The ICON Earth System Model Version 1.0

This work documents ICON-ESM 1.0, the first version of a coupled model based 19 on the ICON framework 20 • Performance of ICON-ESM is assessed by means of CMIP6 DECK experiments 21 at standard CMIP-type resolution 22 • ICON-ESM reproduces the observed temperature evolution. Biases in clouds, winds, 23 sea-ice, and ocean properties are larger than in MPI-ESM. Abstract 25 This work documents the ICON-Earth System Model (ICON-ESM V1.0), the first cou-26 pled model based on the ICON (ICOsahedral Non-hydrostatic) framework with its un-27 structured, icosahedral grid concept. The ICON-A atmosphere uses a nonhydrostatic dy-28 namical core and the ocean model ICON-O builds on the same ICON infrastructure, but 29 applies the Boussinesq and hydrostatic approximation and includes a sea-ice model. The 30 ICON-Land module provides a new framework for the modelling of land processes and 31 the terrestrial carbon cycle. The oceanic carbon cycle and biogeochemistry are repre-32 sented by the Hamburg Ocean Carbon Cycle module. We describe the tuning and spin-33 up of a base-line version at a resolution typical for models participating in the Coupled 34 Model Intercomparison Project (CMIP). The performance of ICON-ESM is assessed by 35 means of a set of standard CMIP6 simulations. Achievements are well-balanced top-of-36 atmosphere radiation, stable key climate quantities in the control simulation, and a good 37 representation of the historical surface temperature evolution. The model has overall bi-38 ases, which are comparable to those of other CMIP models, but ICON-ESM performs 39 less well than its predecessor, the Max Planck Institute Earth System Model. Problem-40 atic biases are diagnosed in ICON-ESM in the vertical cloud distribution and the mean 41 zonal wind field. In the ocean, sub-surface temperature and salinity biases are of con-42 cern as is a too strong seasonal cycle of the sea-ice cover in both hemispheres. ICON-43 ESM V1.0 serves as a basis for further developments that will take advantage of ICON-44 specific properties such as spatially varying resolution, and configurations at very high 45 resolution. 46 Plain Language Summary 47 ICON-ESM is a completely new coupled climate and earth system model that ap-48 plies novel design principles and numerical techniques. The atmosphere model applies 49 a non-hydrostatic dynamical core, both atmosphere and ocean models apply unstruc-50 tured meshes, and the model is adapted for high-performance computing systems. This 51 article describes how the component models for atmosphere, land, and ocean are cou-52 pled together and how we achieve a stable climate by setting certain tuning parameters 53 and performing sensitivity experiments. We evaluate the performance of our new model 54 by running a set of experiments under pre-industrial and historical climate conditions 55 as well as a set of idealized greenhouse-gas-increase experiments. These experiments were 56 designed by the Coupled Model Intercomparison Project (CMIP) and allow us to com-57 pare the results to those from other CMIP models and the predecessor of our model, the 58 Max Planck Institute for Meteorology Earth System Model. While we diagnose overall 59 satisfactory performance, we find that ICON-ESM features somewhat larger biases in 60 several quantities compared to its predecessor at comparable grid resolution. We empha-61 size that the present configuration serves as a basis from where future development steps 62 will open up new perspectives in earth system modellin

Mineralogy, early marine diagenesis, and the chemistry of shallow-water carbonate sediments

Shallow-water carbonate sediments constitute the bulk of sedimentary carbonates in the geologic record and are widely used archives of Earth’s chemical and climatic history. One of the main limitations in interpreting the geochemistry of ancient carbonate sediments is the potential for post-depositional diagenetic alteration. In this study, we use paired measurements of calcium (44Ca/40Ca or δ44Ca) and magnesium (26Mg/24Mg or δ26Mg) isotope ratios in sedimentary carbonates and associated pore-fluids as a tool to understand the mineralogical and diagenetic history of Neogene shallow-water carbonate sediments from the Bahamas and southwest Australia. We find that the Ca and Mg isotopic composition of bulk carbonate sediments at these sites exhibits systematic stratigraphic variability that is related to both mineralogy and early marine diagenesis. The observed variability in bulk sediment Ca isotopes is best explained by changes in the extent and style of early marine diagenesis from one where the composition of the diagenetic carbonate mineral is determined by the chemistry of the fluid (fluid-buffered) to one where the composition of the diagenetic carbonate mineral is determined by the chemistry of the precursor sediment (sediment-buffered). Our results indicate that this process, together with variations in carbonate mineralogy (aragonite, calcite, and dolomite), plays a fundamental and underappreciated role in determining the regional and global stratigraphic expressions of geochemical tracers (δ13C, δ18O, major, minor, and trace elements) in shallow-water carbonate sediments in the geologic record. Our results also provide evidence that a large shallow-water carbonate sink that is enriched in 44Ca can explain the mismatch between the δ44/40Ca value of rivers and deep-sea carbonate sediments and call into question the hypothesis that the δ44/40Ca value of seawater depends on the mineralogy of primary carbonate precipitations (e.g. ‘aragonite seas’ and ‘calcite seas’). Finally, our results for sedimentary dolomites suggest that paired measurements of Ca and Mg isotopes may provide a unique geochemical fingerprint of mass transfer during dolomitization to better understand the paleo-environmental information preserved in these enigmatic but widespread carbonate minerals

A BAP1 mutation in a Danish family predisposes to uveal melanoma and other cancers

Truncating germline mutations in the tumor suppressor gene BRCA-1 associated protein-1 (BAP1) have been reported in families predisposed to developing a wide range of different cancer types including uveal melanoma and cutaneous melanoma. There has also been an association between amelanotic tumor development and germline BAP1 mutation suggesting a possible phenotypic characteristic of BAP1 mutation carriers. Though there have been many types of cancer associated with germline BAP1 mutation, the full spectrum of disease association is yet to be ascertained. Here we describe a Danish family with predominantly uveal melanoma but also a range of other tumor types including lung, neuroendocrine, stomach, and breast cancer; as well as pigmented skin lesions. Whole-exome sequencing identified a BAP1 splice mutation located at c.581-2A>G, which leads to a premature truncation of BAP1 in an individual with uveal melanoma. This mutation was carried by several other family members with melanoma or various cancers. The finding expands on the growing profile of BAP1 as an important uveal and cutaneous melanoma tumor suppressor gene and implicates its involvement in the development of lung, and stomach cancer

The ICON Earth System Model Version 1.0

This work documents the ICON‐Earth System Model (ICON‐ESM V1.0), the first coupled model based on the ICON (ICOsahedral Non‐hydrostatic) framework with its unstructured, icosahedral grid concept. The ICON‐A atmosphere uses a nonhydrostatic dynamical core and the ocean model ICON‐O builds on the same ICON infrastructure, but applies the Boussinesq and hydrostatic approximation and includes a sea‐ice model. The ICON‐Land module provides a new framework for the modeling of land processes and the terrestrial carbon cycle. The oceanic carbon cycle and biogeochemistry are represented by the Hamburg Ocean Carbon Cycle module. We describe the tuning and spin‐up of a base‐line version at a resolution typical for models participating in the Coupled Model Intercomparison Project (CMIP). The performance of ICON‐ESM is assessed by means of a set of standard CMIP6 simulations. Achievements are well‐balanced top‐of‐atmosphere radiation, stable key climate quantities in the control simulation, and a good representation of the historical surface temperature evolution. The model has overall biases, which are comparable to those of other CMIP models, but ICON‐ESM performs less well than its predecessor, the Max Planck Institute Earth System Model. Problematic biases are diagnosed in ICON‐ESM in the vertical cloud distribution and the mean zonal wind field. In the ocean, sub‐surface temperature and salinity biases are of concern as is a too strong seasonal cycle of the sea‐ice cover in both hemispheres. ICON‐ESM V1.0 serves as a basis for further developments that will take advantage of ICON‐specific properties such as spatially varying resolution, and configurations at very high resolution.Plain Language Summary: ICON‐ESM is a completely new coupled climate and earth system model that applies novel design principles and numerical techniques. The atmosphere model applies a non‐hydrostatic dynamical core, both atmosphere and ocean models apply unstructured meshes, and the model is adapted for high‐performance computing systems. This article describes how the component models for atmosphere, land, and ocean are coupled together and how we achieve a stable climate by setting certain tuning parameters and performing sensitivity experiments. We evaluate the performance of our new model by running a set of experiments under pre‐industrial and historical climate conditions as well as a set of idealized greenhouse‐gas‐increase experiments. These experiments were designed by the Coupled Model Intercomparison Project (CMIP) and allow us to compare the results to those from other CMIP models and the predecessor of our model, the Max Planck Institute for Meteorology Earth System Model. While we diagnose overall satisfactory performance, we find that ICON‐ESM features somewhat larger biases in several quantities compared to its predecessor at comparable grid resolution. We emphasize that the present configuration serves as a basis from where future development steps will open up new perspectives in earth system modeling.Key Points: This work documents ICON‐ESM 1.0, the first version of a coupled model based on the ICON framework. Performance of ICON‐ESM is assessed by means of CMIP6 Diagnosis, Evaluation, and Characterization of Klima experiments at standard CMIP‐type resolution. ICON‐ESM reproduces the observed temperature evolution. Biases in clouds, winds, sea‐ice, and ocean properties are larger than in MPI‐ESM.European Union H2020 ESM2025European Union H2020 COMFORTEuropean Union H2020ESiWACE2Deutsche Forschungsgemeinschaft TRR181Deutsche Forschungsgemeinschaft EXC 2037European Union H2020Deutscher WetterdienstBundesministerium fuer Bildung und Forschunghttp://esgf-data.dkrz.de/search/cmip6-dkrz/https://mpimet.mpg.de/en/science/modeling-with-icon/code-availabilityhttp://cera-www.dkrz.de/WDCC/ui/Compact.jsp?acronym=RUBY-0_ICON-_ESM_V1.0_Mode

The influence of regional circulation patterns on wet and dry mineral dust and sea salt deposition over Greenland

Annually resolved ice core records from different regions over the Greenland ice sheet (GrIS) are used to investigate the spatial and temporal vari- ability of calcium (Ca2+, mainly from mineral dust) and sodium (Na+, mainly from sea salt) deposition. Cores of high common inter-annual variability are grouped with an EOF analysis, resulting in regionally representative Ca2+ and Na+ records for northeastern and central Greenland. Utilizing a regression and validation method with ERA-40 reanalysis data, these common records are associated with distinct regional atmospheric circulation patterns over the North American Arctic, Greenland, and Central to Northern Europe. These patterns are interpreted in terms of transport and deposition of the impurities. In the northeastern part of the GrIS sea salt records reflect the intrusion of marine air masses from southeasterly flow. A large fraction of the Ca2+, variability in this region is connected to a circulation pattern suggesting transport from the west and dry deposition. This pattern is consistent with the current understanding of a predominantly Asian source of the dust deposited over the GrIS. However, our results also indicate that a significant fraction of the inter-annual dust variability in NE and Central Greenland is determined by the frequency and intensity of wet deposition during the season of high atmospheric dust loading, rather than representing the variability of the Asian dust source and/or long-range transport to Greenland. The variances in the regional proxy records explained by the streamfunction patterns are high enough to permit reconstructions of the corresponding regional deposition regimes and the associated circulation patterns

Internalization of full-length wild-type-FLAG and R192*-HA tagged CD164.

<p>Co-transfected HEK cells expressing wild-type CD164 tagged with the FLAG epitope (FLAG-CD164-WT) and truncated endolyn tagged with the HA epitope (HA-CD164-R192*) were seeded on cover slides. Following incubation with anti-FLAG and anti-HA antibodies on ice, the cells were either fixed (T0, 0 min) or incubated in complete medium without antibody for 10 (T10) and 30 (T30) minutes, respectively, and then fixed. FLAG-CD164-WT (A, D, G) and HA-CD164-R192* (B, E, H) was visualized using Alexa Fluor 488-labeled secondary antibody (green) and Alexa Fluor 568-labeled secondary antibody (red), respectively. Nuclear DNA was stained with DAPI (blue). Merged images are shown in (C, F, I). Imaging was performed on a confocal laser scanning microscope using 40×oil-immersion objective. Scale bar = 6 μm.</p