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At least 415 records · Page 23
All sourcesNASA NTRSDOE OSTI
DOE OSTI2023

Concurrent colonization of rodent kidneys with multiple species and serogroups of pathogenic Leptospira

ABSTRACT Rodents are important reservoir hosts of pathogenic leptospires in the US Virgin Islands. Our previous work determined that trapped rodents were colonized withLeptospira borgpeterseniiserogroup Ballum (n= 48) and/orLeptospira kirschneriserogroup Icterohaemorrhagiae (n= 3). In addition, nine rodents appeared to be colonized with a mixed population comprising more than one species/serogroup. The aim of this study was to validate this finding by characterizing clonal isolates derived from cultures of mixed species. Cultures of presumptive mixed species (designated LR1, LR5, LR37, LR57, LR60, LR61, LR68, LR70, and LR72) were propagated in different media including Hornsby-Alt-Nally (HAN) media, incubated at both 29℃ and 37℃, and T80/40/LH incubated at 29℃. Polyclonal reference antisera specific for serogroup Ballum and Icterohaemorrhagiae were used to enrich for different serogroups followed by subculture on agar plates. Individual colonies were then selected for genotyping and serotyping. Of the nine cultures of mixed species/serogroups, a single clonal isolate was separated in five of them:L. borgpeterseniiserogroup Ballum in LR1, LR5, and LR37, andL. kirschneriserogroup Icterohaemorrhagiae in LR60 and LR72. In four of the cultures with mixed species (LR57, LR61, LR68, and LR70), clonal isolates of bothL. borgpeterseniiserogroup Ballum andL. kirschneriserogroup Icterohaemorrhagiae were recovered. Our results definitively establish that rodents can be colonized with more than one species/serogroup ofLeptospiraconcurrently. The identification and characterization of multiple species/serogroups ofLeptospirafrom individual reservoir hosts of infection are essential to understand the epidemiology and transmission of disease to both human and domestic animal populations. IMPORTANCE PathogenicLeptospira, the causative agent of human and animal leptospirosis, comprise a diverse genus of species/serogroups which are inherently difficult to isolate from mammalian hosts due to fastidious growth requirements. Molecular evidence has indicated that reservoir hosts ofLeptospiramay shed multiple species concurrently. However, evidence of this phenomena by culture has been lacking. Culture is definitive and is essential for comprehensive characterization of recovered isolates by high-resolution genome sequencing and serotyping. In this work, a protocol using recently developed novel media formulations, in conjunction with reference antisera, was developed and validated to demonstrate the recovery of multiple species/serogroups of pathogenicLeptospirafrom the same host. The identification and characterization of multiple species/serogroups ofLeptospirafrom individual reservoir hosts of infection are essential to understand the epidemiology and transmission of disease to both human and domestic animal populations.

Biotechnology & Applied Microbiology↗
DOE OSTI2015

Structural Insight into How Bacteria Prevent Interference between Multiple Divergent Type IV Secretion Systems

ABSTRACT Prokaryotes use type IV secretion systems (T4SSs) to translocate substrates (e.g., nucleoprotein, DNA, and protein) and/or elaborate surface structures (i.e., pili or adhesins). Bacterial genomes may encode multiple T4SSs, e.g., there are three functionally divergent T4SSs in some Bartonella species ( vir , vbh , and trw ). In a unique case, most rickettsial species encode a T4SS ( rvh ) enriched with gene duplication. Within single genomes, the evolutionary and functional implications of cross-system interchangeability of analogous T4SS protein components remains poorly understood. To lend insight into cross-system interchangeability, we analyzed the VirB8 family of T4SS channel proteins. Crystal structures of three VirB8 and two TrwG Bartonella proteins revealed highly conserved C-terminal periplasmic domain folds and dimerization interfaces, despite tremendous sequence divergence. This implies remarkable structural constraints for VirB8 components in the assembly of a functional T4SS. VirB8/TrwG heterodimers, determined via bacterial two-hybrid assays and molecular modeling, indicate that differential expression of trw and vir systems is the likely barrier to VirB8-TrwG interchangeability. We also determined the crystal structure of Rickettsia typhi RvhB8-II and modeled its coexpressed divergent paralog RvhB8-I. Remarkably, while RvhB8-I dimerizes and is structurally similar to other VirB8 proteins, the RvhB8-II dimer interface deviates substantially from other VirB8 structures, potentially preventing RvhB8-I/RvhB8-II heterodimerization. For the rvh T4SS, the evolution of divergent VirB8 paralogs implies a functional diversification that is unknown in other T4SSs. Collectively, our data identify two different constraints (spatiotemporal for Bartonella trw and vir T4SSs and structural for rvh T4SSs) that mediate the functionality of multiple divergent T4SSs within a single bacterium. IMPORTANCE Assembly of multiprotein complexes at the right time and at the right cellular location is a fundamentally important task for any organism. In this respect, bacteria that express multiple analogous type IV secretion systems (T4SSs), each composed of around 12 different components, face an overwhelming complexity. Our work here presents the first structural investigation on factors regulating the maintenance of multiple T4SSs within a single bacterium. The structural data imply that the T4SS-expressing bacteria rely on two strategies to prevent cross-system interchangeability: (i) tight temporal regulation of expression or (ii) rapid diversification of the T4SS components. T4SSs are ideal drug targets provided that no analogous counterparts are known from eukaryotes. Drugs targeting the barriers to cross-system interchangeability (i.e., regulators) could dysregulate the structural and functional independence of discrete systems, potentially creating interference that prevents their efficient coordination throughout bacterial infection.

Gillespie, Joseph J.↗
DOE OSTI2016

Multiplicity and transverse momentum evolution of charge-dependent correlations in pp, p–Pb, and Pb–Pb collisions at the LHC

Here, we report on two-particle charge-dependent correlations in pp, p–Pb, and Pb–Pb collisions as a function of the pseudorapidity and azimuthal angle difference, Δη and Δφ respectively. These correlations are studied using the balance function that probes the charge creation time and the development of collectivity in the produced system. The dependence of the balance function on the event multiplicity as well as on the trigger and associated particle transverse momentum (p T ) in pp, p–Pb, and Pb–Pb collisions at √ s NN = 7, 5.02, and 2.76 TeV, respectively, are presented. In the low transverse momentum region, for 0.2 < p T < 2.0 GeV/c, the balance function becomes narrower in both Δη and Δφ directions in all three systems for events with higher multiplicity. The experimental findings favor models that either incorporate some collective behavior (e.g. AMPT) or different mechanisms that lead to effects that resemble collective behavior (e.g. PYTHIA8 with color reconnection). For higher values of transverse momenta the balance function becomes even narrower but exhibits no multiplicity dependence, indicating that the observed narrowing with increasing multiplicity at low p T is a feature of bulk particle production.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗
DOE OSTI2019

Charged-particle production as a function of multiplicity and transverse spherocity in pp collisions at $ \sqrt{s}$ = 5.02 and 13 TeV

Here, we present a study of the inclusive charged-particle transverse momentum ( p T ) spectra as a function of charged-particle multiplicity density at mid-pseudorapidity, d N ch /dη, in pp collisions at $ \sqrt{s}$ = 5.02 and 13 TeV covering the kinematic range |η| < 0.8 and 0.15 < p T < 20 GeV/ c . The results are presented for events with at least one charged particle in |η| < 1 (INEL>0). The p T spectra are reported for two multiplicity estimators covering different pseudorapidity regions. The p T spectra normalized to that for INEL>0 show little energy dependence. Moreover, the high- p T yields of charged particles increase faster than the charged-particle multiplicity density. The average p T as a function of multiplicity and transverse spherocity is reported for pp collisions at $ \sqrt{s}$=13 TeV. For low- (high-) spherocity events, corresponding to jet-like (isotropic) events, the average p T is higher (smaller) than that measured in INEL>0 pp collisions. Within uncertainties, the functional form of &lang; p T &rang; ( N ch ) is not affected by the spherocity selection. While EPOS LHC gives a good description of many features of data, PYTHIA overestimates the average p T in jet-like events.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗
DOE OSTI2020

Multiplicity dependence of $\pi$, K, and p production in pp collisions at $\sqrt{s}$ = 13 TeV

This paper presents the measurements of π ± , K ± , p and $\bar{p}$ transverse momentum (p T ) spectra as a function of charged-particle multiplicity density in proton–proton (pp) collisions at $\sqrt{s}$ = 13TeV with the ALICE detector at the LHC. Such study allows us to isolate the center-of-mass energy dependence of light-flavour particle production. The measurements reported here cover a p T range from 0.1 to 20 GeV / c and are done in the rapidity interval | y| < 0.5. The p T -differential particle ratios exhibit an evolution with multiplicity, similar to that observed in pp collisions at $\sqrt{s}$ = 7 TeV, which is qualitatively described by some of the hydrodynamical and pQCD-inspired models discussed in this paper. Furthermore, the p T -integrated hadron-to-pion yield ratios measured in pp collisions at two different center-of-mass energies are consistent when compared at similar multiplicities. This also extends to strange and multi-strange hadrons, suggesting that, at LHC energies, particle hadrochemistry scales with particle multiplicity the same way under different collision energies and colliding systems.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗
DOE OSTI2021

Measurement of charged particle multiplicity distributions in DIS at HERA and its implication to entanglement entropy of partons

Charged particle multiplicity distributions in positron-proton deep inelastic scattering at a centre-of-mass energy √s = 319 GeV are measured. The data are collected with the H1 detector at HERA corresponding to an integrated luminosity of 136 pb -1 . Charged particle multiplicities are measured as a function of photon virtuality Q 2 , inelasticity y and pseudorapidity η in the laboratory and the hadronic centre-of-mass frames. Predictions from different Monte Carlo models are compared to the data. The first and second moments of the multiplicity distributions are determined and the KNO scaling behaviour is investigated. The multiplicity distributions as a function of Q 2 and the Bjorken variable x bj are converted to the hadron entropy S hadron , and predictions from a quantum entanglement model are tested.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2021

Pseudorapidity distributions of charged particles as a function of mid- and forward rapidity multiplicities in pp collisions at $\sqrt{s}$ = 5.02, 7 and 13 TeV

The multiplicity dependence of the pseudorapidity density of charged particles in proton–proton (pp) collisions at centre-of-mass energies √s = 5.02, 7 and 13 TeV measured by ALICE is reported. The analysis relies on track segments measured in the midrapidity range (|η| < 1.5). Results are presented for inelastic events having at least one charged particle produced in the pseudorapidity interval |η| < 1. The multiplicity dependence of the pseudorapidity density of charged particles is measured with mid- and forward rapidity multiplicity estimators, the latter being less affected by autocorrelations. A detailed comparison with predictions from the PYTHIA 8 and EPOS LHC event generators is also presented. The results can be used to constrain models for particle production as a function of multiplicity in pp collisions.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗
DOE OSTI2021

Charged-particle multiplicity fluctuations in Pb–Pb collisions at $\sqrt{s_{\mathrm {NN}}}$ = 2.76 TeV

Measurements of event-by-event fluctuations of charged-particle multiplicities in Pb–Pb collisions at $\sqrt{s_{\mathrm {NN}}}$ = 2.76 TeV using the ALICE detector at the CERN Large Hadron Collider (LHC) are presented in the pseudorapidity range |η| < 0.8 and transverse momentum 0.2 < p T < 2.0 GeV/c. The amplitude of the fluctuations is expressed in terms of the variance normalized by the mean of the multiplicity distribution. The η and p T dependences of the fluctuations and their evolution with respect to collision centrality are investigated. The multiplicity fluctuations tend to decrease from peripheral to central collisions. The results are compared to those obtained from HIJING and AMPT Monte Carlo event generators as well as to experimental data at lower collision energies. Additionally, the measured multiplicity fluctuations are discussed in the context of the isothermal compressibility of the high-density strongly-interacting system formed in central Pb–Pb collisions.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗
DOE OSTI2022

Multiplicity dependence of charged-particle jet production in pp collisions at $\sqrt{s}$ = 13 TeV

The multiplicity dependence of jet production in pp collisions at the centre-of-mass energy of $\sqrt{s}$ = 13 TeV is studied for the first time. Jets are reconstructed from charged particles using the anti-$k_T$ algorithm with resolution parameters $\textit{R}$ varying from 0.2 to 0.7. The jets are measured in the pseudorapidity range |$η_{\text{jet}}$| < 0.9 – $\textit{R}$ and in the transverse momentum range 5 < $p^{ch}_{\text{T,jet}}$ < 140 GeV/c. The multiplicity intervals are categorised by the ALICE forward detector V0. The $p_T$ differential cross section of charged-particle jets are compared to leading order (LO) and next-to-leading order (NLO) perturbative quantum chromodynamics (pQCD) calculations. It is found that the data are better described by the NLO calculation, although the NLO prediction overestimates the jet cross section below 20 GeV/c. The cross section ratios for different $\textit{R}$ are also measured and compared to model calculations. These measurements provide insights into the angular dependence of jet fragmentation. The jet yield increases with increasing self-normalised charged-particle multiplicity. This increase shows only a weak dependence on jet transverse momentum and resolution parameter at the highest multiplicity. While such behaviour is qualitatively described by the present version of PYTHIA, quantitative description may require implementing new mechanisms for multi-particle production in hadronic collisions.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗
DOE OSTI2026

Multiplicity dependence of f 0 (980) production in pp collisions at $\mathbf{\sqrt{s}}$ = 13 TeV

The dependence of f 0 (980) production on the final-state charged-particle multiplicity is reported for proton–proton (pp) collisions at the centre-of-mass energy, $\mathbf{\sqrt{s}}$ = 13 TeV. The production of (980) is measured with the ALICE detector via the decay channel in a midrapidity region of |y| < 0.5. The evolution of the integrated yields and mean transverse momentum of f 0 (980) as a function of charged-particle multiplicity measured in pp at $\mathbf{\sqrt{s}}$ = 13 TeV follows the trends observed in pp at $\mathbf{\sqrt{s}}$ = 5.02 TeV and in proton–lead (p–Pb) collisions at$\mathbf{\sqrt{s_{NN}}}$ = 5.02 TeV. Particle yield ratios of f 0 (980) to π ± and K* (892) are found to decrease with increasing charged-particle multiplicity. These particle ratios are compared with calculations from the canonical statistical thermal model as a function of charged-particle multiplicity. The thermal model calculations provide a better description of the decreasing trend of particle ratios when no strange or antistrange quark composition for f 0 (980) is assumed, which suggests that the data do not support significant hidden strangeness in the f 0 (980).

Abualrob, I. J. [University of Houston] (ORCID:000↗
DOE OSTI2015

Emulating Multiple Inheritance in Fortran 2003/2008

Although the high-performance computing (HPC) community increasingly embraces object-oriented programming (OOP), most HPC OOP projects employ the C++ programming language. Until recently, Fortran programmers interested in mining the benefits of OOP had to emulate OOP in Fortran 90/95. The advent of widespread compiler support for Fortran 2003 now facilitates explicitly constructing object-oriented class hierarchies via inheritance and leveraging related class behaviors such as dynamic polymorphism. Although C++ allows a class to inherit from multiple parent classes, Fortran and several other OOP languages restrict or prohibit explicit multiple inheritance relationships in order to circumvent several pitfalls associated with them. Nonetheless, what appears as an intrinsic feature in one language can be modeled as a user-constructed design pattern in another language. The present paper demonstrates how to apply the facade structural design pattern to support a multiple inheritance class relationship in Fortran 2003. The design unleashes the power of the associated class relationships for modeling complicated data structures yet avoids the ambiguities that plague some multiple inheritance scenarios.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2020

Improved recovery of cell-cycle gene expression in Saccharomyces cerevisiae from regulatory interactions in multiple omics data

Gene expression is regulated by DNA-binding transcription factors (TFs). Together with their target genes, these factors and their interactions collectively form a gene regulatory network (GRN), which is responsible for producing patterns of transcription, including cyclical processes such as genome replication and cell division. However, identifying how this network regulates the timing of these patterns, including important interactions and regulatory motifs, remains a challenging task. Results We employed four in vivo and in vitro regulatory data sets to investigate the regulatory basis of expression timing and phase-specific patterns cell-cycle expression in Saccharomyces cerevisiae . Specifically, we considered interactions based on direct binding between TF and target gene, indirect effects of TF deletion on gene expression, and computational inference. We found that the source of regulatory information significantly impacts the accuracy and completeness of recovering known cell-cycle expressed genes. The best approach involved combining TF-target and TF-TF interactions features from multiple datasets in a single model. In addition, TFs important to multiple phases of cell-cycle expression also have the greatest impact on individual phases. Important TFs regulating a cell-cycle phase also tend to form modules in the GRN, including two sub-modules composed entirely of unannotated cell-cycle regulators ( STE12-TEC1 and RAP1-HAP1-MSN4 ). Conclusion Our findings illustrate the importance of integrating both multiple omics data and regulatory motifs in order to understand the significance regulatory interactions involved in timing gene expression. This integrated approached allowed us to recover both known cell-cycles interactions and the overall pattern of phase-specific expression across the cell-cycle better than any single data set. Likewise, by looking at regulatory motifs in the form of TF-TF interactions, we identified sets of TFs whose co-regulation of target genes was important for cell-cycle expression, even when regulation by individual TFs was not. Overall, this demonstrates the power of integrating multiple data sets and models of interaction in order to understand the regulatory basis of established biological processes and their associated gene regulatory networks.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2017

Quantifying drivers of wild pig movement across multiple spatial and temporal scales

The movement behavior of an animal is determined by extrinsic and intrinsic factors that operate at multiple spatio-temporal scales, yet much of our knowledge of animal movement comes from studies that examine only one or two scales concurrently. Understanding the drivers of animal movement across multiple scales is crucial for understanding the fundamentals of movement ecology, predicting changes in distribution, describing disease dynamics, and identifying efficient methods of wildlife conservation and management. We obtained over 400,000 GPS locations of wild pigs from 13 different studies spanning six states in southern U.S.A., and quantified movement rates and home range size within a single analytical framework. We used a generalized additive mixed model framework to quantify the effects of five broad predictor categories on movement: individual-level attributes, geographic factors, landscape attributes, meteorological conditions, and temporal variables. We examined effects of predictors across three temporal scales: daily, monthly, and using all data during the study period. We considered both local environmental factors such as daily weather data and distance to various resources on the landscape, as well as factors acting at a broader spatial scale such as ecoregion and season. We found meteorological variables (temperature and pressure), landscape features (distance to water sources), a broad-scale geographic factor (ecoregion), and individual-level characteristics (sex-age class), drove wild pig movement across all scales, but both the magnitude and shape of covariate relationships to movement differed across temporal scales. The analytical framework we present can be used to assess movement patterns arising from multiple data sources for a range of species while accounting for spatio-temporal correlations. Our analyses show the magnitude by which reaction norms can change based on the temporal scale of response data, illustrating the importance of appropriately defining temporal scales of both the movement response and covariates depending on the intended implications of research (e.g., predicting effects of movement due to climate change versus planning local-scale management). We argue that consideration of multiple spatial scales within the same framework (rather than comparing across separate studies post-hoc) gives a more accurate quantification of cross-scale spatial effects by appropriately accounting for error correlation.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2015

The permeation behavior of deuterium through 1Cr18Ni9Ti stainless steel with TiN+TiC-TiN multiple films

The prevention of tritium losses via permeation through structure components is an important issue in fusion technology. The production of thin layers on materials with low diffusivity and/or low surface recombination constants (so-called permeation barriers) seems to be the most practical method to reduce or hinder the permeation of tritium through materials. TiN+TiC+TiN multiple films are deposited on the surface of 1Cr18Ni9Ti stainless steel by ion-beam assisted deposition technology. The characteristics of films are tested by XPS ASEM and XRD, which shows that the film are compact and uniform with a thickness of about 15 μm, and have a good adherence with the substrate below 773 K. The diffraction peaks in the XRD patterns for TiC and TiN are broadened, implying that the multiple films are deposited on the surface of 1Cr18Ni9Ti stainless steel. Meanwhile, the C-H bonded CH{sub 4}-appears in the infrared spectra of multiple films, suggesting that the CH{sub 4}- is in a static state, so hydrogen atom cannot migrate from the site bonded with carbon to a neighboring site. The measured deuterium permeability in 1Cr18Ni9Ti stainless steel coated with multiple films is 2-3 orders of magnitude lower than that of pure 1Cr18Ni9Ti stainless steel substrate from 473 K to 773 K. However, this barrier is partly destroyed above 773 K.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
DOE OSTI2017

Search for new phenomena in a lepton plus high jet multiplicity final state with the ATLAS experiment using s = 13 Tev proton-proton collision data

CERN-LHC. A search for new phenomena in final states characterized by high jet multiplicity, an isolated lepton (electron or muon) and either zero or at least three b-tagged jets is presented. The search uses 36.1 fb-1 of sqrt(s) = 13 TeV proton-proton collision data collected by the ATLAS experiment at the Large Hadron Collider in 2015 and 2016. The dominant sources of background are estimated using parameterized extrapolations, based on observables at medium jet multiplicity, to predict the b-tagged jet multiplicity distribution at the higher jet multiplicities used in the search. No significant excess over the Standard Model expectation is observed and 95% confidence-level limits are extracted constraining four simplified models of R-parity-violating supersymmetry that feature either gluino or top-squark pair production. The exclusion limits reach as high as 2.1 TeV in gluino mass and 1.2 TeV in top-squark mass in the models considered. In addition, an upper limit is set on the cross-section for Standard Model tttt production of 60 fb (6.5 times the Standard Model prediction) at 95% confidence level. Finally, model-independent limits are set on the contribution from new phenomena to the signal-region yields.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗
DOE OSTI2014

Numerical Evidence of Multiple Solutions for the Reynolds-Averaged Navier–Stokes Equations

In this paper, evidence is presented for the existence of multiple solutions of Reynolds-averaged Navier–Stokes equations with the one-equation Spalart–Allmaras and two-equation Wilcox $k-ω$ turbulence models on fixed grids in three dimensions and how they were obtained is described. The two major configurations considered are an “academic” extruded two-dimensional airfoil geometry and the trap wing test case. The observed appearance of the multiple solutions seems to be closely related to smooth body separation (sometimes massive) routinely observed in flows over high-lift configurations, especially near stall angles of attack. The results are obtained and cross-verified with two stabilized finite-element codes (streamwise upwind Petrov–Galerkin), which provide residual converged results for complex flows with second-order discretizations. In the paper, the ways multiple solutions have been obtained are described, including such obvious ones as providing a different initial guess to the steady-state solver as well as somewhat unexpected (in this context) techniques of using implicit residual smoothing while time marching to steady state. The phenomenon of the so-called pseudosolutions is also discussed, which is loosely defined as solutions to the discrete system of equations having “sharp” convergence behavior (sometimes up to six to seven orders of the relative residual reduction), which fail to achieve the stronger, machine-zero convergence criterion. Some numerical observations are also presented on the sensitivity of the obtained multiple solutions to the discretization and grid perturbations.

Engineering↗
DOE OSTI2025

Assessing the cumulative effects of nearshore habitat restoration actions for multiple populations of juvenile salmon in Whidbey Basin, Washington: foundation and approach for synthesis and evaluation

Ecosystem restoration is a common tool for re-establishing ecosystem processes, structures, and functions to improve biodiversity and services in coastal and estuarine ecosystems. In the Salish Sea, salmon habitats have been fragmented, reduced in size, and diminished in quality, and the ecosystem processes that form and sustain these habitats have been degraded and disrupted as well. This loss is especially prevalent in estuaries, where up to 90% of former salmon habitat has been lost or compromised. Salmon species are integral to the identities and cultures of people in the Pacific Northwest, yet salmon abundances remain at historic lows, especially in urbanized areas. Recent investments in restoration are creating rearing habitat and repairing lost ecosystem function. However, restoration efforts in this region have largely proceeded at the site scale, with less attention to big-picture thinking regarding how restoration will effectively recover degraded or lost habitats for target species. As a result, no landscape-scale evaluation program exists, and the cumulative benefits of multiple interventions are unknown. We describe innovative methods for science synthesis related to the evaluation of cumulative effects of ecosystem restoration for Pacific salmon, using years of existing, but disparate data. Building from previous work on cumulative effects evaluation and incorporating a hierarchy of hypotheses approach, we propose using causal inference across numerous hypotheses in a framework to assess the cumulative benefits to Pacific salmon from multiple estuarine restoration projects. We present the framework as a method that can be used to address many complex questions and provide examples from the Salish Sea where the approach is being implemented. The framework draws on science synthesis from numerous fields and uses a hierarchy of hypotheses, causal analysis at multiple scales, and a new hierarchy of synthesis for assessing multiple lines of evidence documenting restoration effects on Pacific salmon. We propose causal inference to synthesize dissimilar data streams, in our case, to identify various manifestations of cumulative effects of restoration and benefits to salmon, and to further inform restoration and recovery planning. A unifying framework would allow for the detection of thresholds at which restoration provides measurable improvement and would greatly advance understanding of the effects of restoration on ecosystems.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2016

Multiple soil nutrient competition between plants, microbes, and mineral surfaces: model development, parameterization, and example applications in several tropical forests

Soil is a complex system where biotic (e.g., plant roots, micro-organisms) and abiotic (e.g., mineral surfaces) consumers compete for resources necessary for life (e.g., nitrogen, phosphorus). This competition is ecologically significant, since it regulates the dynamics of soil nutrients and controls aboveground plant productivity. Here we develop, calibrate and test a nutrient competition model that accounts for multiple soil nutrients interacting with multiple biotic and abiotic consumers. As applied here for tropical forests, the Nutrient COMpetition model (N-COM) includes three primary soil nutrients (NH 4 + , NO 3 − and PO x ; representing the sum of PO 4 3− , HPO 4 2− and H 2 PO 4 − ) and five potential competitors (plant roots, decomposing microbes, nitrifiers, denitrifiers and mineral surfaces). The competition is formulated with a quasi-steady-state chemical equilibrium approximation to account for substrate (multiple substrates share one consumer) and consumer (multiple consumers compete for one substrate) effects. N-COM successfully reproduced observed soil heterotrophic respiration, N 2 O emissions, free phosphorus, sorbed phosphorus and NH 4 + pools at a tropical forest site (Tapajos). The overall model uncertainty was moderately well constrained. Our sensitivity analysis revealed that soil nutrient competition was primarily regulated by consumer–substrate affinity rather than environmental factors such as soil temperature or soil moisture. Our results also imply that under strong nutrient limitation, relative competitiveness depends strongly on the competitor functional traits (affinity and nutrient carrier enzyme abundance). We then applied the N-COM model to analyze field nitrogen and phosphorus perturbation experiments in two tropical forest sites (in Hawaii and Puerto Rico) not used in model development or calibration. Under soil inorganic nitrogen and phosphorus elevated conditions, the model accurately replicated the experimentally observed competition among nutrient consumers. Although we used as many observations as we could obtain, more nutrient addition experiments in tropical systems would greatly benefit model testing and calibration. In summary, the N-COM model provides an ecologically consistent representation of nutrient competition appropriate for land BGC models integrated in Earth System Models.

54 ENVIRONMENTAL SCIENCES↗