Improved asteroseismic inversions for red-giant surface rotation rates

Asteroseismic observations of internal stellar rotation have indicated a substantial lack of angular momentum transport in theoretical models of subgiant and red-giant stars. Accurate core and surface rotation rate measurements are therefore needed to constrain internal transport processes included in the models. We eliminate substantial systematic errors of asteroseismic surface rotation rates found in previous studies. We propose a new objective function for the Optimally Localized Averages method of rotational inversions for red-giant stars, which results in more accurate envelope rotation rate estimates obtained from the same data. We use synthetic observations from stellar models across a range of evolutionary stages and masses to demonstrate the improvement. We find that our new inversion technique allows us to obtain estimates of the surface rotation rate that are independent of the core rotation. For a star at the base of the red-giant branch, we reduce the systematic error from about 20% to a value close to 0, assuming constant envelope rotation. We also show the equivalence between this method and the method of linearised rotational splittings. Our new rotational inversion method substantially reduces the systematic errors of red-giant surface rotation rates. In combination with independent measures of the surface rotation rate, this will allow better constraints to be set on the internal rotation profile. This will be a very important probe to further constrain the internal angular momentum transport along the lower part of the red-giant branch.Comment: 17 pages, 22 figures, accepted for publication in Astronomy and Astrophysic

Asteroseismic sensitivity to internal rotation along the red-giant branch

Transport of angular momentum in stellar interiors is currently not well understood. Asteroseismology can provide us with estimates of internal rotation of stars and thereby advances our understanding of angular momentum transport. We can measure core-rotation rates in red-giant stars and we can place upper bounds on surface-rotation rates using measurements of dipole ($l=1$) modes. Here, we aim to determine the theoretical sensitivity of modes of different spherical degree towards the surface rotation. Additionally, we aim to identify modes that can potentially add sensitivity at intermediate radii. We used asteroseismic rotational inversions to probe the internal stellar rotation profiles in red-giant models from the base of the red-giant branch up to the luminosity bump. We used the inversion method of multiplicative optimally localised averages (MOLA) to assess how well internal and surface rotation rates can be recovered from different mode sets and different synthetic rotation profiles. We confirm that dipole mixed modes are sufficient to set constraints on the average core-rotation rates in red giants. However, surface-rotation rates estimated with only dipole mixed modes are contaminated by the core rotation. We show that the sensitivity to the surface rotation decreases from the base of the red-giant branch until it reaches a minimum at 0.6-0.8$L_\text{bump}$ due to a glitch in the buoyancy frequency. Thereafter a narrow range of increased surface sensitivity just below the bump luminosity exists. Quadrupole and octopole modes have more sensitivity in the outer parts of the star. If observed, quadrupole and octopole modes enable us to distinguish between differential and solid body rotation in the convection zone. To obtain accurate estimates of rotation rates at intermediate radii, acoustic oscillation modes with a spherical degree of $l\approx10$ are needed.Comment: accepted for publication in Astronomy and Astrophysics, revised manuscript after language editin

Communication and signal exchange in the Rhizobium bradyrhizobium legume system

A new comprehensive communication concept in the Rhizobium/Bradyrhizobium legume symbiosis was developed. It includes a root zone specific flavonoid exudation, the differential activity of phenylpropane/acetate pathway derivatives on chemotaxis, nod-gene inducing activity and phytoalexin resistance induction on the microsymbiont side (Bradyrhizobium). Nod factor production from the microsymbiont affects the host plant in root hair curling and meristem induction. Phytoalexin production in the host plant is also an early response, however repressed to a low level after a few hours. Another strategy of the microsymbiont to overcome phytoalexin effects is degradation of phytoalexins in Rhizobium leguminosarum bv. vicieae. Competitiveness within the same infection group of the microsymbiont was studied with gus-gene fusion, using the blue coloured nodules to easily discriminate marked strains from unmarked competitors. New exopolysaccharide (EPS) mutants of Bradyrhizobium japonicum were reconstructed homologous with a DNA region to exoB gene of Rhizobium meliloti. Their clearly reduced competitiveness of nodulation, demonstrates that exopolysaccharides of Bradyrhizohium japonicum also have an important function during the early stages of this symbiotic interaction

Circulating tumor DNA as a marker of treatment response in BRAF V600E mutated non-melanoma solid tumors

Purpose: We evaluated longitudinal tracking of BRAF V600E in circulating cellfree DNA (cfDNA) as a marker of treatment response to BRAF inhibitor (BRAFi) combination therapies in non-melanoma solid tumors included in the Copenhagen Prospective Personalized Oncology (CoPPO) program. Experimental design: Patients with BRAF V600E-mutated tumors were treated with combination therapies including BRAFi. Quantification of mutant cfDNA from plasma was determined and correlated to clinical outcomes. Exome sequencing was performed to identify possible resistance mutations. Results: Twenty-three patients had BRAF-mutated tumors out of 455 patients included in CoPPO and 17 started BRAFi combination (EGFRi/MEKi) therapy. Tumor responses were achieved in 8 out of 16 evaluable patients and the median overalland progression-free survival (OS and PFS) was 15 and 4.8 months, respectively. Longitudinal measurements of BRAF V600E-mutant cfDNA indicated disease progression prior to radiological evaluation and a reduction in the mutant fraction of more than 50% after 4 and 12 weeks of therapy was associated with a significantly longer PFS (p=0.003 and p=0.029) and OS (p=0.029 and p=0.017). Furthermore, the baseline mutant fraction and total level of cfDNA positively correlated with tumor burden (p=0.026 and p=0.024). Finally, analysis of cfDNA at progression revealed novel mutations potentially affecting the MAPK pathway. Conclusion: BRAFi combination therapies showed a response rate of 50% in BRAF V600E-mutated non-melanoma tumors. The fraction of BRAF-mutant cfDNA represent a sensitive indicator for clinical outcomes with plasma collected at week 4 and 12 as crucial time points for monitoring response and disease progression.This study was supported by the Danish Cancer Society, The Harboe Foundation, and the Oncological Research Fund, Department of Oncology, Copenhagen University Hospital, Denmark

Noninvasive genetic population survey of snow leopards (Panthera uncia) in Kangchenjunga conservation area, Shey Phoksundo National Park and surrounding buffer zones of Nepal

<p>Abstract</p> <p>Background</p> <p>The endangered snow leopard is found throughout major mountain ranges of Central Asia, including the remote Himalayas. However, because of their elusive behavior, sparse distribution, and poor access to their habitat, there is a lack of reliable information on their population status and demography, particularly in Nepal. Therefore, we utilized noninvasive genetic techniques to conduct a preliminary snow leopard survey in two protected areas of Nepal.</p> <p>Results</p> <p>A total of 71 putative snow leopard scats were collected and analyzed from two different areas; Shey Phoksundo National Park (SPNP) in the west and Kangchanjunga Conservation Area (KCA) in the east. Nineteen (27%) scats were genetically identified as snow leopards, and 10 (53%) of these were successfully genotyped at 6 microsatellite loci. Two samples showed identical genotype profiles indicating a total of 9 individual snow leopards. Four individual snow leopards were identified in SPNP (1 male and 3 females) and five (2 males and 3 females) in KCA.</p> <p>Conclusions</p> <p>We were able to confirm the occurrence of snow leopards in both study areas and determine the minimum number present. This information can be used to design more in-depth population surveys that will enable estimation of snow leopard population abundance at these sites.</p

Inverse analysis of asteroseismic data: a review

Asteroseismology has emerged as the best way to characterize the global and internal properties of nearby stars. Often, this characterization is achieved by fitting stellar evolution models to asteroseismic observations. The star under investigation is then assumed to have the properties of the best-fitting model, such as its age. However, the models do not fit the observations perfectly. This is due to incorrect or missing physics in stellar evolution calculations, resulting in predicted stellar structures that are discrepant with reality. Through an inverse analysis of the asteroseismic data, it is possible to go further than fitting stellar models, and instead infer details about the actual internal structure of the star at some locations in its interior. Comparing theoretical and observed stellar structures then enables the determination of the locations where the stellar models have discrepant structure, and illuminates a path for improvements to our understanding of stellar evolution. In this invited review, we describe the methods of asteroseismic inversions, and outline the progress that is being made towards measuring the interiors of stars.Comment: 12 pages, 1 figure. Invited review, Dynamics of the Sun and Star

Enhanced detection of circulating tumor DNA by fragment size analysis.

Existing methods to improve detection of circulating tumor DNA (ctDNA) have focused on genomic alterations but have rarely considered the biological properties of plasma cell-free DNA (cfDNA). We hypothesized that differences in fragment lengths of circulating DNA could be exploited to enhance sensitivity for detecting the presence of ctDNA and for noninvasive genomic analysis of cancer. We surveyed ctDNA fragment sizes in 344 plasma samples from 200 patients with cancer using low-pass whole-genome sequencing (0.4×). To establish the size distribution of mutant ctDNA, tumor-guided personalized deep sequencing was performed in 19 patients. We detected enrichment of ctDNA in fragment sizes between 90 and 150 bp and developed methods for in vitro and in silico size selection of these fragments. Selecting fragments between 90 and 150 bp improved detection of tumor DNA, with more than twofold median enrichment in >95% of cases and more than fourfold enrichment in >10% of cases. Analysis of size-selected cfDNA identified clinically actionable mutations and copy number alterations that were otherwise not detected. Identification of plasma samples from patients with advanced cancer was improved by predictive models integrating fragment length and copy number analysis of cfDNA, with area under the curve (AUC) >0.99 compared to AUC 0.91 compared to AUC < 0.5 without fragmentation features. Fragment size analysis and selective sequencing of specific fragment sizes can boost ctDNA detection and could complement or provide an alternative to deeper sequencing of cfDNA.We would like to acknowledge the support of The University of Cambridge, Cancer Research UK and the EPSRC (CRUK grant numbers A11906 (NR), A20240 (NR), A22905 (JDB), A15601 (JDB), A25177 (CRUK Cancer Centre Cambridge), A17242 (KMB), A16465 (CRUK-EPSRC Imaging Centre in Cambridge and Manchester)). The research leading to these results has received funding from the European Research Council under the European Union's Seventh Framework Programme (FP/2007-2013) / ERC Grant Agreement n. 337905. The research was supported by the National Institute for Health Research Cambridge, National Cancer Research Network, Cambridge Experimental Cancer Medicine Centre and Hutchison Whampoa Limited. This research is also supported by Target Ovarian Cancer and the Medical Research Council through their Joint Clinical Research Training Fellowship for Dr Moore. The CALIBRATE study was supported by funding from AstraZeneca

Dynamics of core–shell particle formation in drop-tube processed metastable monotectic alloys

We examine the apparent size of the core and shell as a function of cooling rate in core–shell particles of the metastable monotectic alloy Co-50 at% Cu, finding that the volume fraction of the core systematically increases with cooling rate and hence undercooling. A model for this variation is proposed. A Monte-Carlo simulation is used to correct for sectioning effects allowing the true core:shell volume ratio to be estimated. From this, and the observation of a second, spinodal, episode of liquid phase separation we are able to estimate the undercooling at solidification. This permits a calculation of the time available following liquid phase separation for the migration giving rise to the observed core–shell structure to occur and hence the required Marangoni velocity required to such migration