Miracle-dz/UniFAR-FTUs huggingface dataset:
Evaluation of Spatio-Temporal Patterns of Predation Risk to Forest Grouse Nests in the Central European Mountain Regions

Simple Summary Forest grouses are among the most endangered ground-nesting birds in Central Europe. Their rapid population decline was associated with habitat loss and increasing predation risk leading to low breeding success. The aim of this study was to describe black grouse nest predators and potential predation risk in a study area with a small, extant population of black grouse (Ore Mts.) and in a study area with an already extinct grouse population (Jeseníky Mts.) in the Czech Republic. In order to determine the predation intensity to black grouse nests, 50 artificial nests (28 in Ore Mts., 22 in Jeseníky Mts.) were monitored using camera traps. The results showed that 56% of nests were predated. Within the time needed for successful incubation of the eggs (25 days), the nest survival probability was on average 45.5%. The proportion of depredated nests did not differ between habitat types (i.e., open forest interior, clearing, forest edge). The stone marten was the main potential nest predator in both study areas (39% in total), followed by common raven (25%) and red fox (22%). In conclusion, our study revealed the high predation pressure on black grouse nests which corresponds with increasing population trends of mesopredators and wild boars in Central Europe. Abstract We evaluated the spatiotemporal patterns of predation risk on black grouse nests using artificial nests that were monitored by camera traps in mountain areas with a small extant (Ore Mts.) and already extinct (Jeseníky Mts.) black grouse population. The overall predation rate of artificial nests was 56% and we found significant differences in survival rate courses over time between both study areas (68% Ore Mts. vs. 41%, Jeseníky Mts.). Within the time required for successful egg incubation (25 days), nest survival probability was 0.32 in the Ore Mts. and 0.59 in Jeseníky Mts. The stone marten (Martes foina) was the primary nest predator in both study areas (39% in total), followed by common raven (Corvus corax, 25%) and red fox (Vulpes vulpes, 22%). The proportion of depredated nests did not differ between habitat types (i.e., open forest interior, clearing, forest edge), but we recorded the effect of interaction of study area and habitat. In Ore Mts. , the main nest predator was common raven with seven records (37%). The Eurasian jay (Garrulus glandarius) was responsible for most predation attempts in Jeseníky Mts. (five records, i.e., 83%), while in the Ore Mts. , most predation attempts were done by red fox (six records, i.e., 38%).
Signals of selection beyond bottlenecks between exotic populations of the bull‐headed dung beetle, Onthophagus taurus

Colonization of new environments can lead to population bottlenecks and rapid phenotypic evolution that could be due to neutral and selective processes. Exotic populations of the bull‐headed dung beetle (Onthophagus taurus) have differentiated in opposite directions from native beetles in male horn‐to‐body size allometry and female fecundity. Here we test for genetic and transcriptional differences among two exotic and one native O. taurus populations after three generations in common garden conditions. We sequenced RNA from 24 individuals for each of the three populations including both sexes, and spanning four developmental stages for the two exotic, differentiated populations. Identifying 270,400 high‐quality single nucleotide polymorphisms, we revealed a strong signal of genetic differentiation between the three populations, and evidence of recent bottlenecks within and an excess of outlier loci between exotic populations. Differences in gene expression between populations were greatest in prepupae and early adult life stages, stages during which differences in male horn development and female fecundity manifest. Finally, genes differentially expressed between exotic populations also had greater genetic differentiation and performed functions related to chitin biosynthesis and nutrient sensing, possibly underlying allometry and fecundity trait divergences. Our results suggest that beyond bottlenecks, recent introductions have led to genetic and transcriptional differences in genes correlated with observed phenotypic differences.
Editorial Comment.

An estimated 25% of metastatic castration resistant prostate cancer (mCRPC) have alterations in homologous recombination repair (HRR) with a significant proportion found in the germline. In 2016 Pritchard et al reported the presence of germline alterations in genes mediating HRR in 11.8% of 692 patients with metastatic prostate cancer, significantly higher than in those with localized disease (4.6%) and the general population (2.7%) (reference 26 in article). This finding suggests that such alterations may increase the risk of developing prostate cancer and also predispose to more aggressive disease at metastases, confirming the need to know the frequency in populations of such mutations. As demonstrated in the PROREPAIR-B study, the cause-specific survival for BRCA2 carriers was half that of nonBRCA2 carriers (17.4 vs. 33.2 months) (reference 18 in article). Of the HRR genes, the most commonly altered in both germline and somatic is BRCA2. In the phase III PROfound trial, Hussain et al reported a survival advantage with poly(ADPribose) polymerase (PARP) inhibitor olaparib in men with mCRPC with prespecified genes selected for deleterious alterations in ATM, BRCA1 and BRCA 2 in comparison to enzalutamide or abiraterone. This led to the approval of olaparib for HRR gene mutated prostate cancer. However, it should be noted that there was no survival benefit for the subgroup of 84 men with ATM mutations and the other 12 HRR mutations identified. Further correlative research using both tissue and ctDNA samples are required to fully understand the proportion of patients that may benefit from targeting HRR genes with PARP inhibitors alone or perhaps in combination with immunotherapy.
Support for 5G Mission-Critical Applications in Software-Defined IEEE 802.11 Networks

With the emergence of 5G networks and the stringent Quality of Service (QoS) requirements of Mission-Critical Applications (MCAs), co-existing networks are expected to deliver higher-speed connections, enhanced reliability, and lower latency. IEEE 802.11 networks, which co-exist with 5G, continue to be the access choice for indoor networks. However, traditional IEEE 802.11 networks lack sufficient reliability and they have non-deterministic latency. To dynamically control resources in IEEE 802.11 networks, in this paper we propose a delay-aware approach for Medium Access Control (MAC) management via airtime-based network slicing and traffic shaping, as well as user association while using Multi-Criteria Decision Analysis (MCDA). To fulfill the QoS requirements, we use Software-Defined Networking (SDN) for airtime-based network slicing and seamless handovers at the Software-Defined Radio Access Network (SD-RAN), while traffic shaping is done at the Stations (STAs). In addition to throughput, channel utilization, and signal strength, our approach monitors the queueing delay at the Access Points (APs) and uses it for centralized network management. We evaluate our approach in a testbed composed of APs controlled by SD-RAN and SDN controllers, with STAs under different workload combinations. Our results show that, in addition to load balancing flows across APs, our approach avoids the ping-pong effect while enhancing the QoS delivery at runtime. Under varying traffic demands, our approach maintains the queueing delay requirements of 5 ms for most of the experiment run, hence drawing closer to MCA requirements.
The Role of Forkhead Box Q1 Transcription Factor in Anticancer Effects of Withaferin A in Breast Cancer

Withaferin A (WA) is highly effective in reducing burden and/or incidence of breast cancer in various preclinical models. However, the mechanism underlying breast cancer prevention byWA is not fully understood. This study shows a role for FoxQ1 in antitumor response to WA. Elimination of both rapidly dividing epithelial mammary cancer cells as well as breast cancer stem-like cells (bCSC) is essential for maximizing antitumor response. Withaferin A (WA), a small molecule derived from a medicinal plant (Withania somnifera), is highly effective in reducing burden and/or incidence of breast cancer in vivo in various preclinical models. We have shown previously that suppression of breast cancer incidence by WA administration in a rat model is associated with a decrease in self-renewal of bCSC but the underlying mechanism is still elusive. This study investigated the role of forkhead box Q1 (FoxQ1) transcription factor in antitumor responses to WA. Exposure of MDA-MB-231 and SUM159 cells to WA resulted in downregulation of protein and mRNA levels of FoxQ1 as well as inhibition of its transcriptional activity. FoxQ1 overexpression in SUM159 and MCF-7 cells resulted in a marked protection against WA-mediated inhibition of bCSC as judged by flow cytometric analysis of CD49fhigh population and mammosphere assay. RNA-sequencing analysis revealed upregulation of many bCSC-associated genes by FoxQ1 overexpression in SUM159 cells, including IL8 whose expression was decreased by WA treatment in SUM159 and MCF-7 cells. FoxQ1 was recruited to the promoter of IL8 that was inhibited significantly by WA treatment. On the other hand, WA-mediated inhibition of cell proliferation or migration was not affected by FoxQ1 overexpression. The FoxQ1 overexpression partially attenuated WA-mediated G2–M phase cell cycle arrest in SUM159 cells only. These results indicate that FoxQ1 is a target of WA for inhibition of bCSC fraction. Prevention Relevance: Withaferin A (WA) is highly effective in reducing burden and/or incidence of breast cancer in various preclinical models. However, the mechanism underlying breast cancer prevention by WA is not fully understood. This study shows a role for FoxQ1 in antitumor response to WA.
Barriers and facilitators for dental care among patients with severe or long‐term mental illness

Abstract Background Persons who struggle with severe or long‐term mental illness (SMI) have a higher prevalence of oral health problems than the general population. Obtaining and continuing dental treatment is challenging for this patient group for many reasons, and many drop out of active treatment. Our study aimed to explore perceived barriers to obtaining optimal dental health care for patients with SMI. Further, we sought to identify possible ways to facilitate for providing true access to dental services for this population. Methods The study utilised a flexible qualitative design with data collected during ordinary clinical practice in a public dental clinic in Norway. We conducted semi‐structured face‐to‐face interviews with 51 persons with SMI twice: an initial interview before dental treatment and a final one after dental treatment. We applied the thematic analysis method. Results Thematic analysis revealed two key themes in the participants’ experiences of access to dental health services: practical conditions and relationship with the dentist. Patients reported barriers and facilitators for access to care as factors associated with patients (patient factors), with the dentist (dentist factors) and with healthcare services (system factors). Conclusions Our study indicates that persons with SMI appreciate oral health and want to obtain needed oral care and dental treatment, but they encounter barriers on several fronts. The participants offered suggestions for how to facilitate attendance and adherence. Our findings suggest that dental healthcare services require reorganisation to meet the needs of patients with SMI.
Increasing Brain Permeability of PHA-767491, a Cell Division Cycle 7 Kinase Inhibitor, with Biodegradable Polymeric Nanoparticles

A potent cell division cycle 7 (CDC7) kinase inhibitor, known as PHA-767491, has been described to reduce the transactive response DNA binding protein of 43 KDa (TDP-43) phosphorylation in vitro and in vivo, which is one of the main proteins found to aggregate and accumulate in the cytoplasm of motoneurons in amyotrophic lateral sclerosis (ALS) and frontotemporal dementia (FTD) patients. However, the main drawback of this compound is its low permeability to the central nervous system (CNS), limiting its use for the treatment of neurological conditions. In this context, the use of drug delivery systems like nanocarriers has become an interesting approach to improve drug release to the CNS. In this study, we prepared and characterized biodegradable nanoparticles in order to encapsulate PHA-767491 and improve its permeability to the CNS. Our results demonstrate that poly (lactic-co-glycolic acid) (PLGA) nanoparticles with an average radius between 145 and 155 nm could be used to entrap PHA-767491 and enhance the permeability of this compound through the blood–brain barrier (BBB), becoming a promising candidate for the treatment of TDP-43 proteinopathies such as ALS.
Mobile health technology to improve emergent frailty after lung transplantation

We evaluated the feasibility, safety, and efficacy of a mHealth‐supported physical rehabilitation intervention to treat frailty in a pilot study of 18 lung transplant recipients. Frail recipients were defined by a short physical performance battery (SPPB score ≤7). The primary intervention modality was Aidcube, a customizable rehabilitation mHealth platform. Our primary aims included tolerability, feasibility, and acceptability of use of the platform, and secondary outcomes were changes in SPPB and in scores of physical activity, and disability measured using the Duke Activity Status Index (DASI) and Lung Transplant‐Value Life Activities (LT‐VLA). Notably, no adverse events were reported. Subjects reported the app was easy to use, usability improved over time, and the app enhanced motivation to engage in rehabilitation. Comments highlighted the complexities of immediate post‐transplant rehabilitation, including functional decline, pain, tremor, and fatigue. At the end of the intervention, SPPB scores improved a median of 5 points from a baseline of 4. Physical activity and patient‐reported disability also improved. The DASI improved from 4.5 to 19.8 and LT‐VLA score improved from 2 to 0.59 at closeout. Overall, utilization of a mHealth rehabilitation platform was safe and well received. Remote rehabilitation was associated with improvements in frailty, physical activity and disability. Future studies should evaluate mHealth treatment modalities in larger‐scale randomized trials of lung transplant recipients.
Impact of vertical resolution on the transport of passive tracers in the ECHAM4 model

Abstract The transport of the passive tracers 14CO2 and SF6 has been modelled with two versions of the general circulation model ECHAM4 with different vertical resolutions: the standard model with 19 model layers (L19) and a higher-resolution version with 39 layers (L39). We study the impact of vertical resolution on the modelled transport characteristics. Both models are able to capture the observed SF6concentrations in the troposphere, but in the stratosphere the SF6 mixing ratios are overestimated. L39 generally calculates higher stratospheric SF6 mixing ratios than L19. This deviation increases with altitude. The difference between the modelled profiles is partly attributed to the residual mean meridional circulation, which is stronger in L39 than in L19, and partly to the initial globally constant SF6 concentration. The comparison of modelled 14CO2 surface concentrations and vertical profiles with observations has shown that an increased vertical resolution in the climate model ECHAM4 reduces the strength of stratosphere–troposphere exchange. L39 allows a better representation of sharp gradients at the tropopause than L19. This results in a weaker downward transport across the tropopause. However, compared to observations the downward transport is still too strong even in the L39 simulation.
Explaining the accumulation of victimization in vulnerable children: Interpersonal violence among children traumatized by war and disaster in a children's home in Sri Lanka

Abstract Research in postconflict settings indicated that children's exposure to war and natural disaster is a significant predictor of experiencing violence within their families. However, it is unclear if this effect is driven by characteristics of traumatized children or their parents. To disentangle these different factors we conducted a survey in a children's home in Sri Lanka. A total of 146 institutionalized children (aged 8 to 17) were interviewed using standardized questionnaires administered by local senior counselors in order to assess children's exposure to mass trauma, family violence, and violence in the institution as well as their mental health. Linear regression analyses revealed that, controlling for potential confounds, previous exposure to civil war was a significant predictor of violence by guardians in the children's home. In addition, previous exposure to family violence was a significant predictor of violence by peers in the institutions. A mediation analysis showed that children's internalizing and externalizing behavior problems partly mediated the relationship between violence prior to the admission to the children's home and violence in the children's home. The findings of our study provide evidence for the assumption that the transmission of mass trauma into interpersonal violence can occur independently from parents through children's psychopathology.
A parsimonious approach for recognizing SARS‐CoV‐2 and host interactions

Effective countermeasures against the severe acute respiratory syndrome coronavirus 2 (SARS‐CoV‐2) demand a better understanding of the pathogen‐host interactions. However, such information about the targets, responses, and effects in the host due to the virus is limited, especially so in the case of newly emerged pathogens. The peptide domains that form the interfaces of host and pathogen interacting proteins being evolutionarily conserved, it may be hypothesized that such interactions can be inferred from the similarities in the nucleotide sequences between the host and the pathogen. This communication reports the results of a study based on a parsimonious approach for the identification of the host‐virus interactions, where sequence complementarity between the human and SARS‐Cov‐2 genomes was used to predict several interactions between the host and SARS‐CoV‐2 at different levels of biological organization. In particular, the findings are suggestive of a direct effect of SARS‐CoV‐2 on cardiac health. The existing literature on host responses to SARS‐CoV‐2 and other viruses attest to many of these predicted interactions, supporting the utility of the proposed approach for the identification of host interactions with other novel pathogens.
SRGAP1 Controls Small Rho GTPases To Regulate Podocyte Foot Process Maintenance.

BACKGROUND Previous research demonstrated that small Rho GTPases, modulators of the actin cytoskeleton, are drivers of podocyte foot-process effacement in glomerular diseases, such as FSGS. However, a comprehensive understanding of the regulatory networks of small Rho GTPases in podocytes is lacking. METHODS We conducted an analysis of podocyte transcriptome and proteome datasets for Rho GTPases; mapped in vivo, podocyte-specific Rho GTPase affinity networks; and examined conditional knockout mice and murine disease models targeting Srgap1. To evaluate podocyte foot-process morphology, we used super-resolution microscopy and electron microscopy; in situ proximity ligation assays were used to determine the subcellular localization of the small GTPase-activating protein SRGAP1. We performed functional analysis of CRISPR/Cas9-generated SRGAP1 knockout podocytes in two-dimensional and three-dimensional cultures and quantitative interaction proteomics. RESULTS We demonstrated SRGAP1 localization to podocyte foot processes in vivo and to cellular protrusions in vitro. Srgap1fl/fl*Six2Cre but not Srgap1fl/fl*hNPHS2Cre knockout mice developed an FSGS-like phenotype at adulthood. Podocyte-specific deletion of Srgap1 by hNPHS2Cre resulted in increased susceptibility to doxorubicin-induced nephropathy. Detailed analysis demonstrated significant effacement of podocyte foot processes. Furthermore, SRGAP1-knockout podocytes showed excessive protrusion formation and disinhibition of the small Rho GTPase machinery in vitro. Evaluation of a SRGAP1-dependent interactome revealed the involvement of SRGAP1 with protrusive and contractile actin networks. Analysis of glomerular biopsy specimens translated these findings toward human disease by displaying a pronounced redistribution of SRGAP1 in FSGS. CONCLUSIONS SRGAP1, a podocyte-specific RhoGAP, controls podocyte foot-process architecture by limiting the activity of protrusive, branched actin networks. Therefore, elucidating the complex regulatory small Rho GTPase affinity network points to novel targets for potentially precise intervention in glomerular diseases.
The role of cardiac computed tomography in pre-participation screening of mature athletes

ABSTRACT The overwhelming majority of sports-related sudden cardiac deaths in mature athletes is attributed to coronary artery disease (CAD). Coronary plaques of mature athletes appear to be more calcified compared to sedentary individuals and thus may be more stable and less likely to be associated with an acute coronary event. Cardiac computed tomography (CT), including unenhanced CT for coronary artery calcium scoring (CACS) and contrast-enhanced coronary CT angiography, is characterized by very high negative predictive value to rule out CAD. Cardiac CT has been shown to have additional diagnostic value for detection of CAD in athletes over and above exercise electrocardiogram. Moreover, measurement of CACS possibly enables a more precise cardiovascular risk stratification of mature athletes. The main advantage of cardiac CT is its noninvasive nature. Although cardiac CT appears to increase the overall cost of cardiac examinations, this additional cost is much lower than the cost of unnecessary invasive coronary angiographies that would be performed in case of false positive results of exercise electrocardiograms. Radiation exposure may not be a major concern for the application of this modality to pre-participation screening of athletes, since recent technical advancements have resulted in low radiation dose of cardiac CT. Highlights Coronary computed tomography angiography can be used in pre-participation screening of mature athletes to increase the negative predictive value for excluding coronary artery disease. The identification of coronary artery calcium score = 0 in an athlete can improve risk stratification, since this athlete can be reasonably managed as an individual with low cardiovascular risk.