The physical climate formulation and simulation characteristics of two new global coupled carbon–climate Earth System Models, ESM2M and ESM2G, are described. These models demonstrate similar climate ...fidelity as the Geophysical Fluid Dynamics Laboratory’s previous Climate Model version 2.1 (CM2.1) while incorporating explicit and consistent carbon dynamics. The two models differ exclusively in the physical ocean component; ESM2M uses Modular Ocean Model version 4p1 with vertical pressure layers while ESM2G uses Generalized Ocean Layer Dynamics with a bulk mixed layer and interior isopycnal layers. Differences in the ocean mean state include the thermocline depth being relatively deep in ESM2M and relatively shallow in ESM2G compared to observations. The crucial role of ocean dynamics on climate variability is highlighted in El Niño–Southern Oscillation being overly strong in ESM2M and overly weak in ESM2G relative to observations. Thus, while ESM2G might better represent climate changes relating to total heat content variability given its lack of long-term drift, gyre circulation, and ventilation in the North Pacific, tropical Atlantic, and Indian Oceans, and depth structure in the overturning and abyssal flows, ESM2M might better represent climate changes relating to surface circulation given its superior surface temperature, salinity, and height patterns, tropical Pacific circulation and variability, and Southern Ocean dynamics. The overall assessment is that neither model is fundamentally superior to the other, and that both models achieve sufficient fidelity to allow meaningful climate and earth system modeling applications. This affords the ability to assess the role of ocean configuration on earth system interactions in the context of two state-of-the-art coupled carbon–climate models.
The authors describe carbon system formulation and simulation characteristics of two new global coupled carbon–climate Earth System Models (ESM), ESM2M and ESM2G. These models demonstrate good ...climate fidelity as described in part I of this study while incorporating explicit and consistent carbon dynamics. The two models differ almost exclusively in the physical ocean component; ESM2M uses the Modular Ocean Model version 4.1 with vertical pressure layers, whereas ESM2G uses generalized ocean layer dynamics with a bulk mixed layer and interior isopycnal layers. On land, both ESMs include a revised land model to simulate competitive vegetation distributions and functioning, including carbon cycling among vegetation, soil, and atmosphere. In the ocean, both models include new biogeochemical algorithms including phytoplankton functional group dynamics with flexible stoichiometry. Preindustrial simulations are spun up to give stable, realistic carbon cycle means and variability. Significant differences in simulation characteristics of these two models are described. Because of differences in oceanic ventilation rates, ESM2M has a stronger biological carbon pump but weaker northward implied atmospheric CO₂ transport than ESM2G. The major advantages of ESM2G over ESM2M are improved representation of surface chlorophyll in the Atlantic and Indian Oceans and thermocline nutrients and oxygen in the North Pacific. Improved tree mortality parameters in ESM2G produced more realistic carbon accumulation in vegetation pools. The major advantages of ESM2M over ESM2G are reduced nutrient and oxygen biases in the southern and tropical oceans.
The authors assess the uptake, transport, and storage of oceanic anthropogenic carbon and heat over the period 1861–2005 in a new set of coupled carbon–climate Earth system models conducted for the ...fifth phase of the Coupled Model Intercomparison Project (CMIP5), with a particular focus on the Southern Ocean. Simulations show that the Southern Ocean south of 30°S, occupying 30% of global surface ocean area, accounts for 43% ± 3% (42 ± 5 Pg C) of anthropogenic CO₂ and 75% ± 22% (23 ± 9 × 1022J) of heat uptake by the ocean over the historical period. Northward transport out of the Southern Ocean is vigorous, reducing the storage to 33 ± 6 Pg anthropogenic carbon and 12 ± 7 × 1022J heat in the region. The CMIP5 models, as a class, tend to underestimate the observation-based global anthropogenic carbon storage but simulate trends in global ocean heat storage over the last 50 years within uncertainties of observation-based estimates. CMIP5 models suggest global and Southern Ocean CO₂ uptake have been largely unaffected by recent climate variability and change. Anthropogenic carbon and heat storage show a common broad-scale pattern of change, but ocean heat storage is more structured than ocean carbon storage. The results highlight the significance of the Southern Ocean for the global climate and as the region where models differ the most in representation of anthropogenic CO₂ and, in particular, heat uptake.
We document the configuration and emergent simulation features from the Geophysical Fluid Dynamics Laboratory (GFDL) OM4.0 ocean/sea ice model. OM4 serves as the ocean/sea ice component for the GFDL ...climate and Earth system models. It is also used for climate science research and is contributing to the Coupled Model Intercomparison Project version 6 Ocean Model Intercomparison Project. The ocean component of OM4 uses version 6 of the Modular Ocean Model and the sea ice component uses version 2 of the Sea Ice Simulator, which have identical horizontal grid layouts (Arakawa C‐grid). We follow the Coordinated Ocean‐sea ice Reference Experiments protocol to assess simulation quality across a broad suite of climate‐relevant features. We present results from two versions differing by horizontal grid spacing and physical parameterizations: OM4p5 has nominal 0.5° spacing and includes mesoscale eddy parameterizations and OM4p25 has nominal 0.25° spacing with no mesoscale eddy parameterization. Modular Ocean Model version 6 makes use of a vertical Lagrangian‐remap algorithm that enables general vertical coordinates. We show that use of a hybrid depth‐isopycnal coordinate reduces the middepth ocean warming drift commonly found in pure z* vertical coordinate ocean models. To test the need for the mesoscale eddy parameterization used in OM4p5, we examine the results from a simulation that removes the eddy parameterization. The water mass structure and model drift are physically degraded relative to OM4p5, thus supporting the key role for a mesoscale closure at this resolution.
Key Points
Documentation is provided for a new generation of NOAA‐GFDL CMIP6/OMIP ocean ice climate models
Dynamical core and physical parameterizations are described and key features of interannual CORE simulations are assessed
Using hybrid vertical coordinates reduces spurious ocean heat drift
This contribution describes the ocean biogeochemical component of the Geophysical Fluid Dynamics Laboratory's Earth System Model 4.1 (GFDL‐ESM4.1), assesses GFDL‐ESM4.1's capacity to capture observed ...ocean biogeochemical patterns, and documents its response to increasing atmospheric CO2. Notable differences relative to the previous generation of GFDL ESM's include enhanced resolution of plankton food web dynamics, refined particle remineralization, and a larger number of exchanges of nutrients across Earth system components. During model spin‐up, the carbon drift rapidly fell below the 10 Pg C per century equilibration criterion established by the Coupled Climate‐Carbon Cycle Model Intercomparison Project (C4MIP). Simulations robustly captured large‐scale observed nutrient distributions, plankton dynamics, and characteristics of the biological pump. The model overexpressed phosphate limitation and open ocean hypoxia in some areas but still yielded realistic surface and deep carbon system properties, including cumulative carbon uptake since preindustrial times and over the last decades that is consistent with observation‐based estimates. The model's response to the direct and radiative effects of a 200% atmospheric CO2 increase from preindustrial conditions (i.e., years 101–120 of a 1% CO2 yr−1 simulation) included (a) a weakened, shoaling organic carbon pump leading to a 38% reduction in the sinking flux at 2,000 m; (b) a two‐thirds reduction in the calcium carbonate pump that nonetheless generated only weak calcite compensation on century time‐scales; and, in contrast to previous GFDL ESMs, (c) a moderate reduction in global net primary production that was amplified at higher trophic levels. We conclude with a discussion of model limitations and priority developments.
Plain Language Summary
This paper describes and evaluates the ocean biogeochemical component of the Geophysical Fluid Dynamics Laboratory's Earth System Model 4.1 (GFDL‐ESM4.1). GFDL‐ESM4.1 was developed to study the past, present, and future evolution of the Earth system under scenarios for natural and anthropogenic drivers of Earth system change, including greenhouse gases and aerosols. The response of the ocean's vast carbon and heat reservoirs to accumulating greenhouse gases greatly reduces their atmospheric and terrestrial impacts, but also puts ocean environments and the marine resources they support at risk. Relative to previous models, GFDL‐ESM4.1 improves the representation of (a) ocean food webs connecting plankton and fish; (b) biological processes influencing the sequestration of carbon in the deep ocean; and (c) land‐atmosphere‐ocean nutrient exchanges. While simulations have biases, they capture many critical aspects of the global ocean carbon cycle and ocean ecosystem, including the observed uptake of anthropogenic carbon over the last ~150 yr. Projections suggest that continued CO2 increases could significantly decrease ocean productivity and the ocean's capacity to sequester atmospheric carbon.
Key Points
Enhanced plankton food webs, remineralization, and Earth system linkages yield skillful global carbon cycle and ecosystem simulations
Ocean productivity estimates improved, but phosphate limitation and hypoxia overestimated in some areas
High CO2 and associated warming substantially reduce the biological pump and ocean productivity across trophic levels
Comparative research on food web structure has revealed generalities in trophic organization, produced simple models, and allowed assessment of robustness to species loss. These studies have mostly ...focused on free-living species. Recent research has suggested that inclusion of parasites alters structure. We assess whether such changes in network structure result from unique roles and traits of parasites or from changes to diversity and complexity. We analyzed seven highly resolved food webs that include metazoan parasite data. Our analyses show that adding parasites usually increases link density and connectance (simple measures of complexity), particularly when including concomitant links (links from predators to parasites of their prey). However, we clarify prior claims that parasites "dominate" food web links. Although parasites can be involved in a majority of links, in most cases classic predation links outnumber classic parasitism links. Regarding network structure, observed changes in degree distributions, 14 commonly studied metrics, and link probabilities are consistent with scale-dependent changes in structure associated with changes in diversity and complexity. Parasite and free-living species thus have similar effects on these aspects of structure. However, two changes point to unique roles of parasites. First, adding parasites and concomitant links strongly alters the frequency of most motifs of interactions among three taxa, reflecting parasites' roles as resources for predators of their hosts, driven by trophic intimacy with their hosts. Second, compared to free-living consumers, many parasites' feeding niches appear broader and less contiguous, which may reflect complex life cycles and small body sizes. This study provides new insights about generic versus unique impacts of parasites on food web structure, extends the generality of food web theory, gives a more rigorous framework for assessing the impact of any species on trophic organization, identifies limitations of current food web models, and provides direction for future structural and dynamical models.
Antimicrobial susceptibility testing (AST) technologies help to accelerate the initiation of targeted antimicrobial therapy for patients with infections and could potentially extend the lifespan of ...current narrow-spectrum antimicrobials. Although conceptually new and rapid AST technologies have been described, including new phenotyping methods, digital imaging and genomic approaches, there is no single major, or broadly accepted, technological breakthrough that leads the field of rapid AST platform development. This might be owing to several barriers that prevent the timely development and implementation of novel and rapid AST platforms in health-care settings. In this Consensus Statement, we explore such barriers, which include the utility of new methods, the complex process of validating new technology against reference methods beyond the proof-of-concept phase, the legal and regulatory landscapes, costs, the uptake of new tools, reagent stability, optimization of target product profiles, difficulties conducting clinical trials and issues relating to quality and quality control, and present possible solutions.
As the scientific enterprise has grown in size and diversity, we need empirical evidence on the research process to test and apply interventions that make it more efficient and its results more ...reliable. Meta-research is an evolving scientific discipline that aims to evaluate and improve research practices. It includes thematic areas of methods, reporting, reproducibility, evaluation, and incentives (how to do, report, verify, correct, and reward science). Much work is already done in this growing field, but efforts to-date are fragmented. We provide a map of ongoing efforts and discuss plans for connecting the multiple meta-research efforts across science worldwide.
Anthropogenic climate change is projected to lead to ocean warming, acidification, deoxygenation, reductions in near-surface nutrients, and changes to primary production, all of which are expected to ...affect marine ecosystems. Here we assess projections of these drivers of environmental change over the twenty-first century from Earth system models (ESMs) participating in the Coupled Model Intercomparison Project Phase 6 (CMIP6) that were forced under the CMIP6 Shared Socioeconomic Pathways (SSPs). Projections are compared to those from the previous generation (CMIP5) forced under the Representative Concentration Pathways (RCPs). A total of 10 CMIP5 and 13 CMIP6 models are used in the two multi-model ensembles. Under the high-emission scenario SSP5-8.5, the multi-model global mean change (2080–2099 mean values relative to 1870–1899) ± the inter-model SD in sea surface temperature, surface pH, subsurface (100–600 m) oxygen concentration, euphotic (0–100 m) nitrate concentration, and depth-integrated primary production is +3.47±0.78 ∘C, -0.44±0.005, -13.27±5.28, -1.06±0.45 mmol m−3 and -2.99±9.11 %, respectively. Under the low-emission, high-mitigation scenario SSP1-2.6, the corresponding global changes are +1.42±0.32 ∘C, -0.16±0.002, -6.36±2.92, -0.52±0.23 mmol m−3, and -0.56±4.12 %. Projected exposure of the marine ecosystem to these drivers of ocean change depends largely on the extent of future emissions, consistent with previous studies. The ESMs in CMIP6 generally project greater warming, acidification, deoxygenation, and nitrate reductions but lesser primary production declines than those from CMIP5 under comparable radiative forcing. The increased projected ocean warming results from a general increase in the climate sensitivity of CMIP6 models relative to those of CMIP5. This enhanced warming increases upper-ocean stratification in CMIP6 projections, which contributes to greater reductions in upper-ocean nitrate and subsurface oxygen ventilation. The greater surface acidification in CMIP6 is primarily a consequence of the SSPs having higher associated atmospheric CO2 concentrations than their RCP analogues for the same radiative forcing. We find no consistent reduction in inter-model uncertainties, and even an increase in net primary production inter-model uncertainties in CMIP6, as compared to CMIP5.
Uncertainty is an inherent property of the environment and a central feature of models of decision-making and learning. Theoretical propositions suggest that one form, unexpected uncertainty, may be ...used to rapidly adapt to changes in the environment, while being influenced by two other forms: risk and estimation uncertainty. While previous studies have reported neural representations of estimation uncertainty and risk, relatively little is known about unexpected uncertainty. Here, participants performed a decision-making task while undergoing functional magnetic resonance imaging (fMRI), which, in combination with a Bayesian model-based analysis, enabled us to separately examine each form of uncertainty examined. We found representations of unexpected uncertainty in multiple cortical areas, as well as the noradrenergic brainstem nucleus locus coeruleus. Other unique cortical regions were found to encode risk, estimation uncertainty, and learning rate. Collectively, these findings support theoretical models in which several formally separable uncertainty computations determine the speed of learning.
•Uncertainty can be formally separated into three different forms•Risk, estimation uncertainty, and unexpected uncertainty recruited distinct regions•Encoding of unexpected uncertainty was found in locus coeruleus
Unexpected uncertainty is proposed to mediate rapid adaptation in unstable reward environments. Using a Bayesian model of human learning in combination with functional neuroimaging, Payzan-LeNestour et al. identify neural correlates of this variable in locus coeruleus and several cortical regions.
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