Evaluation of Screening Program and Phylogenetic Analysis of SARS-CoV-2 Infections among Hospital Healthcare Workers in Liège, Belgium

Healthcare workers (HCWs) are known to be at higher risk of developing severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infections although whether these risks are equal across all occupational roles is uncertain. Identifying these risk factors and understand SARS-CoV-2 transmission pathways in healthcare settings are of high importance to achieve optimal protection measures. We aimed to investigate the implementation of a voluntary screening program for SARS-CoV-2 infections among hospital HCWs and to elucidate potential transmission pathways though phylogenetic analysis before the vaccination era. HCWs of the University Hospital of Liège, Belgium, were invited to participate in voluntary reverse transcriptase-polymerase chain reaction (RT-PCR) assays performed every week from April to December 2020. Phylogenetic analysis of SARS-CoV-2 genomes were performed for a subgroup of 45 HCWs. 5095 samples were collected from 703 HCWs. 212 test results were positive, 15 were indeterminate, and 4868 returned negative. 156 HCWs (22.2%) tested positive at least once during the study period. All SARS-CoV-2 test results returned negative for 547 HCWs (77.8%). Nurses (p < 0.05), paramedics (p < 0.05), and laboratory staff handling respiratory samples (p < 0.01) were at higher risk for being infected compared to the control non-patient facing group. Our phylogenetic analysis revealed that most positive samples corresponded to independent introduction events into the hospital. Our findings add to the growing evidence of differential risks of being infected among HCWs and support the need to implement appropriate protection measures based on each individual’s risk profile to guarantee the protection of both HCWs and patients. Furthermore, our phylogenetic investigations highlight that most positive samples correspond to distinct introduction events into the hospital

Modeling the effect of aging on Deccan Traps weathering and CO2 consumption

International audienc

Amplifying factors leading to the collapse of primary producers during the Chicxulub impact and Deccan Traps eruptions

International audienceThe latest Cretaceous (Maastrichtian) through earliest Paleogene (Danian) interval was a time marked by one of the five major mass extinctions in Earth’s history. The synthesis of published data permits the temporal correlation of the Cretaceous-Paleogene boundary crisis with two major geological events: (1) the Chicxulub impact, discovered in the Yucatán Peninsula (Mexico), and (2) eruption of the Deccan Traps large igneous province, located on the west-central Indian plateau. In this study, environmental and biological consequences from the Chicxulub impact and emplacement of the Deccan continental flood basalts were explored using a climate-carbon-biodiversity coupled model called the ECO-GEOCLIM model. The novelty of this study was investigation into the ways in which abiotic factors (temperature, pH, and calcite saturation state) acted on various marine organisms to determine the primary productivity and biodiversity changes in response to a drastic environmental change. Results showed that the combination of Deccan volcanism with a 10-km-diameter impactor would lead to global warming (3.5 °C) caused by rising carbon dioxide (CO2) concentration (+470 ppmv), interrupted by a succession of short-term cooling events, provided by a “shielding effect” due to the formation of sulfate aerosols. The consequences related to these climate changes were the decrease of the surface ocean pH by 0.2 (from 8.0 to 7.8), while the deep ocean pH dropped by 0.4 (from 7.8 to 7.4). Without requiring any additional perturbations, these environmental disturbances led to a drastic decrease of the biomass of calcifying species and their biodiversity by ~80%, while the biodiversity of noncalcifying species was reduced by ~60%. We also suggest that the short-lived acidification caused by the Chicxulub impact, when combined with eruption of the Deccan Traps, may explain the severity of the extinction among pelagic calcifying species

The tectonic history of Drake Passage and its possible impacts on global climate

International audienceThis study provides an integrated review of plate tectonic models of the evolution of the Antarctica-Patagonia connection compared to geological records collected on land in Patagonia and Tierra del Fuego, and offshore along the northern edge of the Scotia Sea. A temporal framework for the sedimentary and tectonic events of the North Scotia Ridge and Tierra del Fuego is constructed with additional data compiled from entire Patagonia and the Austral Basin. This review provides robust correlations of seaways and tectonic events along the Scotia and South America plates and indicates that the opening of the Drake Passage was not steady state since ca. 30 Ma. Rather the regions forming the present-day northern limit of this gateway experienced important paleogeographic changes, from deep marine basins to shallow ridges and emerged regions during the late Oligocene and early-middle Miocene time. Our compilation of geological data shows that emergence along the North Scotia Ridge and Tierra del Fuego was achieved at 23-22 Ma, and has been followed by elimination of the Patagoniano Sea in Patagonia, starting at 22-23 Ma and achieved at 20 Ma. This transition towards more continental sedimentation in southern South America is correlated with more shallow marine conditions in the Austral Basin. This succession of events had a strong influence on the general geometry of the Drake Passage, corresponding to a constriction of its northern limit, starting in the window 29-22 Ma and achieved at 21 Ma. This period of active deformation in southern South America also corresponds to a period of the global climate having two anomalies well known from the isotopic records: the Late Oligocene Warming. around 26 Ma and the Mid-Miocene Climatic Optimum which ended between 15 and 14 Ma. The possible effects of the post-Oligocene tectonic evolution of the Drake Passage region on general oceanic circulation are discussed. Causes for the synchronicity between tectonic events and these global warming events are examined

Impact of tropical forest cover changes on the spatio-temporal heterogeneities of water flow paths and water-rock interactions

International audiencePlants link the atmosphere to the Earth's crust, and much remains to be known about the hydrological and biogeochemical consequences of altering ecosystem distribution and functioning. This issue may be particularly pressing in highly seasonal hydroclimatic settings, where the intermittency of water flows and the transient storage of precipitation inputs are salient features to be considered for biogeochemical processes in the critical zone (CZ) and the general availability of water resources. Here we primarily focus on changing root water uptake profiles following land cover change, which heterogeneously alter water partitioning across landscape positions, and in turn impact the timing and spatial distribution of the reactive transport of nutrients within the CZ. We do so using simulations, under current conditions and hypothetical land cover scenarios, from a cascade of spatially-distributed numerical tools. Hydrological states are given by the process-based ecohydrological model EcH2O-iso, accounting for the coupling between energy balance, critical zone hydrology and vegetation dynamics. Water-rock interactions are described using the modular chemical weathering model WITCH3D, simulating dissolution/precipitation rates of mineral phases based on kinetics laws. This analysis is conducted at the long-term experimental catchment of Mule Hole in Peninsular India, where a pristine deciduous forest overlaying a deep unsaturated profile, under a monsoon climatic regime. This catchment is part of both the Indian Kabini CZ observatory and the French CZ observatory network OZCAR, with extensive hydrometric and chemical datasets available for model calibration and evaluation. We discuss the interplay between distinctively mobilized critical zone compartments from the hillslope scale to the whole catchment, distinguishing the respective controls of structural heterogeneity (in terms of hydrodynamic and chemical properties) and hydrological heterogeneities (in terms of changing flow paths)

Bridging ecohydrology and geochemistry with a process-based model-data approach: a link between ow paths, root uptake and weathering patterns

International audienc

Time evolution of the mineralogical composition of Mississippi Valley loess over the last 10 kyr: Climate and geochemical modeling

International audienceAnthropogenic and natural climate change affect processes in the atmosphere, biosphere, hydrosphere, and pedosphere. The impact of climate on soil evolution has not been well-explored, largely due to slow rates and the complexity of coupled processes that must be observed and simulated. The rates of mineral weathering in loess deposited 23 kyr ago and experienc- ing soil formation for 13 kyr are explored here using the WITCH model for weathering and the GENESIS model for climate simulation. The WITCH model, which uses rigorous kinetic parameters and laws with provision for the effect on rates of devi- ation from equilibrium, can successfully simulate the depletion profiles in the soil for dolomite and albite if soil CO2 is assumed to rise over the last 10 kyr up to about 30-40ﰎ the present atmospheric pressure, and if the solubility product of the Ca-smectite is assumed equal to that of an Fe(III)-rich Ca-montmorillonite. Such simulations document that dissolution behavior for silicates and carbonates are strongly coupled through pH, and for Ca-smectite and feldspars through dissolved silica. Such coupling is not incorporated in simple geometric and analytical models describing mineral dissolution, and there- fore probably contributes to the long-standing observation rates

Towards an Integrated Model of Weathering, Climate, and Biospheric Processes

peer reviewe

The influence of orography on modern ocean circulation

International audienceThe effects of orography on climate are investigated with a coupled ocean-atmosphere general circulation model (IPSL-CM5). Results are compared with previous investigations in order to dig out robust consequences of the lack of orography on the global scale. Emphasis is made on the thermohaline circulation whose sensitivity to orography has only been subject to a very limited number of studies using coupled models. The removal of the entire orography switches the Meridional Overturning Circulation from the Atlantic to the Pacific, following freshwater transfers from the latter to the former that reverse the salinity gradient between these oceans. This is in part due to the increased freshwater export from the Pacific to the Atlantic through North America in the absence of the Rocky Mountains and the consecutive decreased evaporation in the North Atlantic once the Atlantic MOC weakens, which cools the northern high-latitudes. In addition and unlike previous model studies, we find that tropical freshwater transfers are a major driver of this switch. More precisely, the collapse of the Asian summer monsoon, associated with westward freshwater transfer across Africa, is critical to the freshening of the Atlantic and the increased salt content in the Pacific. Specifically, precipitations are increasing over the Congo catchment area and induce a strong increase in runoff discharging into the tropical Atlantic. In addition, the removal of the Andes shifts the area of strong precipitation toward the Amazonian catchment area and results in a larger runoff discharging into the Tropical Atlantic

Bridging ecohydrology and geochemistry with a process-based model-data approach: a link between ow paths, root uptake and weathering patterns

International audienc