New insights into the early evolution of horizontal spiral trace fossils and the age of the Brioverian series (Ediacaran-Cambrian) in Brittany, NW France

In northwestern France, the Brioverian series is a thick siliciclastic succession deposited during the Cadomian cycle (c. 750-540 Ma). In the uppermost Brioverian beds, previous studies unravelled an assemblage dominated by simple horizontal trace fossils associated with microbially stabilized surfaces. Here, we report Spirodesmos trace fossils - one-way, irregular and regular horizontal spirals - from Crozon (Finistère, Brittany), Montfort-sur-Meu and St-Gonlay (Ille-et-Vilaine, Brittany). After reviewing the literature on horizontal spiral trace fossils, an Ediacaran-Fortunian Spirodesmos pool is identified from marginal-marine to shelf settings, while an Ordovician-Recent trend formed in the deep-marine realm. These results suggest that an onshore-offshore migration in Spirodesmos took place during Ediacaran-Fortunian to Ordovician time, similar to what happened in graphoglyptids. In addition, the age of the uppermost Brioverian beds (Ediacaran or early Cambrian) is still a pending question. Here, we report two new U-Pb detrital zircon datings from sandstone samples in St-Gonlay, giving maximum deposition ages of 551 ± 7 Ma and 540 ± 5 Ma. Although these results do not discard an Ediacaran age for the uppermost Brioverian beds, a Fortunian age is envisioned because the new dating corroborates previous dating from Brittany, Mayenne and Normandy. However, the intervals of error of the radiometric dating, and the dominance of non-penetrative trace fossils associated with matgrounds (an ecology more typical of the Ediacaran Period), do not allow definitive conclusions on the age of the uppermost Brioverian beds

Petrology, geochemistry, and U-Pb (zircon) age of the quartz-feldspar porphyry dyke at the Lake George antimony mine, New Brunswick: implications for origin, emplacement process, and mineralization

A steeply west-dipping, north-northwest-trending, biotite-bearing quartz-feldspar porphyry dyke is associated with the Lake George granodiorite, a cupola of the Pokiok Batholith. These Early Devonian intrusions are spatially and temporally related to W-Mo-Au and Sb-Au mineralization in the area. The porphyry dyke yielded an age of 420.8 +5.9/-4.0 Ma (U-Pb zircon) and is inferred to be coeval with or slightly older than the Lake George granodiorite (412 +5/-4 Ma, U-Pb zircon). The variably altered dyke contains subhedral to anhedral (rounded) quartz, plagioclase, and orthoclase phenocrysts (0.5 to 30 mm; 30 to 60 vol. %), and numerous angular to subrounded xenoliths of altered intrusion carapace and quenched dyke rocks, as well as local Kingsclear Formation metasedimentary rocks. The dyke is similar to the Lake George granodiorite in phenocryst population, volcanic arc (I-type) affinity, average Zr (157 ppm), TiO2 (0.54 %), La/Yb ratio (13), and REE (129 ppm). The average Au content is lower in the dyke (20 ppb) than in the granodiorite (32 ppb), the abundance of gold is related to minor magmatic hydrothermal chalcopyrite and pyrrhotite (< 2 %). Based on textural evidence, including autobrecciation, coupled with rheological and thermal modeling calculations for the 5 m-wide dyke, it is suggested that fluidization (vapour exsolution) of the magma was key to its rapid emplacement as a quenched glass-gas mixture (tuffisite). The S abundance and S isotopic signature of the dyke, relative to Au and Cu abundance, support reduced I-type magmatic volatiles involved in dyke emplacement and cogenetic autometasomatic alteration. RÉSUMÉ Un dyke de porphyre quartzo-feldspathique renfermant de la biotite, orienté vers le nord-nord-ouest et s’inclinant abruptement vers l’ouest, est associé à la granodiorite du lac George, une coupole du magmatisme du batholite de Pokiok. Ces intrusions régionales du Dévonien précoce sont spatialement et temporellement apparentées à une minéralisation de W-Mo-Au et de Sb-Au dans le secteur. Le dyke de porphyre a accusé un âge de 420,8 +5,9/-4,0 Ma (U-Pb sur zircon) et on le suppose du même âge ou légèrement plus âgé que la granodiorite du lac George (412 +5/-4 Ma, U-Pb sur zircon). Le dyke altéré de façon variable abrite des phénocristaux hypautomorphes à allotriomorphes (arrondis) de quartz, de plagioclase et d’orthoclase (0,5 à 30 mm, 30 à 60 % en vol.) ainsi que de nombreux xénolites angulaires à subsphérique d’une carapace d’intrusion altérée et de roches de dykes noyées, en plus de roches métasédimentaires locales de la Formation de Kingsclear. Le dyke s’avère analogue à la granodiorite du lac George du point de vue de la population de phénocristaux, de l’affinité avec l’arc insulaire (de type intrusif), de la concentration moyenne de Zr (157 ppm), du TiO2 (0,54 %), du ratio de La/Yb (13) et des ÉTR (129 ppm). La teneur moyenne en Au est plus faible dans le dyke (20 parties par milliard) que dans la granodiorite (32 parties par milliard); son abondance est apparentée à la présence restreinte de chalcopyrite et de pyrrhotite hydrothermales magmatiques (< 2 %). Selon les indices texturaux, notamment l’autobréchification, conjugués à des calculs de modélisation rhéologique et thermale du dyke (5 m), on peut supposer que la fluidisation (exsolution à l’état de vapeur) du magma a contribué à sa mise en place rapide sous forme d’un mélange de verre-gaz (tuffisite) noyé. L’abondance de S et la signature isotopique du S du dyke, comparativement à l’abondance d’Au et de Cu, appuient la participation réduite d’éléments volatils magmatiques de type intrusif à la mise en place du dyke et à l’altération autométasomatique cogénétique. [Traduit par la rédaction

Elliptical body fossils from the Fortunian (Early Cambrian) of Normandy (NW France)

Body fossils have been discovered in the Fortunian deposits of the Rozel Cape, in Normandy (NW France). The material consists of about 80 specimens preserved on a shale surface, recently observed at the base of a cliff at the Cap Rozel, in the Cotentin region. The fossils, centimetric in size, have an elliptical outline, with a peripheral bulge, generally without other conspicuous ornamentation, but showing sometimes concentric or radial lines possibly of taphonomic origins. In addition, these body fossils are preserved parallel to the bedding plane, locally rich in horizontal trace fossils (e.g. Archaeonassa Fenton &amp; Fenton, 1937, Helminthoidichnites Fitch, 1850, Helminthopsis Heer, 1877) and also complex treptichinids burrows (e.g. Treptichnus pedum (Seilacher, 1955)) sometimes associated with microbial mats. The sedimentological characteristics of these deposits (ripple marks, syneresis cracks) correspond to a shallow marine shelf environment, with a variable hydrodynamism in the intertidal zone, low for surfaces showing elliptic fossils and syneresis cracks, higher for surfaces with ripple marks. These new discoveries unravel the potential of the Fortunian strata from Normandy and provide new information about the early Cambrian biocenoses

The properties of tagged lattice fluids: II. Velocity correlation functions

We report preliminary measurements of the velocity autocorrelation function for a tagged particle in a lattice gas. These measurements agree with the Boltzmann-level theory. The Green-Kubo integration of these measurements agrees with theoretical predictions for the diffusion coefficient. To within the error bars of the simulations (3 /times/ 10/sup /minus/3/) we observe no long-time tails. 9 refs., 1 fig., 1 tab

Seismic risk in the city of Al Hoceima (north of Morocco) using the vulnerability index method, applied in Risk-UE project

The final publication is available at Springer via http://dx.doi.org/10.1007/s11069-016-2566-8Al Hoceima is one of the most seismic active regions in north of Morocco. It is demonstrated by the large seismic episodes reported in seismic catalogs and research studies. However, seismic risk is relatively high due to vulnerable buildings that are either old or don’t respect seismic standards. Our aim is to present a study about seismic risk and seismic scenarios for the city of Al Hoceima. The seismic vulnerability of the existing residential buildings was evaluated using the vulnerability index method (Risk-UE). It was chosen to be adapted and applied to the Moroccan constructions for its practicality and simple methodology. A visual inspection of 1102 buildings was carried out to assess the vulnerability factors. As for seismic hazard, it was evaluated in terms of macroseismic intensity for two scenarios (a deterministic and probabilistic scenario). The maps of seismic risk are represented by direct damage on buildings, damage to population and economic cost. According to the results, the main vulnerability index of the city is equal to 0.49 and the seismic risk is estimated as Slight (main damage grade equal to 0.9 for the deterministic scenario and 0.7 for the probabilistic scenario). However, Moderate to heavy damage is expected in areas located in the newer extensions, in both the east and west of the city. Important economic losses and damage to the population are expected in these areas as well. The maps elaborated can be a potential guide to the decision making in the field of seismic risk prevention and mitigation strategies in Al Hoceima.Peer ReviewedPostprint (author's final draft

Gene-metabolite annotation with shortest reactional distance enhances metabolite genome-wide association studies results

Metabolite genome-wide association studies (mGWAS) have advanced our understanding of the genetic control of metabolite levels. However, interpreting these associations remains challenging due to a lack of tools to annotate gene-metabolite pairs beyond the use of conservative statistical significance threshold. Here, we introduce the shortest reactional distance (SRD) metric, drawing from the comprehensive KEGG database, to enhance the biological interpretation of mGWAS results. We applied this approach to three independent mGWAS, including a case study on sickle cell disease patients. Our analysis reveals an enrichment of small SRD values in reported mGWAS pairs, with SRD values significantly correlating with mGWAS p values, even beyond the standard conservative thresholds. We demonstrate the utility of SRD annotation in identifying potential false negatives and inaccuracies within current metabolic pathway databases. Our findings highlight the SRD metric as an objective, quantitative and easy-to-compute annotation for gene-metabolite pairs, suitable to integrate statistical evidence to biological networks

Intra-Host Evolution Analyses in an Immunosuppressed Patient Supports SARS-CoV-2 Viral Reservoir Hypothesis.

Throughout the SARS-CoV-2 pandemic, several variants of concern (VOCs) have been identified, many of which share recurrent mutations in the spike glycoprotein's receptor-binding domain (RBD). This region coincides with known epitopes and can therefore have an impact on immune escape. Protracted infections in immunosuppressed patients have been hypothesized to lead to an enrichment of such mutations and therefore drive evolution towards VOCs. Here, we present the case of an immunosuppressed patient that developed distinct populations with immune escape mutations throughout the course of their infection. Notably, by investigating the co-occurrence of substitutions on individual sequencing reads in the RBD, we found quasispecies harboring mutations that confer resistance to known monoclonal antibodies (mAbs) such as S:E484K and S:E484A. These mutations were acquired without the patient being treated with mAbs nor convalescent sera and without them developing a detectable immune response to the virus. We also provide additional evidence for a viral reservoir based on intra-host phylogenetics, which led to a viral substrain that evolved elsewhere in the patient's body, colonizing their upper respiratory tract (URT). The presence of SARS-CoV-2 viral reservoirs can shed light on protracted infections interspersed with periods where the virus is undetectable, and potential explanations for long-COVID cases

The tree that hides the forest: Cryptic diversity and phylogenetic relationships in the Palaearctic vector Obsoletus/Scoticus Complex (Diptera: Ceratopogonidae) at the European level

Background: Culicoides obsoletus is an abundant and widely distributed Holarctic biting midge species, involved in the transmission of bluetongue virus (BTV) and Schmallenberg virus (SBV) to wild and domestic ruminants. Females of this vector species are often reported jointly with two morphologically very close species, C. scoticus and C. montanus, forming the Obsoletus/Scoticus Complex. Recently, cryptic diversity within C. obsoletus was reported in geographically distant sites. Clear delineation of species and characterization of genetic variability is mandatory to revise their taxonomic status and assess the vector role of each taxonomic entity. Our objectives were to characterize and map the cryptic diversity within the Obsoletus/Scoticus Complex. Methods: Portion of the cox1 mitochondrial gene of 3763 individuals belonging to the Obsoletus/Scoticus Complex was sequenced. Populations from 20 countries along a Palaearctic Mediterranean transect covering Scandinavia to Canary islands (North to South) and Canary islands to Turkey (West to East) were included. Genetic diversity based on cox1 barcoding was supported by 16S rDNA mitochondrial gene sequences and a gene coding for ribosomal 28S rDNA. Species delimitation using a multi-marker methodology was used to revise the current taxonomic scheme of the Obsoletus/Scoticus Complex. Results: Our analysis showed the existence of three phylogenetic clades (C. obsoletus clade O2, C. obsoletus clade dark and one not yet named and identified) within C. obsoletus. These analyses also revealed two intra-specific clades within C. scoticus and raised questions about the taxonomic status of C. montanus. Conclusions: To our knowledge, our study provides the first genetic characterization of the Obsoletus/Scoticus Complex on a large geographical scale and allows a revision of the current taxonomic classification for an important group of vector species of livestock viruses in the Palaearctic region.[Figure not available: See fulltext.

Carmustine and methotrexate in combination after whole brain radiation therapy in breast cancer patients presenting with brain metastases: a retrospective study

<p>Abstract</p> <p>Background</p> <p>Since 1999, patients presenting with brain metastases (BM) from breast cancer (BC) are treated in our institution with a carmustine (BCNU) - methotrexate (MTX) combination. We report here our clinical experience regarding this combination.</p> <p>Patients and Methods</p> <p>Patients were treated by a combination of BCNU 100 mg/m² on day 1 and MTX 600 mg/m² on day 1 and 15 of a 28 day cycle. Treatment was continued until progression or unacceptable toxicity.</p> <p>Results</p> <p>50 patients were treated between 1999 and 2007. 94% of the patients presented with concomitant extra-cerebral disease. Median number of previous metastatic setting chemotherapy regimens was 2 (0-5). Median number of cycles was 3 (1-20). There were 11 objective responses (23% [95%CI 12-37]) among 48 evaluable patients. Median progression-free survival and overall survival (OS) were 4.2 (95%CI: 2.8-5.3) and 6.9 (4.2-10.7) months respectively, with a one-year OS rate of 32% (20-46). Median Relative Dose Intensity for BCNU and MTX were 0.98 (0.31-1.1) and 0.96 (0.57-1.66) respectively. There were 2 presumed treatment-related deaths. One patient developed febrile neutropenia. Performance status, BS-BM score and presence of liver metastases were associated with OS in univariate analysis.</p> <p>Conclusions</p> <p>This combination appears to be effective and well tolerated in good performance status BC patients presenting with BM.</p

ABO Blood Group and the Risk of Hepatocellular Carcinoma: A Case-Control Study in Patients with Chronic Hepatitis B

BACKGROUND: Studies have observed an association between the ABO blood group and risk of certain malignancies. However, no studies of the association with hepatocellular carcinoma (HCC) risk are available. We conducted this hospital-based case-control study to examine the association with HCC in patients with chronic hepatitis B (CHB). METHODS: From January 2004 to December 2008, a total of 6275 consecutive eligible patients with chronic hepatitis B virus (HBV) infection were recruited. 1105 of them were patients with HBV-related HCC and 5,170 patients were CHB without HCC. Multivariate logistic regression models were used to investigate the association between the ABO blood group and HCC risk. RESULTS: Compared with subjects with blood type O, the adjusted odds ratio (AOR) for the association of those with blood type A and HCC risk was 1.39 [95% confidence interval (CI), 1.05-1.83] after adjusting for age, sex, type 2 diabetes, cirrhosis, hepatitis B e antigen, and HBV DNA. The associations were only statistically significant [AOR (95%CI) = 1.56(1.14-2.13)] for men, for being hepatitis B e antigen positive [AOR (95%CI) = 4.92(2.83-8.57)], for those with cirrhosis [AOR (95%CI), 1.57(1.12-2.20)], and for those with HBV DNA≤10(5)copies/mL [AOR (95%CI), 1.58(1.04-2.42)]. Stratified analysis by sex indicated that compared with those with blood type O, those with blood type B also had a significantly high risk of HCC among men, whereas, those with blood type AB or B had a low risk of HCC among women. CONCLUSIONS: The ABO blood type was associated with the risk of HCC in Chinese patients with CHB. The association was gender-related