Modeling X-chromosome inactivation and reactivation during human development

Stem-cell-based embryo models generate much excitement as they offer a window into an early phase of human development that has remained largely inaccessible to scientific investigation. An important epigenetic phenomenon during early embryogenesis is the epigenetic silencing of one of the two X chromosomes in female embryos, which ensures an equal output of X-linked gene expression between the sexes. X-chromosome inactivation (XCI) is thought to be established within the first three weeks of human development, although the inactive X-chromosome is reactivated in primordial germ cells (PGCs) that migrate to the embryonic gonads. Here, we summarize our current understanding of X-chromosome dynamics during human development and comment on the potential of recently established stem-cell-based models to reveal the underlying mechanisms

Robustness of Planar Fourier Capture Arrays to Colour Changes and Lost Pixels

Planar Fourier capture arrays (PFCAs) are optical sensors built entirely in standard microchip manufacturing flows. PFCAs are composed of ensembles of angle sensitive pixels (ASPs) that each report a single coefficient of the Fourier transform of the far-away scene. Here we characterize the performance of PFCAs under the following three non-optimal conditions. First, we show that PFCAs can operate while sensing light of a wavelength other than the design point. Second, if only a randomly-selected subset of 10% of the ASPs are functional, we can nonetheless reconstruct the entire far-away scene using compressed sensing. Third, if the wavelength of the imaged light is unknown, it can be inferred by demanding self-consistency of the outputs.Comment: 15 pages including cover page, 12 figures, associated with the 9th International Conference on Position Sensitive Detector

Primary umbilical endometriosis:a cause of a painful umbilical nodule

A female patient presented with a painful swelling in the umbilicus. Ultrasonography demonstrated a hypodense nodule of 1.8 cm. Surgical exploration revealed a subcutaneous, dark discoloured, lobulated swelling at the bottom of the umbilicus, which turned out to be primary umbilical endometriosis (PUE). Primary umbilical endometriosis is a rare and benign disorder, caused by the presence of ectopic endometrial tissue in the umbilicus, which can present as a painful, discoloured swelling in the umbilicus. The clinical distinction between primary umbilical endometrioses and other causes of an umbilical nodule is difficult. Additional imaging modalities do not show any pathognomonic signs for establishing this diagnose. Surgical exploration and excision are a safe and definitive treatment of primary umbilical endometrioses. This case highlights the importance of including PUE in the differential diagnosis of women with a painful umbilical nodule

Publisher Correction: Rapid Adaptation to the Timbre of Natural Sounds.

An amendment to this paper has been published and can be accessed via a link at the top of the paper

Genetic effects from an Afrikaner, Bonsmara, and Nguni three-breed diallel and top-crosses of Angus and Simmental sires

Individual and maternal breed additive effects and heterosis exist for most economically important traits in cattle. Crossbreeding may therefore be valuable for emerging and commercial beef farmers in improving the productivity of their herds. Calves were produced by mating Afrikaner, Bonsmara and Nguni cows to Afrikaner, Bonsmara, Nguni, Angus and Simmental bulls. The cows used were from Vaalharts Research Station or were purchased from other herds. Data were collected over three years. Individual and maternal additive effects and individual heterosis were estimated simultaneously as continuous linear variates. The estimated genetic effects were then used to predict production levels that may be achieved through implementation of top-cross, two-breed rotation, and terminal sire crossbreeding systems. The individual estimates of the genetic effects were relatively small and in most cases were not different from zero, with the exception of the maternal additive effects of Nguni on preweaning traits and their individual additive effect on cow weight, which were less than those of Bonsmara. However, the alternative crossbreeding systems differed across traits. The straight-bred breeding system was least efficient, followed by the crisscross system (+2%) and the terminal sire system that utilized Simmental (+4%), with the terminal sire system utilizing Angus being on average most efficient (+8%). The inter-generational genetic differences in cow weight that resulted from the use of different breeds of sire increased its standard deviation by 5 to 6% in rotational crossing. Despite the relatively small magnitude of the genetic effects, advantages of crossbreeding systems became evident.Keywords: breed additive, crossbreeding, heterosis, post-weaning, pre-weanin

Towards segmentation and spatial alignment of the human embryonic brain using deep learning for atlas-based registration

We propose an unsupervised deep learning method for atlas based registration to achieve segmentation and spatial alignment of the embryonic brain in a single framework. Our approach consists of two sequential networks with a specifically designed loss function to address the challenges in 3D first trimester ultrasound. The first part learns the affine transformation and the second part learns the voxelwise nonrigid deformation between the target image and the atlas. We trained this network end-to-end and validated it against a ground truth on synthetic datasets designed to resemble the challenges present in 3D first trimester ultrasound. The method was tested on a dataset of human embryonic ultrasound volumes acquired at 9 weeks gestational age, which showed alignment of the brain in some cases and gave insight in open challenges for the proposed method. We conclude that our method is a promising approach towards fully automated spatial alignment and segmentation of embryonic brains in 3D ultrasound

Influence of temperature and relative humidity on the survival of <i>Chlamydia pneumoniae</i> in aerosols

The survival of Chlamydia pneumoniae in aerosols was investigated by using a chamber with a capacity of 114.5 liters. We injected 5 x 107 inclusion- forming units (IFU) of C. pneumoniae in aerosols with a droplet size of 3 to 5 μm. Samples were taken after 30 s and every 1 min thereafter. The survival of C. pneumoniae was measured at four temperatures (8.5, 15, 25, and 35°C) and at three different relative humidities (RH) of 5, 50, and 95% for each temperature. The survival rates of Streptococcus pneumoniae, Streptococcus faecalis, Klebsiella pneumoniae, Chlamydia trachomatis LGV2, and cytomegalovirus were also determined at 25°C and 95% RH and compared with that of C. pneumoniae. At the mentioned temperatures and RH, a rapid decrease of C. pneumoniae IFU was observed in the first 30 s. After this the decrease in the number of IFU was more gradual. The survival of C. pneumoniae in aerosols was optimal at 15 to 25°C and 95% RH; it was good compared with those of other microorganisms. A lower death rate was observed only in S. faecalis. In C. trachomatis, the death rate during the first 30 s was higher than that in C. pneumoniae (85 and 53.3%, respectively). After the first 30 s, the death rates in the two organisms were identical. It was concluded that transmission of C. pneumoniae via aerosols was possible. There is probably a direct transmission from person to person, taking into account the relatively short survival period of C. pneumoniae in aerosols.</p