Open Access Publications (Univ. de Genève)
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The AY165 antibody recognizes the V5-tag by immunofluorescence
Get PDFRecombinant anti-V5 tag antibodies AE408 and AY165 were tested for their ability to recognize an overexpressed V5-tagged protein by immunofluorescence. Only AY165 labeled efficiently cells overexpressing a V5-tagged protein
The ABCD_AI993 antibody does not label the human GAPDH protein by western blot
Get PDFThe ABCD_AI993 antibody does not detect the human GAPDH protein by western blot in HEK cell lysates
Stressing the gut-brain axis
No full textIt is widely known that psychological stress influences many aspects of our health. This is particularly true in the case of inflammatory bowel disease (IBD), a widespread disease of the gut. We found that psychological stress leads to inflammation of the gut by changing the gut-residing nervous system, which may inform therapeutic approaches in the future
Characteristics of sediments and regolith alterations in the Plio-Pleistocene succession, coastal cliff sections, St Vincent Basin, South Australia
Get PDFSyn- and post-depositional alterations are distinguished in a detailed lithological and mineralogical study of the largely unconsolidated Plio-Pleistocene non-marine succession in coastal cliff sections in the St Vincent Basin south of Adelaide. At its base, the sequence interfingers with Late Pliocene estuarine marine sediments in places but mostly unconformably overlies older Cenozoic marine sediments or Neproterozoic bedrock. The fluvial and alluvial siliclastics have bioturbation, blocky-prismatic macro-peds and subtle Fe-mottling indicators of hiatuses in deposition, and imprints of soil and shallow groundwater environments. A relative abundance of kaolinite, illite and randomly interstratified illite-smectite reflects both sediment source and conditions in the local depositional environment. A thick deposit of aeolian calcareous silt with associated pedogenic calcretes blankets the succession. Conspicuous bleached Fe mega-mottled intervals and zones of alunite-halloysite within the sequence record post-depositional, groundwater-related alterations in regolith environments. These formed during incision and erosion of the sedimentary fill in the basin in response to regional falls in base level. Each marks a different time and specific geomorphic environment according to the chemistry of the discharge of local groundwaters from aquifers that were intersected by incision and scarp retreat
Pantanal Basin river muds from source to sink: compositional changes in a tropical back-bulge depozone
Get PDFThe Pantanal Basin is a low-gradient back-bulge analog for distal depozones associated with retroarc foreland basin systems in the geological record. Extensive lowland environments including fluvial megafans, floodplains, wetlands, and lakes make up the Pantanal Basin today, with detrital sediment sources located along basin-margin plateaus and remnants of ancient orogenic belts. Here, we examine the chemical composition and mineralogy of modern fine-fraction fluvial sediments using X-ray methods to assess the influence of chemical weathering on sediment composition in this tropical basin. The abundance of clay minerals follows the rank order pattern of kaolinite > vermiculite > illite > smectite. Kaolinite is more abundant in river muds from the north-central than the southern Pantanal, suggesting strong extant chemical weathering plus the potential for clays inherited from siliciclastic parent lithologies that formed under Mesozoic greenhouse conditions. Illite occurs in sediments draining the North Paraguay Belt and limited parts of the South Paraguay Belt, and it reflects the influence of mechanical weathering of the metamorphic facies. In the southeastern Pantanal, vermiculite is a dominant constituent of the Miranda River watershed, which drains dacitic parent rocks and rhodic ferralsols. The geochemistry of the sediments reveals the interplay of quartz addition and clays inherited from the parent rocks. The most quartzose sediments are encountered at the confluence of the Paraguay River and the Taquari River megafan, where the cumulative effect of the 2 – 3-month flood pulse maximizes chemical weathering. Clay plus silt in back-bulge basins are controlled by climate > soils > parent rocks
An introduction for non-experts on using X-ray micro computed tomography as a tool for pore scale digital subsurface characterisation of siliciclastic materials
Get PDFThis paper presents an overview of using X-ray micro computed tomography (μCT) as a valuable tool for micro scale investigation of siliciclastic materials. When processed using digital image analysis (DIA), valuable quantitative data can be extracted from μCT 3D images. Subsurface reservoirs are of great importance to society as fluid-bearing formations, but also as storage reservoirs for carbon dioxide. μCT imaging has the capability to perform preliminary, highly detailed investigations of potential reservoirs. This approach has a range of benefits when compared to traditional 2D techniques, such as optical and scanning electron microscopy (SEM). Key advantages include the technique being non-destructive and capable of 3D and 4D visualisation. This facilitates rapid repeated digital measurements and experiments on microstructures. Digital samples can also be readily shared within the scientific community to replicate results and quickly launch new investigations. However, limitations still exist, posing challenges to the wider application of such a methodology. Such limitations include the identification of a representative elementary volume (REV), computational cost, and suitable processing of the output image data. Here, we highlight the value of using μCT and DIA, from our first experiences, to facilitate pore scale siliciclastic reservoir characterisation, but also highlight our perceived limitations and barriers to its much wider application. This paper introduces the key processing stages, opportunities and limitations of these techniques
Depositional model and sedimentation controls of a complex hybrid carbonate–siliciclastic ramp (Albian) – SW Campos Basin, Brazil
Get PDFHybrid deposits form from the interaction between carbonate deposition and coeval siliciclastic input, influenced by spatial and temporal dynamics. This interaction occurs across various mixing scales, resulting in a high vertical and lateral lithological variability. Understanding this heterogeneity is crucial for comprehending and modelling hybrid reservoirs. The Albian succession of the SE Brazilian margin records the early evolution of the South Atlantic Ocean. In the Campos Basin, this interval is represented by a retrograding succession of shallow-marine carbonates (Quissamã Formation) overlain by deep marine calcilutites and shales. We use cored wells, petrographic thin sections and geophysical logs to detail the Albian in the SW Campos Basin, to characterize its depositional model and stratigraphical succession. We identified four facies associations that define different parts of a hybrid carbonate–siliciclastic ramp: carbonate shoal (subdivided into shallower and deeper portions), hybrid carbonate-siliciclastic shoal, and coastal environment. Carbonate shoals are composed of calcarenites and calcirudites with oolites, oncolites, peloids, bioclasts and intraclasts. Hybrid shoals also present calcarenites and calcirudites but include a significant siliciclastic fraction. Coastal environments are dominantly composed of hybrid arenites, locally dolomitized. Carbonate-siliciclastic mixing occurs at different scales: compositional mixing at bed scale, and strata mixing at lithofacies and stratigraphic scales. This sediment mixture results from the interaction between waves, currents, base-level variation cycles, and salt tectonics. Isolith maps of siliciclastic and carbonate facies of the Quissamã Formation reveal four NE-trending shoals aligned on a NW-SE trend. Chronostratigraphic analysis indicates that the shoals were non-contemporary, with the most distal shoal forming earlier, indicating a retrograding, backstepping pattern for the Albian in the Campos Basin
From flood to turbidity current: combined models to simulate continent to ocean sediment transport in the Var system, France
Get PDFTurbidity currents are a form of gravity-driven flow that occurs in subaqueous environments. These currents contain a low volumetric percentage of particles but are very important in transporting them from coastal to deep-marine environments. In the Var sediment routing system, southeastern France, there is a sedimentary record of turbidity currents formed by submarine landslides and flooding of the Var River. In 2006, there was continuous monitoring of the marine section that recorded four turbidity currents. To explore the connectivity between the terrestrial source and marine basin we linked two reduced complexity models of sediment transport and landscape change. The aim of the paper is to combine two models, one dedicated to the prediction of river water and sediment run-off, and the second dedicated to the transport, erosion, and sedimentation by a turbidity current. The landscape evolution model CAESAR-Lisflood was used to model discharge and sediment yield. The behaviour of turbidity currents was modelled with the cellular automata model CATS. From calibration of the two models against observations of discharge and suspended sediment in the Var River system, we find that in 2006, two rainfall events would have led to hyperpycnal turbidity currents. These two events match well with two of the four-recorded events. Focusing on the largest event we find that the source pulse of sediment from the terrestrial environment is short-lived, less than half a day, but contains a significant quantity of fine particles. The event transferred on the order of 105 m3 of suspended sediment from source to sink. This study demonstrates that hyperpycnal turbidity currents can be generated with concentrations as low as 2-6 kg/m3 at the Var River mouth far below the theoretical 40 kg/m3 threshold, suggesting active convective sedimentation in the surface plume and sea-water dilution at the flooding river mouth. A substantial amount of sediment (35% of the input volume) is directly transferred towards the deepest part of the system during a short-living hyperpycnal turbidity current. However, a considerable (65%) part remains in the surface as a hypopycnal plume feeding the hemipelagic sedimentation
Development of a maturity model to assess the FAIRness of architectural data in Switzerland
Get PDFThis research carries out an in-depth assessment of the application of the FAIR (Findable, Accessible, Interoperable and Reusable) principles by the Swiss scientific community specialized in architecture, and consequently its positioning in the context of open science. The FAIR maturity assessment of research data is based on the use of maturity models. They provide a structured framework for implementing and improving data management practices. Our methodology involved a careful comparison of six existing maturity models and their alignment with the FAIR principles. This ensured a relevant and appropriate selection of evaluation criteria for own model. Developing straightforward criteria that can be applied in real-world scenarios is a key aspect of our approach. Inspired by the FAIR principles, we formulated our matrix-based maturity model, the Architectural Maturity Model (AMM). The goal of the AMM is to improve the understanding of metrics using a question-answer approach. We then applied the AMM to evaluate selected datasets stored in the Zenodo and ETH Research Collection repositories to assess the FAIRness of architectural research data.
The results show that architectural data are findable and accessible, but that they not very interoperable and can be reused only with limitations. To improve the FAIRness of architectural research data we recommend data producers to prioritize licences without restriction (e.g. CC0) and open formats. We also encourage researchers to discuss with their data stewards how to use controlled vocabularies to improve the visibility of their data on digital platforms
