Showing papers by "Colorado State University published in 2006"

The Role of Root Exudates in Rhizosphere Interactions with Plants and Other Organisms

Abstract: The rhizosphere encompasses the millimeters of soil surrounding a plant root where complex biological and ecological processes occur. This review describes recent advances in elucidating the role of root exudates in interactions between plant roots and other plants, microbes, and nematodes present in the rhizosphere. Evidence indicating that root exudates may take part in the signaling events that initiate the execution of these interactions is also presented. Various positive and negative plant-plant and plant-microbe interactions are highlighted and described from the molecular to the ecosystem scale. Furthermore, methodologies to address these interactions under laboratory conditions are presented.

A single parameter representation of hygroscopic growth and cloud condensation nucleus activity

Abstract: We present a method to describe the relationship between particle dry diameter and cloud condensation nu- clei (CCN) activity using a single hygroscopicity parameter . Values of the hygroscopicity parameter are between 0.5 and 1.4 for highly-CCN-active salts such as sodium chlo- ride, between 0.01 and 0.5 for slightly to very hygroscopic organic species, and 0 for nonhygroscopic components. Ob- servations indicate that atmospheric particulate matter is typ- ically characterized by 0.1<< 0.9. If compositional data are available and if the hygroscopicity parameter of each com- ponent is known, a multicomponent hygroscopicity parame- ter can be computed by weighting component hygroscopic- ity parameters by their volume fractions in the mixture. In the absence of information on chemical composition, exper- imental data for complex, multicomponent particles can be fitted to obtain the hygroscopicity parameter. The hygroscop- icity parameter can thus also be used to conveniently model the CCN activity of atmospheric particles, including those containing insoluble components. We confirm the applica- bility of the hygroscopicity parameter and its mixing rule by applying it to published hygroscopic diameter growth fac- tor and CCN-activation data for single- and multi-component particles containing varying amounts of inorganic, organic and surface active compounds. We suggest that may be fit to CCN data assuming s/a=0.072 J m 2 and present a table of derived for this value and T=298.15 K. The predicted hygroscopicities for mixtures that contain the surfactant ful- vic acid agree within uncertainties with the measured values. It thus appears that this approach is adequate for predict- ing CCN activity of mixed particles containing surface ac- tive materials, but the generality of this assumption requires further verification.

Novel ecosystems: theoretical and management aspects of the new ecological world order

Abstract: We e xplore the issues relevant to those types of ecosystems containing new combinations of species that arise through human action, environmental change, and the impacts of the deliberate and inadvertent introduction of species from other regions. Novel ecosystems (also termed ‘emerging ecosystems’) result when species occur in combinations and relative abundances that have not occurred previously within a given biome. Key characteristics are novelty, in the form of new species combinations and the potential for changes in ecosystem functioning, and human agency, in that these ecosystems are the result of deliberate or inadvertent human action. As more of the Earth becomes transformed by human actions, novel ecosystems increase in importance, but are relatively little studied. Either the degradation or invasion of native or ‘wild’ ecosystems or the abandonment of intensively managed systems can result in the formation of these novel systems. Important considerations are whether these new systems are persistent and what values they may have. It is likely that it may be very difficult or costly to return such systems to their previous state, and hence consideration needs to be given to developing appropriate management goals and approaches.

Antibiotic Resistance Genes as Emerging Contaminants: Studies in Northern Colorado†

Abstract: This study explores antibiotic resistance genes (ARGs) as emerging environmental contaminants. The purpose of this study was to investigate the occurrence of ARGs in various environmental compartments in northern Colorado, including Cache La Poudre (Poudre) River sediments, irrigation ditches, dairy lagoons, and the effluents of wastewater recycling and drinking water treatment plants. Additionally, ARG concentrations in the Poudre River sediments were analyzed at three time points at five sites with varying levels of urban/agricultural impact and compared with two previously published time points. It was expected that ARG concentrations would be significantly higher in environments directly impacted by urban/agricultural activity than in pristine and lesser-impacted environments. Polymerase chain reaction (PCR) detection assays were applied to detect the presence/absence of several tetracycline and sulfonamide ARGs. Quantitative real-time PCR was used to further quantify two tetracycline ARGs (tet(W) and...

Bats: Important Reservoir Hosts of Emerging Viruses

Abstract: Bats (order Chiroptera, suborders Megachiroptera and Microchiroptera) are abundant, diverse, and geographically widespread. These mammals provide us with resources, but their importance is minimized and many of their populations and species are at risk, even threatened or endangered. Some of their characteristics (food choices, colonial or solitary nature, population structure, ability to fly, seasonal migration and daily movement patterns, torpor and hibernation, life span, roosting behaviors, ability to echolocate, virus susceptibility) make them exquisitely suitable hosts of viruses and other disease agents. Bats of certain species are well recognized as being capable of transmitting rabies virus, but recent observations of outbreaks and epidemics of newly recognized human and livestock diseases caused by viruses transmitted by various megachiropteran and microchiropteran bats have drawn attention anew to these remarkable mammals. This paper summarizes information regarding chiropteran characteristics and information regarding 66 viruses that have been isolated from bats. From these summaries, it is clear that we do not know enough about bat biology, that we are doing too little in terms of bat conservation, and that there remain a multitude of questions regarding the role of bats in disease emergence.

Plant community responses to experimental warming across the tundra biome

Abstract: Recent observations of changes in some tundra ecosystems appear to be responses to a warming climate. Several experimental studies have shown that tundra plants and ecosystems can respond strongly to environmental change, including warming; however, most studies were limited to a single location and were of short duration and based on a variety of experimental designs. In addition, comparisons among studies are difficult because a variety of techniques have been used to achieve experimental warming and different measurements have been used to assess responses. We used metaanalysis on plant community measurements from standardized warming experiments at 11 locations across the tundra biome involved in the International Tundra Experiment. The passive warming treatment increased plant-level air temperature by 1-3°C, which is in the range of predicted and observed warming for tundra regions. Responses were rapid and detected in whole plant communities after only two growing seasons. Overall, warming increased height and cover of deciduous shrubs and graminoids, decreased cover of mosses and lichens, and decreased species diversity and evenness. These results predict that warming will cause a decline in biodiversity across a wide variety of tundra, at least in the short term. They also provide rigorous experimental evidence that recently observed increases in shrub cover in many tundra regions are in response to climate warming. These changes have important implications for processes and interactions within tundra ecosystems and between tundra and the atmosphere.

The challenge of providing environmental flow rules to sustain river ecosystems

Abstract: Accounting for natural differences in flow variability among rivers, and understanding the importance of this for the protection of freshwater biodiversity and maintenance of goods and services that rivers provide, is a great challenge for water managers and scientists. Nevertheless, despite considerable progress in understanding how flow variability sustains river ecosystems, there is a growing temptation to ignore natural system complexity in favor of simplistic, static, environmental flow ''rules'' to resolve pressing river management issues. We argue that such approaches are misguided and will ultimately contribute to further degradation of river ecosystems. In the absence of detailed empirical information of environmental flow requirements for rivers, we propose a generic approach that incorporates essential aspects of natural flow variability shared across particular classes of rivers that can be validated with empirical biological data and other information in a calibration process. We argue that this approach can bridge the gap between simple hydrological ''rules of thumb'' and more comprehensive environmental flow assessments and experimental flow restoration projects.

Ecological Thresholds: The Key to Successful Environmental Management or an Important Concept with No Practical Application?

Abstract: An ecological threshold is the point at which there is an abrupt change in an ecosystem quality, property or phenomenon, or where small changes in an environmental driver produce large responses in the ecosystem. Analysis of thresholds is complicated by nonlinear dynamics and by multiple factor controls that operate at diverse spatial and temporal scales. These complexities have challenged the use and utility of threshold concepts in environmental management despite great concern about preventing dramatic state changes in valued ecosystems, the need for determining critical pollutant loads and the ubiquity of other threshold-based environmental problems. In this paper we define the scope of the thresholds concept in ecological science and discuss methods for identifying and investigating thresholds using a variety of examples from terrestrial and aquatic environments, at ecosystem, landscape and regional scales. We end with a discussion of key research needs in this area.

How Well Do We Understand and Evaluate Climate Change Feedback Processes

Abstract: Processes in the climate system that can either amplify or dampen the climate response to an external perturbation are referred to as climate feedbacks. Climate sensitivity estimates depend critically on radiative feedbacks associated with water vapor, lapse rate, clouds, snow, and sea ice, and global estimates of these feedbacks differ among general circulation models. By reviewing recent observational, numerical, and theoretical studies, this paper shows that there has been progress since the Third Assessment Report of the Intergovernmental Panel on Climate Change in (i) the understanding of the physical mechanisms involved in these feedbacks, (ii) the interpretation of intermodel differences in global estimates of these feedbacks, and (iii) the development of methodologies of evaluation of these feedbacks ( or of some components) using observations. This suggests that continuing developments in climate feedback research will progressively help make it possible to constrain the GCMs' range of climate feedbacks and climate sensitivity through an ensemble of diagnostics based on physical understanding and observations.

Where are the most intense thunderstorms on earth

Abstract: The instruments on the Tropical Rainfall Measuring Mission (TRMM) satellite have been observing storms as well as rainfall since December 1997. This paper shows the results of a systematic search through seven full years of the TRMM database to find indicators of uncommonly intense storms. These include strong (> 40 dBZ) radar echoes extending to great heights, high lightning flash rates, and very low brightness temperatures at 37 and 85 GHz. These are used as proxy variables, indicating powerful convective updrafts. The main physical principles supporting this assertion involve the effects of such updrafts in producing and lofting large ice particles high into the storm, where TRMM's radar easily detects them near storm top. TRMM's passive microwave radiometer detects the large integrated ice water path as very low brightness temperatures, while high lightning flash rates are a physically related but instrumentally independent indicator. The geographical locations of these very intense convective storms ...

Biotic interactions and plant invasions

Abstract: Introduced plant populations lose interactions with enemies, mutualists and competitors from their native ranges, and gain interactions with new species, under new abiotic conditions. From a biogeographical perspective, differences in the assemblage of interacting species, as well as in abiotic conditions, may explain the demographic success of the introduced plant populations relative to conspecifics in their native range. Within invaded communities, the new interactions and conditions experienced by the invader may influence both its demographic success and its effects on native biodiversity. Here, we examine indirect effects involving enemies, mutualists and competitors of introduced plants, and effects of abiotic conditions on biotic interactions. We then synthesize ideas building on Darwin’s idea that the kinds of new interactions gained by an introduced population will depend on its relatedness to native populations. This yields a heuristic framework to explain how biotic interactions and abiotic conditions influence invader success. We conclude that species introductions generally alter plants interactions with enemies, mutualists and competitors, and that there is increasing evidence that these altered interactions jointly influence the success of introduced populations. Ecology Letters (2006) 9: 726‐740

Functional trait niches of North American lotic insects: traits-based ecological applications in light of phylogenetic relationships

Abstract: The use of species traits to characterize the functional composition of benthic invertebrate communities has become well established in the ecological literature. This approach holds much potential for predicting changes of both species and species assemblages along environmental gradients in terms of traits that are sensitive to local environmental conditions. Further, in the burgeoning field of biomonitoring, a functional approach provides a predictive basis for understanding community-level responses along gradients of environmental alteration caused by humans. Despite much progress in recent years, the full potential of the functional traits-based approach is currently limited by several factors, both conceptual and methodological. Most notably, we lack adequate understanding of how individual traits are intercorrelated and how this lack of independence among traits reflects phylogenetic (evolutionary) constraint. A better understanding is needed if we are to make the transition from a largely...

mini-Tn7 insertion in bacteria with single attTn7 sites: example Pseudomonas aeruginosa.

Abstract: Broad host-range mini-Tn7 vectors facilitate integration of single-copy genes into bacterial chromosomes at a neutral, naturally evolved site. Here we present a protocol for employing the mini-Tn7 system in bacteria with single attTn7 sites, using the example Pseudomonas aeruginosa. The procedure involves, first, cloning of the genes of interest into an appropriate mini-Tn7 vector; second, co-transfer of the recombinant mini-Tn7 vector and a helper plasmid encoding the Tn7 site-specific transposition pathway into P. aeruginosa by either transformation or conjugation, followed by selection of insertion-containing strains; third, PCR verification of mini-Tn7 insertions; and last, optional Flp-mediated excision of the antibiotic-resistance selection marker present on the chromosomally integrated mini-Tn7 element. From start to verification of the insertion events, the procedure takes as little as 4 d and is very efficient, yielding several thousand transformants per microgram of input DNA or conjugation mixture. In contrast to existing chromosome integration systems, which are mostly based on species-specific phage or more-or-less randomly integrating transposons, the mini-Tn7 system is characterized by its ready adaptability to various bacterial hosts, its site specificity and its efficiency. Vectors have been developed for gene complementation, construction of gene fusions, regulated gene expression and reporter gene tagging.

The comparative effectiveness of web-based and classroom instruction: a meta-analysis

Abstract: Meta-analytic techniques were used to examine the effectiveness of Web-based instruction (WBI) relative to classroom instruction (CI) and to examine moderators of the comparative effectiveness of the 2 delivery media. The overall results indicated WBI was 6% more effective than CI for teaching declarative knowledge, the 2 delivery media were equally effective for teaching procedural knowledge, and trainees were equally satisfied with WBI and CI. However, WBI and CI were equally effective for teaching declarative knowledge when the same instructional methods were used to deliver both WBI and CI, suggesting media effects are spurious and supporting Clark's (1983, 1994) theory. Finally, WBI was 19% more effective than CI for teaching declarative knowledge when Web-based trainees were provided with control, in long courses, and when trainees practiced the training material and received feedback during training. Study limitations and directions for future research are discussed.

Are mountain passes higher in the tropics? Janzen's hypothesis revisited

Abstract: Synopsis In 1967 Daniel Janzen published an influential paper titled “Why Mountain Passes Are Higher in the Tropics.” Janzen derived a simple climatic-physiological model predicting that tropical mountain passes would be more effective barriers to organismal dispersal than would temperate-zone passes of equivalent altitude. This prediction derived from a recognition that the annual variation in ambient temperature at any site is relatively low in the tropics. Such low variation within sites not only reduces the seasonal overlap in thermal regimes between low- and high-altitude sites, but should also select for organisms with narrow physiological tolerances to temperature. As a result, Janzen predicted that tropical lowland organisms are more likely to encounter a mountain pass as a physiological barrier to dispersal (hence “higher”), which should in turn favor smaller distributions and an increase in species turnover along altitudinal gradients. This synthetic hypothesis has long been at the center of discussions of latitudinal patterns of physiological adaptation and of species diversity. Here we review some of the key assumptions and predictions of Janzen’s hypothesis. We find general support for many assumptions and predictions, but call attention to several issues that somewhat ameliorate the generality of Janzen’s classic hypothesis.

Cities and the Multilevel Governance of Global Climate Change

Abstract: We explore how the Cities for Climate Protection (CCP) program, a network that is simultaneously global and local, state and nonstate, could be conceptualized as part of global environmental governance. We suggest that traditional approaches to international relations— regime theory and transnational networks—offer limited conceptual space for analyzing such networks. These approaches obscure how the governance of global climate change takes place through processes and institutions operating at and between a variety of scales and involving a range of actors with different levels and forms of authority. We contend that it is only by taking a multilevel perspective that we can fully capture the social, political, and economic processes that shape global environmental governance. KEYWORDS: climate change, multilevel governance, global environmental governance, transnational networks.

Saturated fatty acids induce endoplasmic reticulum stress and apoptosis independently of ceramide in liver cells

Abstract: Accumulation of lipids in nonadipose tissues can lead to cell dysfunction and cell death, a phenomenon known as lipotoxicity. However, the signaling pathways and mechanisms linking lipid accumulati...

A Vortical Hot Tower Route to Tropical Cyclogenesis.

Abstract: A nonhydrostatic cloud model is used to examine the thermomechanics of tropical cyclogenesis under realistic meteorological conditions. Observations motivate the focus on the problem of how a midtropospheric cyclonic vortex, a frequent by-product of mesoscale convective systems during summertime conditions over tropical oceans, may be transformed into a surface-concentrated (warm core) tropical depression. As a first step, the vortex transformation is studied in the absence of vertical wind shear or zonal flow. Within the cyclonic vorticity-rich environment of the mesoscale convective vortex (MCV) embryo, the simulations demonstrate that small-scale cumulonimbus towers possessing intense cyclonic vorticity in their cores [vortical hot towers (VHTs)] emerge as the preferred coherent structures. The VHTs acquire their vertical vorticity through a combination of tilting of MCV horizontal vorticity and stretching of MCV and VHT-generated vertical vorticity. Horizontally localized and exhibiting conve...

Habitat loss, trophic collapse, and the decline of ecosystem services.

Abstract: The provisioning of sustaining goods and services that we obtain from natural ecosystems is a strong economic justification for the conservation of biological diversity. Understanding the relationship between these goods and services and changes in the size, arrangement, and quality of natural habitats is a fundamental challenge of natural resource management. In this paper, we describe a new approach to assessing the implications of habitat loss for loss of ecosystem services by examining how the provision of different ecosystem services is dominated by species from different trophic levels. We then develop a mathematical model that illustrates how declines in habitat quality and quantity lead to sequential losses of trophic diversity. The model suggests that declines in the provisioning of services will initially be slow but will then accelerate as species from higher trophic levels are lost at faster rates. Comparison of these patterns with empirical examples of ecosystem collapse (and assembly) suggest similar patterns occur in natural systems impacted by anthropogenic change. In general, ecosystem goods and services provided by species in the upper trophic levels will be lost before those provided by species lower in the food chain. The decrease in terrestrial food chain length predicted by the model parallels that observed in the oceans following overexploitation. The large area requirements of higher trophic levels make them as susceptible to extinction as they are in marine systems where they are systematically exploited. Whereas the traditional species-area curve suggests that 50% of species are driven extinct by an order-of-magnitude decline in habitat abundance, this magnitude of loss may represent the loss of an entire trophic level and all the ecosystem services performed by the species on this trophic level.

An intercomparison of large-eddy simulations of the stable boundary layer

Abstract: Results are presented from the first intercomparison of large-eddy simulation (LES) models for the stable boundary layer (SBL), as part of the Global Energy and Water Cycle Experiment Atmospheric Boundary Layer Study initiative. A moderately stable case is used, based on Arctic observations. All models produce successful simulations, in as much as they generate resolved turbulence and reflect many of the results from local scaling theory and observations. Simulations performed at 1-m and 2-m resolution show only small changes in the mean profiles compared to coarser resolutions. Also, sensitivity to subgrid models for individual models highlights their importance in SBL simulation at moderate resolution (6.25 m). Stability functions are derived from the LES using typical mixing lengths used in numerical weather prediction (NWP) and climate models. The functions have smaller values than those used in NWP. There is also support for the use of K-profile similarity in parametrizations. Thus, the results provide improved understanding and motivate future developments of the parametrization of the SBL.

Saturated Fatty Acids Promote Endoplasmic Reticulum Stress and Liver Injury in Rats with Hepatic Steatosis

Abstract: Nonalcoholic fatty liver disease is a relatively new hepatic sequela of obesity and type 2 diabetes. The pathogenesis of liver injury and disease progression in nonalcoholic fatty liver disease, however, is poorly understood. The present study examined the hypothesis that the composition of fatty acids in the steatotic liver promotes liver injury. Using dietary models of hepatic steatosis characterized by similar accumulation of total triglyceride but different composition of fatty acids, we show that hepatic steatosis characterized by increased saturated fatty acids is associated with increased liver injury and markers of endoplasmic reticulum stress (e.g. X-box binding protein-1 mRNA splicing and glucose-regulated protein 78 expression). These changes preceded and/or occurred independently of obesity and differences in leptin, TNFalpha, insulin action, and mitochondrial function. In addition, hepatic steatosis characterized by increased saturated fatty acids reduced proliferative capacity in response to partial hepatectomy and increased liver injury in response to lipopolysaccharide. These data suggest that the composition of fatty acids in the steatotic liver is an important determinant of susceptibility to liver injury.

Infectious Prions in the Saliva and Blood of Deer with Chronic Wasting Disease

Abstract: A critical concern in the transmission of prion diseases, including chronic wasting disease (CWD) of cervids, is the potential presence of prions in body fluids. To address this issue directly, we exposed cohorts of CWD-naive deer to saliva, blood, or urine and feces from CWD-positive deer. We found infectious prions capable of transmitting CWD in saliva (by the oral route) and in blood (by transfusion). The results help to explain the facile transmission of CWD among cervids and prompt caution concerning contact with body fluids in prion infections.

The nucleosomal surface as a docking station for Kaposi's sarcoma herpesvirus LANA.

Abstract: Kaposi's sarcoma-associated herpesvirus (KSHV) latency-associated nuclear antigen (LANA) mediates viral genome attachment to mitotic chromosomes. We find that N-terminal LANA docks onto chromosomes by binding nucleosomes through the folded region of histones H2A-H2B. The same LANA residues were required for both H2A-H2B binding and chromosome association. Further, LANA did not bind Xenopus sperm chromatin, which is deficient in H2A-H2B; chromatin binding was rescued after assembly of nucleosomes containing H2A-H2B. We also describe the 2.9-angstrom crystal structure of a nucleosome complexed with the first 23 LANA amino acids. The LANA peptide forms a hairpin that interacts exclusively with an acidic H2A-H2B region that is implicated in the formation of higher order chromatin structure. Our findings present a paradigm for how nucleosomes may serve as binding platforms for viral and cellular proteins and reveal a previously unknown mechanism for KSHV latency.