Charge characteristics in relation to free iron and organic matter of soils from Bambouto Mountains, Western Cameroon

We have examined the charge characteristics, with special emphasis on the role of free Fe and organic matter, of humid tropical soils from Bambouto Mountains, Western Cameroon. The soils, which are formed from tuff, basalt and trachyte, are dominated by kaolinite and sesquioxides. The mounts of Fe oxides in them increase somewhat with depth. Open 2:1 phyllosilicates are present in trace amounts. The point of zero charge of the variable charge components, pH0, is around 4 in the topsoil (0-20 cm) and around 6 at 100-150 cm depth. In the subsoils, pH0 exceeds soil pH presumably because of large quantities of Fe oxides. Deferration increases both soil pH and pH0, but diminishes the anion exchange capacity. Oxides and oxyhydrates of Fe have positive surface charge, so their removal from the soils would result in overall loss of positive charge. Increases in soil pH would bring about an increase in the cation exchange capacity of the soils. Hence, management practices that reduce soil acidity should reduce loss of essential basic cations via leaching

SARS-CoV2 (COVID-19) infection: is fetal surgery in times of national disasters reasonable?

Even though the global COVID‐19 pandemic may affect how medical care is delivered in general, most countries try to maintain steady access for women to routine pregnancy care, including fetal anomaly screening. This means that, also during this pandemic, fetal anomalies will be detected, and that discussions regarding invasive genetic testing and possibly fetal therapy will need to take place. For patients, concerns about Severe Acute Respiratory Syndrome‐Corona Virus 2 will add to the anxiety caused by the diagnosis of a serious fetal anomaly. Yet, also for fetal medicine teams the situation gets more complex as they must weigh up the risks and benefits to the fetus as well as the mother, while managing a changing evidence base and logistic challenges in their healthcare system

Cenozoic tectonic evolution of south-eastern Thailand derived from low-temperature thermochronology

Low-temperature thermochronologic techniques, specifically apatite (U-Th)/He and apatite fission track dating were used to reconstruct the thermal history of south-eastern Thailand. This area is intersected by vast and complex fault networks related to the Cenozoic Mae Ping and Three Pagodas Faults. These were identified from satellite imagery and confirmed by field observations. New apatite fission track and apatite (U-Th)/He data were collected from crystalline basement blocks within these fault networks. Ages obtained range from 48 Ma to 24 Ma, with most of the samples clustering between 36 and 24 Ma. Thermal history modelling indicates late Eocene – Oligocene exhumation of the exposed granitic and metamorphic basement rocks in south-eastern Thailand. Exhumation was regional and was contemporaneous with sinistral fault activity during the late Eocene – early Oligocene along the Mae Ping Fault and Three Pagodas Fault. Moreover, this exhumation occurred coevally with a syn-rift phase of intracontinental offshore rift basin and half-graben basin development in the eastern Gulf of Thailand. The phase of exhumation ended in the early Miocene, as a result of the changing plate tectonic forces along the complex plate boundaries of Sundaland

A standardized framework for accurate, high-throughput genotyping of recombinant and non-recombinant viral sequences

Human immunodeficiency virus type-1 (HIV-1), hepatitis B and C and other rapidly evolving viruses are characterized by extremely high levels of genetic diversity. To facilitate diagnosis and the development of prevention and treatment strategies that efficiently target the diversity of these viruses, and other pathogens such as human T-lymphotropic virus type-1 (HTLV-1), human herpes virus type-8 (HHV8) and human papillomavirus (HPV), we developed a rapid high-throughput-genotyping system. The method involves the alignment of a query sequence with a carefully selected set of pre-defined reference strains, followed by phylogenetic analysis of multiple overlapping segments of the alignment using a sliding window. Each segment of the query sequence is assigned the genotype and sub-genotype of the reference strain with the highest bootstrap (>70%) and bootscanning (>90%) scores. Results from all windows are combined and displayed graphically using color-coded genotypes. The new Virus-Genotyping Tools provide accurate classification of recombinant and non-recombinant viruses and are currently being assessed for their diagnostic utility. They have incorporated into several HIV drug resistance algorithms including the Stanford (http://hivdb.stanford.edu) and two European databases (http://www.umcutrecht.nl/subsite/spread-programme/ and http://www.hivrdb.org.uk/) and have been successfully used to genotype a large number of sequences in these and other databases. The tools are a PHP/JAVA web application and are freely accessible on a number of servers including

Evolutionary history of hepatitis C virus genotype 5a in France, a multicenter ANRS study

The epidemic history of HCV genotype 5a is poorly documented in France, where its prevalence is very low, except in a small central area, where it accounts for 14.2% of chronic hepatitis C cases. A Bayesian coalescent phylogenetic investigation based on the E1 envelope gene and a non-structural genomic segment (NS3/4) was carried out to trace the origin of this epidemic using a large sample of genotype 5a isolates collected throughout France. The dates of documented transmissions by blood transfusion were used to calibrate five nodes in the phylogeny. The results of the E1 gene analysis showed that the best-fitting population dynamic model was the expansion growth model under a relaxed molecular clock. The rate of nucleotide substitutions and time to the most recent common ancestors (tMRCA) of genotype 5a isolates were estimated. The divergence of all the French HCV genotype 5a strains included in this study was dated to 1939 [95% HPD: 1921–1956], and the tMRCA of isolates from central France was dated to 1954 [1942–1967], which is in agreement with epidemiological data. NS3/4 analysis provided similar estimates with strongly overlapping HPD values. Phylodynamic analyses give a plausible reconstruction of the evolutionary history of HCV genotype 5a in France, suggesting the concomitant roles of transfusion, iatrogenic route and intra-familial transmission in viral diffusion

Prevalence of G2P[4] and G12P[6] Rotavirus, Bangladesh

Rotavirus strains not covered by licensed vaccines are increasing