Hepatitis C Virus (HCV) Genotype 1 Subtype Identification in New HCV Drug Development and Future Clinical Practice

International audienceBACKGROUND: With the development of new specific inhibitors of hepatitis C virus (HCV) enzymes and functions that may yield different antiviral responses and resistance profiles according to the HCV subtype, correct HCV genotype 1 subtype identification is mandatory in clinical trials for stratification and interpretation purposes and will likely become necessary in future clinical practice. The goal of this study was to identify the appropriate molecular tool(s) for accurate HCV genotype 1 subtype determination. METHODOLOGY/PRINCIPAL FINDINGS: A large cohort of 500 treatment-naïve patients eligible for HCV drug trials and infected with either subtype 1a or 1b was studied. Methods based on the sole analysis of the 5' non-coding region (5'NCR) by sequence analysis or reverse hybridization failed to correctly identify HCV subtype 1a in 22.8%-29.5% of cases, and HCV subtype 1b in 9.5%-8.7% of cases. Natural polymorphisms at positions 107, 204 and/or 243 were responsible for mis-subtyping with these methods. A real-time PCR method using genotype- and subtype-specific primers and probes located in both the 5'NCR and the NS5B-coding region failed to correctly identify HCV genotype 1 subtype in approximately 10% of cases. The second-generation line probe assay, a reverse hybridization assay that uses probes targeting both the 5'NCR and core-coding region, correctly identified HCV subtypes 1a and 1b in more than 99% of cases. CONCLUSIONS/SIGNIFICANCE: In the context of new HCV drug development, HCV genotyping methods based on the exclusive analysis of the 5'NCR should be avoided. The second-generation line probe assay is currently the best commercial assay for determination of HCV genotype 1 subtypes 1a and 1b in clinical trials and practice

Elevated plasma phospholipase A2 and platelet-activating factor acetylhydrolase activity in colorectal cancer.

This clinical study reports that blood levels of the pro-inflammatory mediator platelet-activating factor (PAF) did not change in colorectal cancer patients. In contrast, plasma levels of two enzymatic activities, one implicated in PAF production (i.e. phospholipase A2) and one in PAF degradation (i.e. PAF acetylhydrolase activity) were significantly elevated

Anatomic and molecular characterization of the 1 endocrine pancreas of a teleostean fish: Atlantic wolffish (Anarhichas lupus)

Background: The biologic attributes of the endocrine pancreas and the comparative endocrinology of islet amyloid polypeptide (IAPP) of fish are not well described in the literature. This study describes the endocrine pancreas of one teleostean fish. Ten captive Atlantic wolffish (Anarhichas lupus) from the Montreal Biodome were submitted for necropsy and their pancreata were collected. Results: Grossly, all the fish pancreata examined contained 1-3 nodules of variable diameter (1-8 mm). Microscopically, the nodules were uniform, highly cellular, and composed of polygonal to elongated cells. Immunofluorescence for pancreatic hormones was performed. The nodules were immunoreactive for insulin most prominent centrally, but with IAPP and glucagon only in the periphery of the nodules. Exocrine pancreas was positive for chromogranin A. Not previously recognized in fish, IAPP immunoreactivity occurred in α, glucagon-containing, cells and did not co-localize with insulin in β cells. The islet tissues were devoid of amyloid deposits. IAPP DNA sequencing was performed to compare the sequence among teleost fish and the potency to form amyloid fibrils. In silico analysis of the amino acid sequences 19-34 revealed that it was not amyloidogenic. Conclusions: Amyloidosis of pancreatic islets would not be expected as a spontaneous disease in the Atlantic wolffish. Our study underlines that this teleost fish is a potential candidate for pancreatic xenograft research

First results on a sensor bio-inspired by electric fish

This article presents the first results of a work which aims at designing an active sensor inspired by the electric fish. Its interest is its potential for robotics underwater navigation and exploration tasks in conditions where vision and sonar would meet difficulty. It could also be used as a complementary omnidirectional, short range sense to vision and sonar. Combined with a well defined engine geometry, this sensor can be modeled analytically. In this article, we focus on a particular measurement mode where one electrode of the sensor acts as a current emitter and the others as current receivers. In spite of the high sensitivity required by electric sense, the first results show that we can obtain a detection range of the order of the sensor length, which suggests that this sensor principle could be used in future for robotics obstacle avoidance

Sensor model for the navigation of underwater vehicles by the electric sense

International audienceWe present an analytical model of a sensor for the navigation of underwater vehicles by the electric sense. This model is inspired from the electroreception structure of the electric fish. In our model, that we call the poly-spherical model (PSM), the sensor is composed of n spherical electrodes. Some electrodes play the role of current-emitters whereas others play the role of current-receivers. By imposing values of the electrical potential on each electrode we create an electric field in the vicinity of the sensor. The region where the electric field is created is considered as the bubble of perception of the sensor. Each object that enters this bubble is electrically polarized and creates in return a perturbation. This perturbation induces a variation of the measured current by the sensor. The model is tested on objects for which the expression of the polarizability is known. A unique off-line calibration of the poly-spherical model permits to predict the measured current of a real immersed sensor in an aquarium. Comparisons in a basic scene between the predicted current given by the poly-spherical model and the measured current given by our test bed show a very good agreement, which confirms the interest of using such fast analytical models for the purpose of navigation

Impact of thermomechanical fiber pre-treatment using twin-screw extrusion on the production and properties of renewable binderless coriander fiberboards

The aim of this study consisted of manufacturing renewable binderless fiberboards from coriander straw and a deoiled coriander press cake, thus at the same time ensuring the valorization of crop residues and process by-products. The press cake acted as a natural binder inside the boards owing to the thermoplastic behavior of its protein fraction during thermopressing. The influence of different fiber-refining methods was evaluated and it was shown that a twin-screw extrusion treatment effectively improved fiber morphology and resulted in fiberboards with enhanced performance as compared to a conventional grinding process. The best fiberboard was produced with extrusion-refined straw using a 0.4 liquid/solid (L/S) ratio and with 40% press cake addition. The water sensitivity of the boards was effectively reduced by 63% through the addition of an extrusion raw material premixing operation and thermal treatment of the panels at 200 °C, resulting in materials with good performance showing a flexural strength of 29 MPa and a thickness swelling of 24%. Produced without the use of any chemical adhesives, these fiberboards could thus present viable, sustainable alternatives for current commercial wood-based materials such as oriented strand board, particleboard and medium-density fiberboard, with high cost-effectiveness

3D Modelling of a Spatially Resolved Energy Metabolism in Physiological Astrocytic Morphology

Astrocytes, the most abundant cell in the central nervous system, have a star-shaped morphology and play a central role in brain homeostasis as metabolic mediators between neurons and blood vessels. Recent evidence put astrocytes therefore in the focus of neurodegeneration (ND), since in case of metabolic dysfunctions as e.g. observed in Alzheimer’s disease or Parkinson’s disease, they cannot provide neurons with sufficient amount of nutrients. Furthermore, progression of ND is often accompanied by changes in astrocytic morphology further indicating the essential role of astrocytes in the brain. Despite its importance, the complex astrocytic morphology is often neglected in modelling of metabolic reactions [1]. In this study, we propose a computational model that describes cellular metabolism through a reaction-diffusion system including two fundamental pieces of information: the intracellular spatial arrangement of the reaction sites and the real, complex geometries by using the previously developed method CutFEM([2][3]). Our findings show how intracellular spatial organisation and diffusion limitation as well as the physio- logical cell shape must be taken into account to go towards biological models that are closer to reality. In particular, the spatial distribution of mitochondria notably impacts the cellular ATP : ADP ratio, which is an indicator of the energetic state of the cell. Finally, we solve our system in a 3D human astrocytic morphology and study the different spatial arrangements of the reaction sites simulating physiological and dysfunctional behaviour. In this regard, we believe, that the proposed model is a useful instrument to gain insights into the role astrocytes play in neurodegeneration

The synthetic integron: an in vivo genetic shuffling device

As the field of synthetic biology expands, strategies and tools for the rapid construction of new biochemical pathways will become increasingly valuable. Purely rational design of complex biological pathways is inherently limited by the current state of our knowledge. Selection of optimal arrangements of genetic elements from randomized libraries may well be a useful approach for successful engineering. Here, we propose the construction and optimization of metabolic pathways using the inherent gene shuffling activity of a natural bacterial site-specific recombination system, the integron. As a proof of principle, we constructed and optimized a functional tryptophan biosynthetic operon in Escherichia coli. The trpA-E genes along with ‘regulatory’ elements were delivered as individual recombination cassettes in a synthetic integron platform. Integrase-mediated recombination generated thousands of genetic combinations overnight. We were able to isolate a large number of arrangements displaying varying fitness and tryptophan production capacities. Several assemblages required as many as six recombination events and produced as much as 11-fold more tryptophan than the natural gene order in the same context

The experimental power of FR900359 to study Gq-regulated biological processes

Despite the discovery of heterotrimeric αβγ G proteins ∼25 years ago, their selective perturbation by cell-permeable inhibitors remains a fundamental challenge. Here we report that the plant-derived depsipeptide FR900359 (FR) is ideally suited to this task. Using a multifaceted approach we systematically characterize FR as a selective inhibitor of Gq/11/14 over all other mammalian Gα isoforms and elaborate its molecular mechanism of action. We also use FR to investigate whether inhibition of Gq proteins is an effective post-receptor strategy to target oncogenic signalling, using melanoma as a model system. FR suppresses many of the hallmark features that are central to the malignancy of melanoma cells, thereby providing new opportunities for therapeutic intervention. Just as pertussis toxin is used extensively to probe and inhibit the signalling of Gi/o proteins, we anticipate that FR will at least be its equivalent for investigating the biological relevance of Gq. Pertussis toxin is used extensively for perturbing Gαi/o pathways in the study of physiology and disease, but an equivalent inhibitor of Gαq signalling is not currently available to the research community. Here the authors characterize FR900359 as a specific Gq inhibitor and demonstrate its utility to dissect GPCR signalling and its potential to inhibit melanoma cells

Anthropogenic VOCs in Abidjan, southern West Africa : From source quantification to atmospheric impacts

Several field campaigns were conducted in the framework of the Dynamics-Aerosol-Chemistry-Cloud Interactions in West Africa (DACCIWA) project to measure a broad range of atmospheric constituents. Here we present the analysis of an unprecedented and comprehensive dataset integrating up to 56 volatile organic compounds (VOCs) from ambient sites and emission sources. VOCs were collected on multi-sorbent tubes in the coastal city of Abidjan, Côte d'Ivoire, in winter and summer 2016 and later analysed by gas chromatography coupled with flame ionization and mass spectrometer detectors (GC-FID and GC-MS) at the laboratory. The comparison between VOC emission source profiles and ambient profiles suggests the substantial impact of two-stroke motorized two-wheel vehicles and domestic fires on the composition of Abidjan's atmosphere. However, despite high VOC concentrations near-source, moderate ambient levels were observed (by factors of 10 to 4000 lower), similar to the concentrations observed in northern mid-latitude urban areas. Besides photochemistry, the reported high wind speeds seem to be an essential factor that regulates air pollution levels in Abidjan. Emission ratios (ΔVOC/CO) were established based on real-world measurements achieved for a selected number of representative combustion sources. Maximum measured molar mass emissions were observed from two-wheel vehicles, surpassing other regional sources by 2 orders of magnitude. Local practices like waste burning also make a significant contribution to VOC emissions, higher than those from light-duty vehicles by 1.5 to 8 orders of magnitude. These sources also largely govern the VOC's atmospheric impacts in terms of OH reactivity, secondary organic aerosol formation (SOAP), and photochemical ozone creation potential (POCP). While the contribution of aromatics dominates the atmospheric impact, our measurements reveal the systematic presence of anthropogenic terpenoids in all residential combustion sectors. Finally, emission factors were used to retrieve and quantify VOC emissions from the main anthropogenic source sectors at the national level. Our detailed estimation of VOC emissions suggests that the road transport sector is the dominant source in Côte d'Ivoire, emitting around 1200Gg yr-1 of gas-phase VOCs. These new estimates are 100 and 160 times larger than global inventory estimations from MACCity or EDGAR (v4.3.2), respectively. Additionally, the residential sector is largely underestimated in the global emission inventories, by factors of 13 to 43. Considering only Côte d'Ivoire, these new estimates for VOCs are 3 to 6 times higher than the whole of Europe. Given the significant underestimation of VOC emissions from the transport and residential sectors in Côte d'Ivoire, there is an urgent need to build more realistic and region-specific emission inventories for the entire West African region. This might be true not only for VOCs, but also for all atmospheric pollutants. The lack of waste burning, wood fuel burning and charcoal burning, and fabrication representation in regional inventories also needs to be addressed, particularly in low-income areas where these types of activities are ubiquitous sources of VOC emissions