Constraining the dark energy dynamics with the cosmic microwave background bispectrum

We consider the influence of the dark energy dynamics at the onset of cosmic acceleration on the Cosmic Microwave Background (CMB) bispectrum, through the weak lensing effect induced by structure formation. We study the line of sight behavior of the contribution to the bispectrum signal at a given angular multipole $l$: we show that it is non-zero in a narrow interval centered at a redshift $z$ satisfying the relation $l/r(z)\simeq k_{NL}(z)$, where the wavenumber corresponds to the scale entering the non-linear phase, and $r$ is the cosmological comoving distance. The relevant redshift interval is in the range 0.1\lsim z\lsim 2 for multipoles 1000\gsim\ell\gsim 100; the signal amplitude, reflecting the perturbation dynamics, is a function of the cosmological expansion rate at those epochs, probing the dark energy equation of state redshift dependence independently on its present value. We provide a worked example by considering tracking inverse power law and SUGRA Quintessence scenarios, having sensibly different redshift dynamics and respecting all the present observational constraints. For scenarios having the same present equation of state, we find that the effect described above induces a projection feature which makes the bispectra shifted by several tens of multipoles, about 10 times more than the corresponding effect on the ordinary CMB angular power spectrum.Comment: 15 pages, 7 figures, matching version accepted by Physical Review D, one figure improve

Weak lensing in generalized gravity theories

We extend the theory of weak gravitational lensing to cosmologies with generalized gravity, described in the Lagrangian by a generic function depending on the Ricci scalar and a nonminimal coupled scalar field. We work out the generalized Poisson equations relating the dynamics of the fluctuating components to the two gauge-invariant scalar gravitational potentials, fixing the contributions from the modified background expansion and fluctuations. We show how the lensing equation gets modified by the cosmic expansion as well as by the presence of anisotropic stress, which is non-null at the linear level both in scalar-tensor gravity and in theories where the gravitational Lagrangian term features a nonminimal dependence on the Ricci scalar. Starting from the geodesic deviation, we derive the generalized expressions for the shear tensor and projected lensing potential, encoding the spacetime variation of the effective gravitational constant and isolating the contribution of the anisotropic stress, which introduces a correction due to the spatial correlation between the gravitational potentials. Finally, we work out the expressions of the lensing convergence power spectrum as well as the correlation between the lensing potential and the integrated Sachs-Wolfe effect affecting cosmic microwave background total intensity and polarization anisotropies. To illustrate phenomenologically the effects, we work out approximate expressions for the quantities above in extended quintessence scenarios where the scalar field coupled to gravity plays the role of the dark energy

The evolution of lung cancer and impact of subclonal selection in TRACERx

Lung cancer is the leading cause of cancer-associated mortality worldwide1. Here we analysed 1,644 tumour regions sampled at surgery or during follow-up from the first 421 patients with non-small cell lung cancer prospectively enrolled into the TRACERx study. This project aims to decipher lung cancer evolution and address the primary study endpoint: determining the relationship between intratumour heterogeneity and clinical outcome. In lung adenocarcinoma, mutations in 22 out of 40 common cancer genes were under significant subclonal selection, including classical tumour initiators such as TP53 and KRAS. We defined evolutionary dependencies between drivers, mutational processes and whole genome doubling (WGD) events. Despite patients having a history of smoking, 8% of lung adenocarcinomas lacked evidence of tobacco-induced mutagenesis. These tumours also had similar detection rates for EGFR mutations and for RET, ROS1, ALK and MET oncogenic isoforms compared with tumours in never-smokers, which suggests that they have a similar aetiology and pathogenesis. Large subclonal expansions were associated with positive subclonal selection. Patients with tumours harbouring recent subclonal expansions, on the terminus of a phylogenetic branch, had significantly shorter disease-free survival. Subclonal WGD was detected in 19% of tumours, and 10% of tumours harboured multiple subclonal WGDs in parallel. Subclonal, but not truncal, WGD was associated with shorter disease-free survival. Copy number heterogeneity was associated with extrathoracic relapse within 1 year after surgery. These data demonstrate the importance of clonal expansion, WGD and copy number instability in determining the timing and patterns of relapse in non-small cell lung cancer and provide a comprehensive clinical cancer evolutionary data resource

Highly-parallelized simulation of a pixelated LArTPC on a GPU

The rapid development of general-purpose computing on graphics processing units (GPGPU) is allowing the implementation of highly-parallelized Monte Carlo simulation chains for particle physics experiments. This technique is particularly suitable for the simulation of a pixelated charge readout for time projection chambers, given the large number of channels that this technology employs. Here we present the first implementation of a full microphysical simulator of a liquid argon time projection chamber (LArTPC) equipped with light readout and pixelated charge readout, developed for the DUNE Near Detector. The software is implemented with an end-to-end set of GPU-optimized algorithms. The algorithms have been written in Python and translated into CUDA kernels using Numba, a just-in-time compiler for a subset of Python and NumPy instructions. The GPU implementation achieves a speed up of four orders of magnitude compared with the equivalent CPU version. The simulation of the current induced on 10^3 pixels takes around 1 ms on the GPU, compared with approximately 10 s on the CPU. The results of the simulation are compared against data from a pixel-readout LArTPC prototype

Soil health in agricultural systems

Soil health is presented as an integrative property that reflects the capacity of soil to respond to agricultural intervention, so that it continues to support both the agricultural production and the provision of other ecosystem services. The major challenge within sustainable soil management is to conserve ecosystem service delivery while optimizing agricultural yields. It is proposed that soil health is dependent on the maintenance of four major functions: carbon transformations; nutrient cycles; soil structure maintenance; and the regulation of pests and diseases. Each of these functions is manifested as an aggregate of a variety of biological processes provided by a diversity of interacting soil organisms under the influence of the abiotic soil environment. Analysis of current models of the soil community under the impact of agricultural interventions (particularly those entailing substitution of biological processes with fossil fuel-derived energy or inputs) confirms the highly integrative pattern of interactions within each of these functions and leads to the conclusion that measurement of individual groups of organisms, processes or soil properties does not suffice to indicate the state of the soil health. A further conclusion is that quantifying the flow of energy and carbon between functions is an essential but non-trivial task for the assessment and management of soil health

The role of conservation agriculture in sustainable agriculture

The paper focuses on conservation agriculture (CA), defined as minimal soil disturbance (no-till, NT) and permanent soil cover (mulch) combined with rotations, as a more sustainable cultivation system for the future. Cultivation and tillage play an important role in agriculture. The benefits of tillage in agriculture are explored before introducing conservation tillage (CT), a practice that was borne out of the American dust bowl of the 1930s. The paper then describes the benefits of CA, a suggested improvement on CT, where NT, mulch and rotations significantly improve soil properties and other biotic factors. The paper concludes that CA is a more sustainable and environmentally friendly management system for cultivating crops. Case studies from the rice–wheat areas of the Indo-Gangetic Plains of South Asia and the irrigated maize–wheat systems of Northwest Mexico are used to describe how CA practices have been used in these two environments to raise production sustainably and profitably. Benefits in terms of greenhouse gas emissions and their effect on global warming are also discussed. The paper concludes that agriculture in the next decade will have to sustainably produce more food from less land through more efficient use of natural resources and with minimal impact on the environment in order to meet growing population demands. Promoting and adopting CA management systems can help meet this goal