bluuebunny/crossref_metadata_2025_split huggingface dataset:
Polyphosphate uses mTOR, pyrophosphate, and Rho GTPase components to potentiate bacterial survival in
Dictyostelium
Authors: Rahman Ryan J. , Rijal Ramesh , Jing Shiyu , Chen Te-An , Ismail Issam , Gomer Richard H. 
Published: September 2023

ABSTRACT

Human macrophages and the eukaryotic microbe
Dictyostelium discoideum
ingest bacteria by phagocytosis, and then kill the ingested bacteria. Some pathogenic bacteria secrete linear chains of phosphate residues (polyphosphate; polyP), and the polyP prevents some of the phagocytes from killing the ingested bacteria. In
D. discoideum,
the effect of polyP requires the G protein-coupled receptor (GPCR) GrlD, suggesting that polyP uses a signal transduction pathway to inhibit killing of ingested bacteria. Here we show that in addition to GrlD, the
D. discoideum
polyP signaling pathway requires the GPCR interacting arrestin-like protein AdcB, inositol hexakisphosphate kinase A (I6kA), the Rho GTPase RacE, and the target of rapamycin (TOR) component Lst8.
D. discoideum
also secretes polyP, and at high concentrations polyP inhibits
D. discoideum
cytokinesis. The polyP inhibition of bacterial killing pathway has some components that overlap and some components that are distinct from the polyP inhibition of cytokinesis pathway. These data suggest the intriguing possibility that if there is a similar polyP inhibition of bacterial killing pathway in macrophages, pharmacologically blocking this pathway could potentiate macrophage killing of pathogenic bacteria.

IMPORTANCE

Although most bacteria are quickly killed after phagocytosis by a eukaryotic cell, some pathogenic bacteria escape death after phagocytosis. Pathogenic
Mycobacterium
species secrete polyP, and the polyP is necessary for the bacteria to prevent their killing after phagocytosis. Conversely, exogenous polyP prevents the killing of ingested bacteria that are normally killed after phagocytosis by human macrophages and the eukaryotic microbe
Dictyostelium discoideum
. This suggests the possibility that in these cells, a signal transduction pathway is used to sense polyP and prevent killing of ingested bacteria. In this report, we identify key components of the polyP signal transduction pathway in
D. discoideum
. In cells lacking these components, polyP is unable to inhibit killing of ingested bacteria. The pathway components have orthologs in human cells, and an exciting possibility is that pharmacologically blocking this pathway in human macrophages would cause them to kill ingested pathogens such as
Mycobacterium tuberculosis
.
Butyrate protects against MRSA pneumonia via regulating gut-lung microbiota and alveolar macrophage M2 polarization
Authors: Zhao Yan , Sun Haoming , Chen Yiwei , Niu Qiang , Dong Yiting , Li Mei , Yuan Ye , Yang Xiaojun , Sun Qingzhu 
Published: September 2023

ABSTRACT

Methicillin-resistant
Staphylococcus aureus
(MRSA) is a well-recognized cause of bacterial pneumonia in general. The gut microbiota and their metabolic byproducts act as important modulators of the gut-lung axis. Our investigation indicates a significant reduction in the abundance of butyrate producer unclassified_f__
Lachnospiraceae
within the lung and gut microbiota of MRSA-infected mice, as well as a significant decrease in the levels of butyrate in gut and serum. Additionally, supplementary sodium butyrate (NaB) significantly reduces bacteria colonization in the lung, suppresses pro-inflammatory cytokines expression, and enhances lung tissue morphology in MRSA-treated mice. The results of high-throughput 16S rDNA sequencing demonstrate that NaB reshapes the gut and lung microbiota by drastically reducing the abundance of potential pathogenic bacteria in the gut and cell motility-related bacteria in the lung, which are induced by MRSA. Moreover, NaB treatment augments the gut and circulating butyrate levels. Mechanistically, NaB promotes signal transducer and activator of transcription 1 (STAT1) acetylation and inhibits dimer STAT1 phosphorylation by reducing the binding of histone deacetylase 3 to STAT1, thereby altering alveolar macrophage polarization toward the M2 phenotype. Collectively, our findings suggest that NaB exerts a preventative effect against MRSA-induced pneumonia by enhancing the gut-lung microbiota and promoting macrophage polarization toward an anti-inflammatory M2 phenotype. The prophylactic administration of NaB emerges as a promising strategy for combating MRSA pneumonia.

IMPORTANCE

Pneumonia caused by methicillin-resistant
Staphylococcus aureus
(MRSA) continues to carry a high burden in terms of mortality. With the roles of gut microbiota in mediating lung diseases being gradually uncovered, the details of the molecular mechanism of the “gut-lung axis” mediated by beneficial microorganisms and small-molecule metabolites have gradually attracted the attention of researchers. However, further studies are still necessary to determine the efficacy of microbial-based interventions. Our findings indicate that sodium butyrate (NaB) alleviates MRSA-induced pulmonary inflammation by improving gut-lung microbiota and promoting M2 polarization of alveolar macrophages. Therefore, the preventive administration of NaB might be explored as an effective strategy to control MRSA pneumonia.
Drought-resistant trait of different crop genotypes determines assembly patterns of soil and phyllosphere microbial communities
Authors: Guo Baobei , Zhang Hong , Liu Yong , Chen Jianwen , Li Junjian 
Published: September 2023

ABSTRACT

Crop microbiomes are widely recognized to play a role in crop stress resistance, but the ecological processes that shape crop microbiomes under water stress are unclear. Therefore, we investigated the bacterial communities of two oat (
Avena sativa
) and two wheat (
Triticum aestivum
) genotypes under different water stress conditions. Our results show that the microbial assemblage was determined by the crop compartment niche. Host selection pressure on the bacterial community increased progressively from soil to epiphyte to endophyte pathways, leading to a decrease in bacterial community diversity and network complexity. Source tracing shows that soil is the primary source of crop microbial communities and that bulk soil is the main potential source of crop microbiota. It filters gradually through the different compartment niches of the crop. We found that the phyla Actinobacteria, Proteobacteria, Gemmatimonadota, and Myxococcota were significantly enriched in bacterial communities associated with crop-resistance enzyme activity. Crop genotype influenced the composition of the rhizosphere soil microbial community, and the composition of the phylloplane microbial community was affected by water stress.

IMPORTANCE
In this paper, we investigated the assembly of the plant microbiome in response to water stress. We found that the determinant of microbiome assembly under water stress was the host type and that microbial communities were progressively filtered and enriched as they moved from soil to epiphyte to endophyte communities, with the main potential source being bulk soil. We also screened for bacterial communities that were significantly associated with crop enzyme activity. Our research provides insights into the manipulation of microbes in response to crop resistance to water stress.
Dissociative seizures in the emergency room: room for improvement
Authors: Cengiz Ozan , Jungilligens Johannes , Michaelis Rosa , Wellmer Jörg , Popkirov Stoyan 
Published: September 2023

BackgroundDissociative seizures, also known as functional or psychogenic non-epileptic seizures, account for 11%–27% of all emergency seizure presentations. Misdiagnosis as epileptic seizures is common and leads to ineffective and potentially harmful treatment escalations. We assess the potential for diagnostic improvement at different stages of emergency workup and estimate the utility of benzodiazepines.MethodsA retrospective study of all emergency presentations with a discharge diagnosis of acute dissociative seizures seen at a university hospital 2010–2022 was performed to assess clinical characteristics and emergency decision-making.ResultsAmong 156 patients (73% female, median 29 years), 15% presented more than once for a total of 203 presentations. Half of seizures were ongoing at first medical contact; prolonged seizures and clusters were common (23% and 24%). Diagnostic accuracy differed between on-site emergency physicians and emergency department neurologists (12% vs 52%). Typical features such as eye closure, discontinuous course and asynchronous movements were common. Benzodiazepines were given in two-thirds of ongoing seizures, often in high doses and preferentially for major hyperkinetic semiology. Clinical response to benzodiazepines was mixed, with a minority of patients remaining either unaffected (16%) or becoming critically sedated (13%). A quarter of patients given benzodiazepines by emergency medical services were admitted to a monitoring unit, 9% were intubated.ConclusionsImproved semiological assessment could reduce early misdiagnosis of dissociative seizures. Although some seizures seem to respond to benzodiazepines, critical sedation is common, and further studies are needed to assess the therapeutic ratio.
Leveraging on-shell interference to search for FCNCs of the top quark and the Z boson
Authors: Cremer Lucas , Erdmann Johannes , Harnik Roni , Späh Jan Lukas , Stamou Emmanuel 
Published: September 2023

AbstractFlavour-changing-neutral currents (FCNCs) involving the top quark are highly suppressed within the Standard Model (SM). Hence, any signal in current or planned future collider experiments would constitute a clear manifestation of physics beyond the SM. We propose a novel, interference-based strategy to search for top-quark FCNCs involving the Z boson that has the potential to complement traditional search strategies due to a more favourable luminosity scaling. The strategy leverages on-shell interference between the FCNC and SM decay of the top quark into hadronic final states. We estimate the feasibility of the most promising case of anomalous tZc couplings using Monte Carlo simulations and a simplified detector simulation. We consider the main background processes and discriminate the signal from the background with a deep neural network that is parametrised in the value of the anomalous tZc coupling. We present sensitivity projections for the HL-LHC and the FCC-hh. We find an expected 95% CL upper limit of $${\mathcal {B}}_{\textrm{excl}}(t\rightarrow Zc) = 6.4 \times 10^{-5}$$

B
excl

(
t
→
Z
c
)

=
6.4
×

10

-
5

for the HL-LHC. In general, we conclude that the interference-based approach has the potential to provide both competitive and complementary constraints to traditional multi-lepton searches and other strategies that have been proposed to search for tZc FCNCs.
Impact of vorticity and viscosity on the hydrodynamic evolution of hot QCD medium
Authors: Sahoo Bhagyarathi , Singh Captain R. , Sahu Dushmanta , Sahoo Raghunath , Alam Jan-e 
Published: September 2023

AbstractThe strongly interacting transient state of quark-gluon plasma (QGP) medium created in ultra-relativistic collisions survives for a duration of a few fm/c. The spacetime evolution of QGP crucially depends on the equation of state (EoS), vorticity, viscosity, and external magnetic field. In the present study, we obtain the lifetime of a vortical QGP fluid within the ambit of relativistic second-order viscous hydrodynamics. We observe that the coupling of vorticity and viscosity significantly increases the lifetime of vortical QGP. The inclusion of a static magnetic field, vorticity, and viscosity makes the evolution slower. However, the static magnetic field slightly decreases the QGP lifetime by accelerating the evolution process for a non-rotating medium. We also report the rate of change of vorticity in the QGP, which will be helpful in studying the behavior of the medium in detail.
Applicability and limitations of cluster perturbation theory for Hubbard models
Authors: Enenkel Nicklas , Garst Markus , Schmitteckert Peter 
Published: September 2023

AbstractWe present important use cases and limitations when considering results obtained from cluster perturbation theory (CPT). CPT combines the solutions of small individual clusters of an infinite lattice system with the Bloch theory of conventional band theory to provide an approximation for the Green’s function in the thermodynamic limit. To this end, we are investigating single-band and multi-band Hubbard models in 1D and 2D systems. A special interest is taken in the supposed pseudogap regime of the 2D square lattice at half-filling and intermediate interaction strength ($$U \le 3t$$

U
≤
3
t

) as well as the metal–insulator transition. We point out that the finite-size level spacing of the cluster limits the resolution of spectral features within CPT. This restricts the investigation of asymptotic properties of the metal–insulator transition, as it would require much larger cluster sizes that are beyond computational capabilities.
Iris
Authors: Hu Jiawei , Wang Yanxiang , Jia Hong , Hu Wen , Hassan Mahbub , Kusy Brano , Uddin Ashraf , Youssef Moustafa 
Published: September 2023

We propose a novel Visible Light Positioning (VLP) method, called Iris, that leverages light spectral information (LSI) to localize individuals in a completely passive manner. This means that the user does not need to carry any device, and the existing lighting infrastructure remains unchanged. Our method uses a background subtraction approach to accurately detect changes in ambient LSI caused by human movement. Furthermore, we design a Convolutional Neural Network (CNN) capable of learning and predicting user locations from the LSI change data.
To validate our approach, we implemented a prototype of Iris using a commercial-off-the-shelf light spectral sensor and conducted experiments in two typical real-world indoor environments: a 25 m2 one-bedroom apartment and a 13.3m × 8.4m office space. Our results demonstrate that Iris performs effectively in both artificial lighting at night and in highly dynamic natural lighting conditions during the day. Moreover, Iris outperforms the state-of-the-art passive VLP techniques significantly in terms of localization accuracy and the required density of light sensors.
To reduce the overhead associated with multi-channel spectral sensing, we develop and validate an algorithm that can minimize the required number of spectral channels for a given environment. Finally, we propose a conditional Generative Adversarial Network (cGAN) that can artificially generate LSI and reduce data collection effort by 50% without sacrificing localization accuracy.
Polymorphisms in Cyclooxygenase, Lipoxygenase, and TP53 Genes Predict Colorectal Polyp Risk Reduction by Aspirin in the seAFOod Polyp Prevention Trial
Authors: Davies John R. , Mell Tracey , Fuller Harriett , Harland Mark , Saleh Rasha N.M. , Race Amanda D. , Rees Colin J. , Brown Louise C. , Loadman Paul M. , Downing Amy , Minihane Anne Marie , Williams Elizabeth A. , Hull Mark A. 
Published: September 2023

Abstract

Aspirin and eicosapentaenoic acid (EPA) reduce colorectal adenomatous polyp risk and affect synthesis of oxylipins including prostaglandin E2. We investigated whether 35 SNPs in oxylipin metabolism genes such as cyclooxygenase (PTGS) and lipoxygenase (ALOX), as well as 7 SNPs already associated with colorectal cancer risk reduction by aspirin (e.g., TP53; rs104522), modified the effects of aspirin and EPA on colorectal polyp recurrence in the randomized 2 × 2 factorial seAFOod trial. Treatment effects were reported as the incidence rate ratio (IRR) and 95% confidence interval (CI) by stratifying negative binomial and Poisson regression analyses of colorectal polyp risk on SNP genotype. Statistical significance was reported with adjustment for the false discovery rate as the P and q value. 542 (of 707) trial participants had both genotype and colonoscopy outcome data. Reduction in colorectal polyp risk in aspirin users compared with nonaspirin users was restricted to rs4837960 (PTGS1) common homozygotes [IRR, 0.69; 95% confidence interval (CI), 0.53–0.90); q = 0.06], rs2745557 (PTGS2) compound heterozygote-rare homozygotes [IRR, 0.60 (0.41–0.88); q = 0.06], rs7090328 (ALOX5) rare homozygotes [IRR 0.27 (0.11–0.64); q = 0.05], rs2073438 (ALOX12) common homozygotes [IRR, 0.57 (0.41–0.80); q = 0.05], and rs104522 (TP53) rare homozygotes [IRR, 0.37 (0.17–0.79); q = 0.06]. No modification of colorectal polyp risk in EPA users was observed. In conclusion, genetic variants relevant to the proposed mechanism of action on oxylipins are associated with differential colorectal polyp risk reduction by aspirin in individuals who develop multiple colorectal polyps. SNP genotypes should be considered during development of personalized, predictive models of colorectal cancer chemoprevention by aspirin.

Prevention Relevance:
Single-nucleotide polymorphisms in genes controlling lipid mediator signaling may modify the colorectal polyp prevention activity of aspirin. Further investigation is required to determine whether testing for genetic variants can be used to target cancer chemoprevention by aspirin to those who will benefit most.
Etripamil Nasal Spray for Conversion of Repeated Spontaneous Episodes of Paroxysmal Supraventricular Tachycardia During Long‐Term Follow‐Up: Results From the NODE‐302 Study
Authors: Ip James E. , Coutu Benoit , Bennett Matthew T. , Pandey A. Shekhar , Stambler Bruce S. , Sager Philip , Chen Michael , Shardonofsky Silvia , Plat Francis , Camm A. John 
Published: September 2023

Background
Self‐administration of investigational intranasal L‐type calcium channel blocker etripamil during paroxysmal supraventricular tachycardia (PSVT) appeared safe and well‐tolerated in the phase 3 NODE‐301 (Multi‐Centre, Randomized, Double‐Blind, Placebo‐Controlled, Efficacy, and Safety Study of Etripamil Nasal Spray for the Termination of Spontaneous Episodes of Paroxysmal Supraventricular Tachycardia) trial of adults with sustained atrioventricular nodal‐dependent PSVT. The NODE‐302 open‐label extension further characterized etripamil safety and efficacy.

Methods and Results

Eligible patients were monitored via self‐applied cardiac monitoring system for 5 hours after etripamil self‐administration. The primary end point was time‐to‐conversion of positively adjudicated PSVT to sinus rhythm after etripamil treatment. Probability of conversion to sinus rhythm was reported via Kaplan‐Meier plot. Adverse events were based on self‐reported symptoms and clinical evaluations. Among 169 patients enrolled, 105 self‐administered etripamil ≥1 time for perceived PSVT (median [range], 232 [8–584] days' follow‐up). Probability of conversion within 30 minutes of etripamil was 60.2% (median time to conversion, 15.5 minutes) among 188 PSVT episodes (92 patients) positively adjudicated as atrioventricular nodal dependent by independent ECG analysis. Among 40 patients who self‐treated 2 episodes, 75% had a significantly consistent response by 30 minutes; 9 did not convert on either episode, and 21 converted on both episodes (χ
2
=8.09;
P
=0.0045). Forty‐five of 105 patients (42.9%) had ≥1 treatment‐emergent adverse event, generally transient and mild‐to‐moderate, including nasal congestion (14.3%), nasal discomfort (14.3%), or rhinorrhea (12.4%). No serious cardiac safety events were observed within 24 hours of etripamil.

Conclusions
In this extension study, investigational etripamil nasal spray was well tolerated for self‐treating recurrent episodes of PSVT without medical supervision.

Registration

URL:
https://www.clinicaltrials.gov
; Unique identifier: NCT03635996.
Delayed Diagnosis in Cerebral Venous Thrombosis: Associated Factors and Clinical Outcomes
Authors: Bakradze Ekaterina , Shu Liqi , Henninger Nils , Prabhakaran Shyam , Siegler James E. , De Marchis Gian Marco , Giles James A. , Dittrich Tolga , Heldner Mirjam R. , Antonenko Kateryna , Kam Wayneho , Liebeskind David S. , Simpkins Alexis N. , Nguyen Thanh N. , Yaghi Shadi , Liberman Ava L. 
Published: September 2023

Background
Identifying factors associated with delayed diagnosis of cerebral venous thrombosis (CVT) can inform future strategies for early detection.

Methods and Results

We conducted a retrospective cohort study including all participants from ACTION‐CVT (Anticoagulation in the Treatment of Cerebral Venous Thrombosis) study who had dates of neurologic symptom onset and CVT diagnosis available. Delayed diagnosis was defined as CVT diagnosis occurring in the fourth (final) quartile of days from symptom onset. The primary study outcome was modified Rankin Scale score of ≤1 at 90 days; secondary outcomes included partial/complete CVT recanalization on last available imaging and modified Rankin Scale score of ≤2. Logistic regression analyses were used to identify independent variables associated with delayed diagnosis and to assess the association of delayed diagnosis and outcomes. A total of 935 patients were included in our study. Median time from symptom onset to diagnosis was 4 days (interquartile range, 1–10 days). Delayed CVT diagnosis (time to diagnosis >10 days) occurred in 212 patients (23%). Isolated headache (adjusted odds ratio [aOR], 2.36 [95% CI, 1.50–3.73];
P
<0.001), older age (aOR by 1 year, 1.02 [95% CI, 1.004–1.03];
P
=0.01), and papilledema (aOR, 2.00 [95% CI, 1.03–3.89];
P
=0.04) were associated with diagnostic delay, whereas higher National Institutes of Health Stroke Scale score was inversely associated with diagnostic delay (aOR by 1 point, 0.95 [95% CI, 0.89–1.00];
P
=0.049). Delayed diagnosis was not associated with modified Rankin Scale score of ≤1 at 90 days (aOR, 1.08 [95% CI, 0.60–1.96];
P
=0.79).

Conclusions
In a large multicenter cohort, a quarter of included patients with CVT were diagnosed >10 days after symptom onset. Delayed CVT diagnosis was associated with the symptom of isolated headache and was not associated with adverse clinical outcomes.