A Birkhoff connection between quantum circuits and linear classical reversible circuits

Birkhoff's theorem tells how any doubly stochastic matrix can be decomposed as a weighted sum of permutation matrices. Similar theorems on unitary matrices reveal a connection between quantum circuits and linear classical reversible circuits. It triggers the question whether a quantum computer can be regarded as a superposition of classical reversible computers

Expression systems for industrial Gram-positive bacteria with low guanine and cytosine content

Recent years have seen an increase in the development of gene expression systems for industrial Gram-positive bacteria with low guanine and cytosine content that belong to the genera Bacillus, Clostridium, Lactococcus, Lactobacillus, Staphylococcus and Streptococcus. In particular, considerable advances have been made in the construction of inducible gene expression systems based on the capacity of these bacteria to utilize specific sugars or to secrete autoinducing peptides that are involved in quorum sensing. These controlled expression systems allow for present and future exploitation of these bacteria as cell factories in medical, agricultural, and food biotechnology.

The phenomenology of electric dipole moments in models of scalar leptoquarks

We study the phenomenology of electric dipole moments (EDMs) induced in various scalar leptoquark models. We consider generic leptoquark couplings to quarks and leptons and match to Standard Model effective field theory. After evolving the resulting operators to low energies, we connect to EDM experiments by using up-to-date hadronic, nuclear, and atomic matrix elements. We show that current experimental limits set strong constraints on the possible CP-violating phases in leptoquark models. Depending on the quarks and leptons involved in the interaction, the existing searches for EDMs of leptons, nucleons, atoms, and molecules all play a role in constraining the CP-violating couplings. We discuss the impact of hadronic and nuclear uncertainties as well as the sensitivities that can be achieved with future EDM experiments. Finally, we study the impact of EDM constraints on a specific leptoquark model that can explain the recent $B$-physics anomalies.Comment: Published versio

Controlled overproduction of proteins by lactic acid bacteria

Lactic acid bacteria are widely used in industrial food fermentations, contributing to flavour, texture and preservation of the fermented products. Here we describe recent advances in the development of controlled gene expression systems, which allow the regulated overproduction of any desirable protein by lactic acid bacteria. Some systems benefit from the fact that the expression vectors, marker genes and inducing factors can be used directly in food applications since they are all derived from food-grade lactic acid bacteria. These systems have also been employed for the development of autolytic bacteria, suitable for various industrial applications.

Automatic Segmentation of Thoracic Aorta Segments in Low-Dose Chest CT

Morphological analysis and identification of pathologies in the aorta are important for cardiovascular diagnosis and risk assessment in patients. Manual annotation is time-consuming and cumbersome in CT scans acquired without contrast enhancement and with low radiation dose. Hence, we propose an automatic method to segment the ascending aorta, the aortic arch and the thoracic descending aorta in low-dose chest CT without contrast enhancement. Segmentation was performed using a dilated convolutional neural network (CNN), with a receptive field of 131X131 voxels, that classified voxels in axial, coronal and sagittal image slices. To obtain a final segmentation, the obtained probabilities of the three planes were averaged per class, and voxels were subsequently assigned to the class with the highest class probability. Two-fold cross-validation experiments were performed where ten scans were used to train the network and another ten to evaluate the performance. Dice coefficients of 0.83, 0.86 and 0.88, and Average Symmetrical Surface Distances (ASSDs) of 2.44, 1.56 and 1.87 mm were obtained for the ascending aorta, the aortic arch, and the descending aorta, respectively. The results indicate that the proposed method could be used in large-scale studies analyzing the anatomical location of pathology and morphology of the thoracic aorta

Environmental monitoring in heterogeneous soil-landscapes; A Dutch case study

The spatial heterogeneity of agricultural soil-landscapes is mostly not taken into account in environmental policies. Most environmental goals have been defined at national level or farm level but not at the landscape level. The potential for setting up a regional environmental monitoring network that supports self governance was explored. The research was performed in the Northern Friesian Woodland

The function of our microbiota : who is out there and what do they do?

Current meta-omics developments provide a portal into the functional potential and activity of the intestinal microbiota. The comparative and functional meta-omics approaches have made it possible to get a molecular snap shot of microbial function at a certain time and place. To this end, metagenomics is a DNA-based approach, metatranscriptomics studies the total transcribed RNA, metaproteomics focuses on protein levels and metabolomics describes metabolic profiles. Notably, the metagenomic toolbox is rapidly expanding and has been instrumental in the generation of draft genome sequences of over 1000 human associated microorganisms as well as an astonishing 3.3 million unique microbial genes derived from the intestinal tract of over 100 European adults. Remarkably, it appeared that there are at least 3 clusters of co-occurring microbial species, termed enterotypes, that characterize the intestinal microbiota throughout various continents. The human intestinal microbial metagenome further revealed unique functions carried out in the intestinal environment and provided the basis for newly discovered mechanisms for signaling, vitamin production and glycan, amino-acid and xenobiotic metabolism. The activity and composition of the microbiota is affected by genetic background, age, diet, and health status of the host. In its turn the microbiota composition and activity influence host metabolism and disease development. Exemplified by the differences in microbiota composition and activity between breast- as compared to formula-fed babies, healthy and malnourished infants, elderly and centenarians as compared to youngsters, humans that are either lean or obese and healthy or suffering of inflammatory bowel diseases (IBD). In this review we will focus on our current understanding of the functionality of the human intestinal microbiota based on all available metagenome, metatranscriptome, and metaproteome resultsPeer reviewe

Towards a definition of SUBJECT in binding domains and subject-oriented anaphora

The question of subjecthood has dogged linguistic science since ancient times. However, in current versions of Minimalism, subjects do not have primitive status and can only be defined in derived terms. However, subjects and the broader theoretical notion of SUBJECT remain important in linguistic description. This paper develops a definition of subjecthood in terms of set-theoretic notions of functional dependency: when a feature, say phi, determines the value of some other feature, say u-phi. This notion is used to describe various phenomena where subjecthood has been invoked: binding domains and subject-oriented anaphors

Modulation of galactic protons in the heliosphere during the unusual solar minimum of 2006 to 2009

The last solar minimum activity period, and the consequent minimum modulation conditions for cosmic rays, was unusual. The highest levels of galactic protons were recorded at Earth in late 2009 in contrast to expectations. Proton spectra observed for 2006 to 2009 from the PAMELA cosmic ray detector on-board the Resurs-DK1 satellite are presented together with the solutions of a comprehensive numerical model for the solar modulation of cosmic rays. The model is used to determine what mechanisms were mainly responsible for the modulation of protons during this period, and why the observed spectrum for 2009 was the highest ever recorded. From mid-2006 until December 2009 we find that the spectra became significantly softer because increasingly more low energy protons had reached Earth. To simulate this effect, the rigidity dependence of the diffusion coefficients had to decrease significantly below ~3 GeV. The modulation minimum period of 2009 can thus be described as relatively more "diffusion dominated" than previous solar minima. However, we illustrate that drifts still had played a significant role but that the observable modulation effects were not as well correlated with the waviness of the heliospheric current sheet as before. Protons still experienced global gradient and curvature drifts as the heliospheric magnetic field had decreased significantly until the end of 2009, in contrast to the moderate decreases observed during previous minimum periods. We conclude that all modulation processes contributed to the observed increases in the proton spectra for this period, exhibiting an intriguing interplay of these major mechanisms