59 research outputs found

    Teaching BIM in a multidisciplinary department

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    An integrated environmental and human systems modeling framework for Puget Sound restoration planning

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    Local, state, federal, tribal and private stakeholders have committed significant resources to restoring Puget Soundā€™s terrestrial-marine ecosystem. Though jurisdictional issues have promoted a fragmented approach to restoration planning, there is growing recognition that a more coordinated systems-based restoration approach is needed to achieve recovery goals. This presentation describes our collaborative effort to develop and apply an integrated environmental and human systems modeling framework for the Puget Sound Basin, inclusive of all marine and land areas (1,020 and 12,680 sq. mi.). Our goal is to establish a whole-basin systems modeling framework that dynamically simulates biophysical interactions and transfers (water, nutrients, contaminants, biota) across terrestrial-marine boundaries. The core environmental models include a terrestrial ecohydrological model (VELMA), an ocean circulation and biogeochemistry model (Salish Sea Model), and an ocean food web model (Atlantis). This environmental subsystem will be linked with an agent-based modeling subsystem (e.g., Envision) that allows human decision-makers to be represented in whole-basin simulations. The integrated environmental and human systems framework aims to facilitate discourse among different stakeholders and decision makers (agents) and enable them play out the ecological, social and economic consequences of alternative ecosystem restoration choices. All of these models are currently being applied in Puget Sound, but they have not yet been integrated. The linked models will better capture the propagation of human impacts throughout the terrestrial-marine ecosystem, and thereby provide a more effective decision support tool for addressing restoration of high priority environmental endpoints, such as the Vital Signs identified by the Puget Sound Partnership (http://www.psp.wa.gov/vitalsigns/). Our overview will include examples of existing stand-alone model applications, and conceptual plans for linking models across terrestrial-marine boundaries. The Puget Sound multi-model framework described here can potentially be expanded to address the entire Salish Sea transboundary ecosystem (https://www.eopugetsound.org/maps/salish-sea-basin-and-water-boundaries)

    Quantifying ecosystem service tradeoffs in response to alternative land use and climate scenarios: Pacific Northwest applications of the VELMA ecohydrological model

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    Scientists, policymakers, community planners and others have discussed ecosystem services for decades, however, society is still in the early stages of developing methodologies to quantify and value the goods and services that ecosystems provide. Essential to this goal are highly integrated models that can be used to define policy and management strategies for entire ecosystems, not just individual components. We developed the VELMA ecohydrological model to help address this need. VELMA links a land surface hydrologic model with a terrestrial biogeochemistry model in a spatially-distributed framework to simulate the integrated responses of vegetation, soil, and water resources to changes in land use and climate. Here we briefly describe watershed-scale applications of VELMA conducted in Oregon and the Puget Sound Basin in partnership with community and governmental organizations. Our goal is to evaluate how alternative policy, land use and climate scenarios affect tradeoffs among ecosystem services ā€“ specifically, provisioning services (water; food from land and sea; fiber), supporting services (cycling of water and nutrients; habitat for fish, shellfish, wildlife), regulating services (climate; peak and low flows), and cultural services (recreational and spiritual pursuits). A major focus is to assess the effectiveness of natural and engineered green infrastructure (riparian buffers etc.) for protecting water quality of coastal and inland waters. Products of this work include (1) alternative-future scenarios capturing stakeholder-relevant choices and drivers of change; (2) tools for mapping production of ecosystem goods and services under current and projected conditions; and (3) tools for evaluating ecosystem service tradeoffs so that natural capital can be more fully accounted for in alternative-future decision scenarios. We are using these products in a participatory planning approach that integrates researchers, stakeholders and decision makers in the process of identifying drivers, ecosystem services of concern, and solutions for a more sustainable future. For example, can optimal ā€œdecision pathsā€ be identified for restoring the ecosystem services needed to sustainably support communities dependent on resource-based economies and traditions, such as agriculture, forestry, and fishing

    Long- and short-term outcomes in renal allografts with deceased donors: A large recipient and donor genome-wide association study.

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    Improvements in immunosuppression have modified short-term survival of deceased-donor allografts, but not their rate of long-term failure. Mismatches between donor and recipient HLA play an important role in the acute and chronic allogeneic immune response against the graft. Perfect matching at clinically relevant HLA loci does not obviate the need for immunosuppression, suggesting that additional genetic variation plays a critical role in both short- and long-term graft outcomes. By combining patient data and samples from supranational cohorts across the United Kingdom and European Union, we performed the first large-scale genome-wide association study analyzing both donor and recipient DNA in 2094 complete renal transplant-pairs with replication in 5866 complete pairs. We studied deceased-donor grafts allocated on the basis of preferential HLA matching, which provided some control for HLA genetic effects. No strong donor or recipient genetic effects contributing to long- or short-term allograft survival were found outside the HLA region. We discuss the implications for future research and clinical application

    Tuning the relative affinities for activating and repressing operators of a temporally regulated restriction-modification system

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    Most type II restriction-modification (R-M) systems produce separate endonuclease (REase) and methyltransferase (MTase) proteins. After R-M genes enter a new cell, MTase activity must appear before REase or the host chromosome will be cleaved. Temporal control of these genes thus has life-or-death consequences. PvuII and some other R-M systems delay endonuclease expression by cotranscribing the REase gene with the upstream gene for an autogenous activator/repressor (C protein). C.PvuII was previously shown to have low levels early, but positive feedback later boosts transcription of the C and REase genes. The MTase is expressed without delay, and protects the host DNA. C.PvuII binds to two sites upstream of its gene: OL, associated with activation, and OR, associated with repression. Even when symmetry elements of each operator are made identical, C.PvuII binds preferentially to OL. In this study, the intra-operator spacers are shown to modulate relative C.PvuII affinity. In light of a recently reported C.Esp1396I-DNA co-crystal structure, in vitro and in vivo effects of altering OL and OR spacers were determined. The results suggest that the GACTnnnAGTC consensus is the primary determinant of C.PvuII binding affinity, with intra-operator spacers playing a fine-tuning role that affects mobility of this R-M system
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