on transgenic triticale, and robust data on T-DNA integration and segregation have not been available in this species. RESULTS: Here, we present a comprehensive analysis of stable transgenic winter triticale cv. Bogo carrying the selectable marker gene HYGROMYCIN PHOSPHOTRANSFERASE (HPT) and a synthetic green fluorescent protein gene (gfp). Progeny of four independent transgenic plants were comprehensively investigated with regard to the number of integrated T-DNA copies, the number of plant genomic integration loci, the integrity and functionality of individual T-DNA copies, as well as the segregation of transgenes in T(1) and T(2) generations, which also enabled us to identify homozygous transgenic lines. The truncation of some integrated T-DNAs at their left end along with the occurrence of independent segregation of multiple T-DNAs unintendedly resulted in a single-copy segregant that is selectable marker-free and homozygous for the gfp gene. The heritable expression of gfp driven by the maize UBI-1 promoter was demonstrated by confocal laser scanning microscopy. CONCLUSIONS: The used transformation method is a valuable tool for the genetic engineering of triticale. Here we show that comprehensive molecular analyses are required for the correct interpretation of phenotypic data collected from the transgenic plants

Creating ecologically sound buildings by integrating ecology, architecture and computational design

1. Research is revealing an increasing number of positive effects of nature for humans. At the same time, biodiversity in cities, where most humans live, is often low or in decline. Tangible solutions are needed to increase urban biodiversity. 2. Architecture is a key discipline that has considerable influence on the built-up area of cities, thereby influencing urban biodiversity. In general, architects do not design for biodiversity. Conversely, urban conservation planning generally focuses on the limited space free of buildings and does not embrace architecture as an important discipline for the creation of urban green infrastructure. 3. In this paper, we argue that the promotion of biodiversity needs to become a key driving force of architectural design. This requires a new multi-species design paradigm that considers both human and non-human needs. Such a design approach needs to maintain the standards of the architectural profession, including the aim to increase the well-being of humans in buildings. Yet, it also needs to add other stakeholders, organisms such as animals, plants and even microbiota. New buildings designed for humans and other inhabitants can then increase biodiversity in cities and also increase the benefits that humans can derive from close proximity to nature. 4. We review the challenges that this new design approach poses for both architecture and ecology and show that multi-species-design goes beyond existing approaches in architecture and ecology. The new design approach needs to make ecological knowledge available to the architectural design process, enabling practitioners to find architectural solutions that can facilitate synergies from a multi-species perspective. 5. We propose that a first step in creating such a multi-species habitat is the design of buildings with an ecolope, a multi criteria-designed building envelope that takes into account the needs of diverse organisms. Because there is no framework to design such an ecolope, we illustrate how multi-species design needs to draw on knowledge from ecology, as well as architecture, and design computation. 6. We discuss how architectures designed via a multi-species approach can be an important step in establishing beneficial human-nature relationships in cities, and contribute to human well-being and biodiversity conservation.Read the free Plain Language Summary for this article on the Journal blog