Simulations of CO2 Migration with a Fully-Integrated VE Model on the GPU

The reduction of carbon dioxide emissions is becoming an increasing global priority and is the subject of many current research projects. One of the possible solutions is geological carbon storage, in which CO2 is captured and injected into geological underground reservoirs for permanent storage. An assessment of the associated CO2 leakage risks is crucial when evaluating potential storage sites. By simulating the movement of CO2 during and in the aftermath of the injection we can determine these risks. In this thesis we present a CO2 migration simulator made for this purpose. There are often great uncertainties in the available geological data required to make realistic simulations. This means that one has to be able to evaluate multiple scenarios within a relatively short time frame, putting performance requirements on the simulator. Because the temporal and spatial scales in question are very big, the full 3D models commonly applied in the related branch of oil and gas simulators are too computationally demanding. Thus, our simulator is based on a 2D VE model. What sets our simulator apart from other VE-based simulators, is that we include non-linearized CO2 properties. This means that the vertical integrals which constitute the VE model are no longer trivial expressions, they must be "fully-integrated". Through GPU acceleration we implement a simulator that runs just as fast as other CPU-based VE simulators, in spite of the tedious numerical integrations. The benefits of GPU-acceleration are emphasized when simulating on large domains. Moreover we make a comparison study with a VE-based simulator in which the CO2 properties are linearized. The optimization potential and different optimization strategies directed at the GPU implementation of the numerical integrations are also elaborated

Expression of DC-SIGN and DC-SIGNR on human sinusoidal endothelium: a role for capturing hepatitis C virus particles.

Hepatic sinusoidal endothelial cells are unique among endothelial cells in their ability to internalize and process a diverse range of antigens. DC-SIGNR, a type 2 C-type lectin expressed on liver sinusoids, has been shown to bind with high affinity to hepatitis C virus (HCV) E2 glycoprotein. DC-SIGN is a closely related homologue reported to be expressed only on dendritic cells and a subset of macrophages and has similar binding affinity to HCV E2 glycoprotein. These receptors function as adhesion and antigen presentation molecules. We report distinct patterns of DC-SIGNR and DC-SIGN expression in human liver tissue and show for the first time that both C-type lectins are expressed on sinusoidal endothelial cells. We confirmed that these receptors are functional by demonstrating their ability to bind HCV E2 glycoproteins. Although these lectins on primary sinusoidal cells support HCV E2 binding, they are unable to support HCV entry. These data support a model where DC-SIGN and DC-SIGNR on sinusoidal endothelium provide a mechanism for high affinity binding of circulating HCV within the liver sinusoids allowing subsequent transfer of the virus to underlying hepatocytes, in a manner analogous to DC-SIGN presentation of human immunodeficiency virus on dendritic cells

Scavenger endothelial cells of fish, a review

The definition of scavenger endothelial cells (SEC) is exclusively based on functional and structural characteristics. The following characteristics are common hallmarks for the vertebrate SEC: (a) All vertebrates examined are furnished with a population of special SEC that plays a role in the catabolism of physiologic and non-physiologic soluble waste macromolecules. (b) From the ligands that are endocytosed, SEC in all seven vertebrate classes appear to express the collagen α-chain receptor and the scavenger receptors. In addition, the hyaluronan and the mannose receptors are present on SEC of mammalia (several species) and osteichthyes (e.g., salmon and cod). It is likely that all four receptor types are present in all vertebrate classes. (c) Like liver endothelial cells (LEC) in mammals, SEC in all vertebrate classes are geared to endocytosis of soluble macromolecules, but phagocytic uptake of particles is taken care of mainly by macrophages. (d) The most primitive vertebrates (hagfish, lamprey and ray) carry their SEC in gill vessels, whereas phylogenetically younger fishes (salmon, carp, cod and plaice) carry their SEC in either kidney or heart and in all terrestrial vertebrates—SEC are found exclusively in the liver. (e) SEC of all vertebrates are localized in blood sinusoids or trabeculae that carry large amounts of slowly flowing and O2 poor blood. (f) SEC differs functionally and structurally from what is normally associated with “conventional vascular endothelium.

Regulation of atypical MAP kinases ERK3 and ERK4 by the phosphatase DUSP2

The atypical MAP kinases ERK3 and ERK4 are activated by phosphorylation of a serine residue lying within the activation loop signature sequence S-E-G. However, the regulation of ERK3 and ERK4 phosphorylation and activity is poorly understood. Here we report that the inducible nuclear dual-specificity MAP kinase phosphatase (MKP) DUSP2, a known regulator of the ERK and p38 MAPKs, is unique amongst the MKP family in being able to bind to both ERK3 and ERK4. This interaction is mediated by a conserved common docking (CD) domain within the carboxyl-terminal domains of ERK3 and ERK4 and the conserved kinase interaction motif (KIM) located within the non-catalytic amino terminus of DUSP2. This interaction is direct and results in the dephosphorylation of ERK3 and ERK4 and the stabilization of DUSP2. In the case of ERK4 its ability to stabilize DUSP2 requires its kinase activity. Finally, we demonstrate that expression of DUSP2 inhibits ERK3 and ERK4-mediated activation of its downstream substrate MK5. We conclude that the activity of DUSP2 is not restricted to the classical MAPK pathways and that DUSP2 can also regulate the atypical ERK3/4-MK5 signalling pathway in mammalian cells

Midterm Outcomes for Endovascular Repair of Thoraco-Abdominal Aortic Aneurysms

Objective: To investigate technical and clinical outcomes in patients with thoraco-abdominal aortic aneurysms treated with the multibranched off the shelf Zenith t-Branch stent graft or a custom made device (CMD). Methods: A retrospective study was conducted of patients operated on at a single tertiary vascular centre in Norway. Twenty eight t-Branch and 17 CMD patients were identified. Demographic, aneurysm, and peri-operative data were summarised and compared. Results: Thirty day mortality was 4% (2/45), with mortality rates of 7% (2/28) and 0 in t-Branch and CMD patients, respectively (p = .52). Technical success was 87% (39/45), with a non-significant difference between t-Branch and CMD procedures of 89% (25/28) and 82% (14/17), respectively (p = .63). Stent graft coverage was significantly longer in t-Branch patients (p = .020). Paraparesis or paraplegia developed in 18% (5/28) of t-Branch patients and 12% (2/17) of CMD patients (p = .69), and spinal cord ischaemia was associated with Crawford type II aneurysms (p = .010) and aortic coverage >400 mm (p = .050). The estimated survival at one and two years for t-Branch patients was 93% and 88%, and 100% and 92% for CMD patients. Freedom from re-intervention was estimated at 70% and 43% at one and two years for t-Branch patients, and 58% and 50% for CMD patients. Conclusion: The study showed low 30 day mortality rates, acceptable technical success rates, high medium term survival, and no statistically significant differences in clinically relevant outcomes between t-Branch and CMD patients.publishedVersio

Cleaner fish in aquaculture: review on diseases and vaccination

Combating and controlling sea lice causes large economic costs for the farmers, with estimated values of more than 305 million euros (€) per year. Increased resistance against traditional chemotherapeutants due to evolutionary drivers in the sea lice combined with the lack of an effective vaccine and few other chemical treatments available are expected to cause these costs to increase. Several possible methods for managing sea lice infestations have been investigated, but only cleaner fish has proven to have an effect on lice levels. Cleaning activity is well known in marine fish and has been observed in the wild as a form of symbiosis between two species: one species, the ‘client’ fish, seek out the other species, the ‘cleaner’ fish, to have ectoparasites and dead tissue cleared from its body. The Atlantic lumpfish is a relatively new aquaculture species, and wild‐caught mature fish are used as brood stock for farmed production. This poses a biosecurity risk, as wild fish can carry pathogens, and the use of quarantine and health screening is recommended. Vaccine development is unfortunately lagging far behind relatively to the wide spread and high utilisation of the fish. This review contains description of the main pathogens and diseases that affect cleaner fish

Evaluation of histological post-mortem changes in farmed Atlantic salmon (Salmo salar L.) at different time intervals and storage temperatures

The aim of this study was to evaluate histologic post-mortem autolytic changes in farmed Atlantic salmon. The fish were either stored at room temperature (RT, 21°C), refrigerated (4°C) or frozen (−20°C), while fish necropsy was performed at 0, 1, 4, 24 and 48 h post-storage (hps). In addition, gills were sampled at 0, 5, 10, 15, 30 and 45 min post-storage (mps) at room temperature (RT). The haematoxylin and eosin-stained tissue slides were evaluated and scored by using a semi-quantitative scoring system. Our findings demonstrated gills and pyloric caeca/pancreas as the most severely autolysed organs while heart and skeletal musculature were least affected. Generally, moderate to severe autolysis appeared first at 4 hps, while severe changes were seen at 24 hps. Gills demonstrated autolytic changes as early as 10 mps and pyloric caeca/pancreas at 1 hps. Freezing did not prevent the autolysis and even contributed to freezing artefacts, which may lead to misdiagnosis. Keeping organs refrigerated slowed the autolytic progress within the first 4 hps marginally. This study recommends gills and pyloric caeca/pancreas should be sampled as early as possible, at least within 10 min post-necropsy

Anatomical distribution of scavenger endothelial cells in bony fishes (Osteichthyes)

The scavenger endothelial cells (SECs) of vertebrates are an important class of endocytic cells responsible for clearance of foreign and physiological waste macromolecules, partitioning in the immune system, functioning as a cellular powerplant by producing high energy metabolites like lactate and acetate. All animal phyla possess SECs, but the tissue localization of SECs has only been investigated in a limited number of species. By using a specific ligand for scavenger receptors (formalin treated bovine serum albumin), the study revealed that in all tetrapod species (amphibia, reptiles, birds and mammals) the SECs were found lining the sinusoids of the liver. No SECs were found in the liver of any of the bony fishes (Osteichthyes) investigated. Interestingly, we found the SECs not only to be located in the heart of marine species but also in some freshwater species such as Lota lota, Percichthys trucha and Perca fluviatilis. In some fish species, the SECs were found both in the heart and/or kidney in a number of marine and freshwater fishes, whereas in some marine, diadromous and freshwater fishes the SECs were confined only to the kidney tissue. However, from these results it can be suggested that there is neither a clear phylogenetic trend when it came to anatomical localization of SECs nor any pattern in terms of habitat (salinity preferences)

Inflammatory responses in Atlantic lumpfish (Cyclopterus lumpus L.) after intraperitoneal injection of a vaccine against Aeromonas salmonicida and Vibrio salmonicida at different water temperatures

Studying inflammatory responses induced by vaccination can contribute to a more detailed understanding of underlying immune mechanisms in lumpfish (Cyclopterus lumpus). Tissue samples from lumpfish intraperitoneally immunized with a divalent oil-adjuvanted vaccine (Aeromonas salmonicida and Vibrio salmonicida) at water temperatures of 5, 10, and 15°C were collected at 630 day degrees and 18 weeks post injection. The relative amount of secretory and membrane-bound immunoglobulin M (IgM) gene transcripts in the head kidney was determined by qPCR. Vaccine-induced inflammatory lesions were assessed on histological sections of abdominal pancreatic/intestinal tissue from vaccinated fish in all three temperature groups. Inflammatory cells forming dense aggregations in lesions showed proliferative activity, many of which were identified as eosinophilic-granulocyte-like cells. IgM+ cells were scattered in inflammatory tissue dominated by connective tissue, showing no difference in numbers between lesions from fish vaccinated at 5, 10, and 15°C. Relative gene expression analysis of secretory and membrane-bound IgM revealed low overall expression in the head kidney of vaccinated fish at both 630 day-degrees and 18 weeks post injection. The results of this study indicate that the vaccine stimulated prolonged local inflammatory responses at the injection site, which were not influenced by temperature