ALBERT

Description: In this study we look beyond the previously studied effects of oceanic CO2 injections on atmospheric and oceanic reservoirs and also account for carbon cycle and climate feedbacks between the atmosphere and the terrestrial biosphere. Considering these additional feedbacks is important since backfluxes from the terrestrial biosphere to the atmosphere in response to reducing atmospheric CO2 can further offset the targeted reduction. To quantify these dynamics we use an Earth system model of intermediate complexity to simulate direct injection of CO2 into the deep ocean as a means of emissions mitigation during a high CO2 emission scenario. In three sets of experiments with different injection depths, we simulate a 100-year injection period of a total of 70 GtC and follow global carbon cycle dynamics over another 900 years. In additional parameter perturbation runs, we varied the default terrestrial photosynthesis CO2 fertilization parameterization by ±50 % in order to test the sensitivity of this uncertain carbon cycle feedback to the targeted atmospheric carbon reduction through direct CO2 injections. Simulated seawater chemistry changes and marine carbon storage effectiveness are similar to previous studies. As expected, by the end of the injection period avoided emissions fall short of the targeted 70 GtC by 16–30 % as a result of carbon cycle feedbacks and backfluxes in both land and ocean reservoirs. The target emissions reduction in the parameter perturbation simulations is about 0.2 and 2 % more at the end of the injection period and about 9 % less to 1 % more at the end of the simulations when compared to the unperturbed injection runs. An unexpected feature is the effect of the model's internal variability of deep-water formation in the Southern Ocean, which, in some model runs, causes additional oceanic carbon uptake after injection termination relative to a control run without injection and therefore with slightly different atmospheric CO2 and climate. These results of a model that has very low internal climate variability illustrate that the attribution of carbon fluxes and accounting for injected CO2 may be very challenging in the real climate system with its much larger internal variability.

Description: Bacteria use quorum sensing to orchestrate gene expression programmes that underlie collective behaviours. Quorum sensing relies on the production, release, detection and group-level response to extracellular signalling molecules, which are called autoinducers. Recent work has discovered new autoinducers in Gram-negative bacteria, shown how these molecules are recognized by cognate receptors, revealed new regulatory components that are embedded in canonical signalling circuits and identified novel regulatory network designs. In this Review we examine how, together, these features of quorum sensing signal–response systems combine to control collective behaviours in Gram-negative bacteria and we discuss the implications for host–microbial associations and antibacterial therapy.

Description: Remarkable technological advances have revealed ever more properties and behaviours of individual microorganisms, but the novel data generated by these techniques have not yet been fully exploited. In this Opinion article, we explain how individual-based models (IBMs) can be constructed based on the findings of such techniques and how they help to explore competitive and cooperative microbial interactions. Furthermore, we describe how IBMs have provided insights into self-organized spatial patterns from biofilms to the oceans of the world, phage–CRISPR dynamics and other emergent phenomena. Finally, we discuss how combining individual-based observations with IBMs can advance our understanding at both the individual and population levels, leading to the new approach of microbial individual-based ecology (μIBE).

Description: The Surface Ocean CO2 Atlas (SOCAT) is a synthesis of quality-controlled fCO2 (fugacity of carbon dioxide) values for the global surface oceans and coastal seas with regular updates. Version 3 of SOCAT has 14.7 million fCO2 values from 3646 data sets covering the years 1957 to 2014. This latest version has an additional 4.6 million fCO2 values relative to version 2 and extends the record from 2011 to 2014. Version 3 also significantly increases the data availability for 2005 to 2013. SOCAT has an average of approximately 1.2 million surface water fCO2 values per year for the years 2006 to 2012. Quality and documentation of the data has improved. A new feature is the data set quality control (QC) flag of E for data from alternative sensors and platforms. The accuracy of surface water fCO2 has been defined for all data set QC flags. Automated range checking has been carried out for all data sets during their upload into SOCAT. The upgrade of the interactive Data Set Viewer (previously known as the Cruise Data Viewer) allows better interrogation of the SOCAT data collection and rapid creation of high-quality figures for scientific presentations. Automated data upload has been launched for version 4 and will enable more frequent SOCAT releases in the future. High-profile scientific applications of SOCAT include quantification of the ocean sink for atmospheric carbon dioxide and its long-term variation, detection of ocean acidification, as well as evaluation of coupled-climate and ocean-only biogeochemical models. Users of SOCAT data products are urged to acknowledge the contribution of data providers, as stated in the SOCAT Fair Data Use Statement. This ESSD (Earth System Science Data) "living data" publication documents the methods and data sets used for the assembly of this new version of the SOCAT data collection and compares these with those used for earlier versions of the data collection (Pfeil et al., 2013; Sabine et al., 2013; Bakker et al., 2014). Individual data set files, included in the synthesis product, can be downloaded here: doi:10.1594/PANGAEA.849770. The gridded products are available here: doi:10.3334/CDIAC/OTG.SOCAT_V3_GRID.

Description: Recent observations in the eastern tropical South Pacific (ETSP) have shown the key role of meso- and submesoscale processes (e.g. eddies) in shaping its hydrographic and biogeochemical properties. Off Peru, elevated primary production from coastal upwelling in combination with sluggish ventilation of subsurface waters fuels a prominent oxygen minimum zone (OMZ). Given that nitrous oxide (N2O) production–consumption processes in the water column are sensitive to oxygen (O2) concentrations, the ETSP is a region of particular interest to investigate its source–sink dynamics. To date, no detailed surveys linking mesoscale processes and N2O distributions as well as their relevance to nitrogen (N) cycling are available. In this study, we present the first measurements of N2O across three mesoscale eddies (two mode water or anticyclonic and one cyclonic) which were identified, tracked, and sampled during two surveys carried out in the ETSP in November–December 2012. A two-peak structure was observed for N2O, wherein the two maxima coincide with the upper and lower boundaries of the OMZ, indicating active nitrification and partial denitrification. This was further supported by the abundances of the key gene for nitrification, ammonium monooxygenase (amoA), and the gene marker for N2O production during denitrification, nitrite reductase (nirS). Conversely, we found strong N2O depletion in the core of the OMZ (O2 〈 5 μmol/L) to be consistent with nitrite (NO2-) accumulation and low levels of nitrate (NO3-), thus suggesting active denitrification. N2O depletion within the OMZ’s core was substantially higher in the centre of mode water eddies, supporting the view that eddy activity enhances N-loss processes off Peru, in particular near the shelf break where nutrient-rich, productive waters from upwelling are trapped before being transported offshore. Analysis of eddies during their propagation towards the open ocean showed that, in general, “ageing” of mesoscale eddies tends to decrease N2O concentrations through the water column in response to the reduced supply of material to fuel N loss, although the hydrographic variability might also significantly impact the pace of the production–consumption pathways for N2O. Our results evidence the relevance of mode water eddies for N2O distribution, thereby improving our understanding of the N-cycling processes, which are of crucial importance in times of climate change and ocean deoxygenation.

Description: During the Last Interglacial (LIG, ∼130–115kiloyears (kyr) before present (BP)), the northern high latitudes were characterized by higher temperatures than those of the late Holocene and a lower Greenland Ice Sheet (GIS). However, the impact of a reduced GIS on the global climate has not yet been well constrained. In this study, we quantify the contribution of the GIS to LIG warmth by performing various sensitivity studies based on equilibrium simulations, employing the Community Earth System Models (COSMOS), with a focus on height and extent of the GIS. We present the first study on the effects of a reduction in the GIS on the surface temperature (TS) on a global scale and separate the contribution of astronomical forcing and changes in GIS to LIG warmth. The strong Northern Hemisphere summer warming of approximately 2°C (with respect to pre-industrial) is mainly caused by increased summer insolation. Reducing the height by  ∼ 1300m and the extent of the GIS does not have a strong influence during summer, leading to an additional global warming of only +0.24°C compared to the purely insolation-driven LIG. The effect of a reduction in the GIS is, however, strongest during local winter, with up to +5°C regional warming and with an increase in global average temperature of +0.48°C. In order to evaluate the performance of our LIG simulations, we additionally compare the simulated TS anomalies with marine and terrestrial proxy-based LIG temperature anomalies derived from three different proxy data compilations. Our model results are in good agreement with proxy records with respect to the warming pattern but underestimate the magnitude of temperature change when compared to reconstructions, suggesting a potential misinterpretation of the proxy records or deficits in our model. However, we are able to partly reduce the mismatch between model and data by additionally taking into account the potential seasonal bias of the proxy record and/or the uncertainties in the dating of the proxy records for the LIG thermal maximum. The seasonal bias and the uncertainty of the timing are estimated from new transient model simulations covering the whole LIG. The model–data comparison improves for proxies that represent annual mean temperatures when the GIS is reduced and when we take the local thermal maximum during the LIG (130–120kyrBP) into account. For proxy data that represent summer temperatures, changes in the GIS are of minor importance for sea surface temperatures. However, the annual mean and summer temperature change over Greenland in the reduced GIS simulations seems to be overestimated as compared to the local ice core data, which could be related to the interpretation of the recorder system and/or the assumptions of GIS reduction. Thus, the question regarding the real size of the GIS during the LIG has yet to be answered.

Description: PALADYN is presented; it is a new comprehensive and computationally efficient land surface–vegetation–carbon cycle model designed to be used in Earth system models of intermediate complexity for long-term simulations and paleoclimate studies. The model treats in a consistent manner the interaction between atmosphere, terrestrial vegetation and soil through the fluxes of energy, water and carbon. Energy, water and carbon are conserved. PALADYN explicitly treats permafrost, both in physical processes and as an important carbon pool. It distinguishes nine surface types: five different vegetation types, bare soil, land ice, lake and ocean shelf. Including the ocean shelf allows the treatment of continuous changes in sea level and shelf area associated with glacial cycles. Over each surface type, the model solves the surface energy balance and computes the fluxes of sensible, latent and ground heat and upward shortwave and longwave radiation. The model includes a single snow layer. Vegetation and bare soil share a single soil column. The soil is vertically discretized into five layers where prognostic equations for temperature, water and carbon are consistently solved. Phase changes of water in the soil are explicitly considered. A surface hydrology module computes precipitation interception by vegetation, surface runoff and soil infiltration. The soil water equation is based on Darcy's law. Given soil water content, the wetland fraction is computed based on a topographic index. The temperature profile is also computed in the upper part of ice sheets and in the ocean shelf soil. Photosynthesis is computed using a light use efficiency model. Carbon assimilation by vegetation is coupled to the transpiration of water through stomatal conductance. PALADYN includes a dynamic vegetation module with five plant functional types competing for the grid cell share with their respective net primary productivity. PALADYN distinguishes between mineral soil carbon, peat carbon, buried carbon and shelf carbon. Each soil carbon type has its own soil carbon pools generally represented by a litter, a fast and a slow carbon pool in each soil layer. Carbon can be redistributed between the layers by vertical diffusion and advection. For the vegetated macro surface type, decomposition is a function of soil temperature and soil moisture. Carbon in permanently frozen layers is assigned a long turnover time which effectively locks carbon in permafrost. Carbon buried below ice sheets and on flooded ocean shelves is treated differently. The model also includes a dynamic peat module. PALADYN includes carbon isotopes 13C and 14C, which are tracked through all carbon pools. Isotopic discrimination is modelled only during photosynthesis. A simple methane module is implemented to represent methane emissions from anaerobic carbon decomposition in wetlands (including peatlands) and flooded ocean shelf. The model description is accompanied by a thorough model evaluation in offline mode for the present day and the historical period

Description: Simulations with the Max Planck Institute Earth System Model (MPI-ESM) are used to study the sensitivity of the AMOC and the deep-ocean water masses during the Last Glacial Maximum to different sets of forcings. Analysing the individual contributions of the glacial forcings reveals that the ice sheets cause an increase in the overturning strength and a deepening of the North Atlantic Deep Water (NADW) cell, while the low greenhouse gas (GHG) concentrations cause a decrease in overturning strength and a shoaling of the NADW cell. The effect of the orbital configuration is negligible. The effects of the ice sheets and the GHG reduction balance each other in the deep ocean so that no shoaling of the NADW cell is simulated in the full glacial state. Experiments in which different GHG concentrations with linearly decreasing radiative forcing are applied to a setup with glacial ice sheets and orbital configuration show that GHG concentrations below the glacial level are necessary to cause a shoaling of the NADW cell with respect to the pre-industrial state in MPI-ESM. For a pCO2 of 149 ppm, the simulated overturning state and the deep-ocean water masses are in best agreement with the glacial state inferred from proxy data. Sensitivity studies confirm that brine release and shelf convection in the Southern Ocean are key processes for the shoaling of the NADW cell. Shoaling occurs only when Southern Ocean shelf water contributes significantly to the formation of Antarctic Bottom Water.

Description: Marine sediment records reveal an abrupt and strong increase in dust deposition in the North Atlantic at the end of the African Humid Period about 4.9 to 5.5 ka ago. The change in dust flux has been attributed to varying Saharan land surface cover. Alternatively, the enhanced dust accumulation is linked to enhanced surface winds and a consequent intensification of coastal upwelling. Here we demonstrate for the first time the direct link between dust accumulation in marine cores and changes in Saharan land surface. We simulate the mid-Holocene (6 ka BP) and pre-industrial (1850 AD) dust cycle as a function of Saharan land surface cover and atmosphere-ocean conditions using the coupled atmosphere–aerosol model ECHAM6.1-HAM2.1. Mid-Holocene surface characteristics, including vegetation cover and lake surface area, are derived from proxy data and simulations. In agreement with data from marine sediment cores, our simulations show that mid-Holocene dust deposition fluxes in the North Atlantic were two to three times lower compared with pre-industrial fluxes. We identify Saharan land surface characteristics to be the main control on dust transport from North Africa to the North Atlantic. We conclude that the increase in dust accumulation in marine cores is directly linked to a transition of the Saharan landscape during the Holocene and not due to changes in atmospheric or ocean conditions alone.