Potential Perturbation Research Articles

Primordial black holes from the perturbations in the inflaton potential in peak theory

The primordial black hole (PBH) is an effective candidate for dark matter. In this work, the PBH abundance $f$ is calculated in peak theory, with one or two perturbations in the inflaton potential. We construct an antisymmetric perturbation that can create a perfect plateau in the inflaton potential, leading inflation to the ultraslow-roll stage. During this stage, the power spectrum of primordial curvature perturbation is remarkably enhanced on small scales, generating abundant PBHs. The PBH abundance $f\ensuremath{\sim}0.1$ can be achieved in one or two typical mass windows at ${10}^{\ensuremath{-}17}\text{ }\text{ }{M}_{\ensuremath{\bigodot}}$, ${10}^{\ensuremath{-}13}\text{ }\text{ }{M}_{\ensuremath{\bigodot}}$, and $30\text{ }\text{ }{M}_{\ensuremath{\bigodot}}$, without spoiling the nearly scale-invariant power spectrum on large scales. For comparison, $f$ is calculated in two approximate methods of peak theory (with different spectral moments) and also in the Press-Schechter theory. It is found that the Press-Schechter theory systematically underestimates $f$ by 2 or 3 orders of magnitude compared with peak theory.

Theory of Perturbation of Electrostatic Field by an Anisotropic Dielectric Sphere

Summary The boundary-value problem for the perturbation of an electric potential by a homogeneous anisotropic dielectric sphere in vacuum was formulated. The total potential in the exterior region was expanded in series of radial polynomials and tesseral harmonics, as is standard for the Laplace equation. A bijective transformation of space was carried out to formulate a series representation of the potential in the interior region. Boundary conditions on the spherical surface were enforced to derive a transition matrix that relates the expansion coefficients of the perturbation potential in the exterior region to those of the source potential. Far from the sphere, the perturbation potential decays as the inverse of the distance squared from the center of the sphere, as confirmed numerically when the source potential is due to either a point charge or a point dipole.

Metabolomics and Transcriptomics Analysis on Metabolic Characteristics of Oral Lichen Planus.

ObjectiveTo explore metabolic biomarkers related to erosive and reticulated oral lichen planus (OLP) by non-targeted metabolomics methods and correlate metabolites with gene expression, and to investigate the pathological network pathways of OLP from the perspective of metabolism.MethodsA total of 153 individuals were enrolled in this study, including 50 patients with erosive oral lichen planus (EOLP), 51 patients with reticulated oral lichen planus (ROLP), and 52 healthy controls (HC). The ultra-high-performance liquid chromatography quadrupole-Orbitrap high-resolution accurate mass spectrometry (UHPLC/Q-Orbitrap HRMS) was used to analyze the metabolites of 40 EOLP, 40 ROLP, and 40 HC samples, and the differential metabolic biomarkers were screened and identified. The regulatory genes were further screened through the shared metabolites between EOLP and ROLP, and cross-correlated with the OLP-related differential genes in the network database. A “gene-metabolite” network was constructed after finding the key differential genes. Finally, the diagnostic efficiency of the biomarkers was verified in the validation set and a diagnostic model was constructed.ResultCompared with HC group, a total of 19 and 25 differential metabolites were identified in the EOLP group and the ROLP group, respectively. A total of 14 different metabolites were identified between EOLP and ROLP. Two diagnostic models were constructed based on these differential metabolites. There are 14 differential metabolites shared by EOLP and ROLP. The transcriptomics data showed 756 differentially expressed genes, and the final crossover network showed that 19 differential genes were associated with 12 metabolites. Enrichment analysis showed that alanine, aspartate and glutamate metabolism were closely associated with the pathogenesis of OLP.ConclusionThe metabolic change of different types of OLP were clarified. The potential gene perturbation of OLP was provided. This study provided a strong support for further exploration of the pathogenic mechanism of OLP.

Kinematical asymmetry in the dwarf irregular galaxy WLM and a perturbed halo potential

WLM is a dwarf irregular that is seen almost edge-on that has prompted a number of kinematical studies investigating its rotation curve and its dark matter content. In this paper, we investigate the origin of the strong asymmetry of the rotation curve, which shows a significant discrepancy between the approaching and the receding side. We first examine whether an m = 1 perturbation (lopsidedness) in the halo potential could be a mechanism creating such kinematical asymmetry. To do so, we fit a theoretical rotational velocity associated with an m = 1 perturbation in the halo potential model to the observed data via a χ−squared minimization method. We show that a lopsided halo potential model can explain the asymmetry in the kinematic data reasonably well. We then verify that the kinematical classification of WLM shows that its velocity field is significantly perturbed due to both its asymmetrical rotation curve and also its peculiar velocity dispersion map. In addition, based on a kinemetry analysis, we find that it is possible for WLM to lie in the transition region, where the disk and merger coexist. In conclusion, it appears that the rotation curve of WLM diverges significantly from that of an ideal rotating disk, which may significantly affect investigations of its dark matter content.

Microalgae Growth Inhibition-Based Reservoirs Water Quality Assessment to Identify Ecotoxicological Risks

This work intended to assess the adaptability of bioassay with Raphidocelis subcapitata to be used as a complement to the water quality assessment parameters of reservoirs imposed by the European Water Framework Directive (WFD). Thus, water samples of Portuguese reservoirs (Miranda, Pocinho, Aguieira, and Alqueva) were analyzed in three sampling periods (spring and autumn 2019, and spring 2020). A physical and chemical report of waters was also performed. R. subcapitata assay proved to be sensitive, indicating the presence of a potential perturbation that was not always associated with chemical analysis performed. In general, in the spring samplings, the water samples showed more disturbances to R. subcapitata, which in some situations may be associated with the higher content of nutrients and metals. Microalgae assay can be an effective complementary tool to indicate the ecotoxicological potential since they responded quickly to all sample components of water samples, in a wide-ranging variety of water conditions (different sites in several reservoirs). High similarities between the final ecotoxicological and the ecological potentials, according to the WFD parameters, were detected. The ecotoxicological approach based on our results allowed to confirm that bioassays with R. subcapitata are suitable and sensible to detect perturbations.

Modular Design of Supramolecular Ionic Peptides with Cell-Selective Membrane Activity.

The rational design of materials with cell-selective membrane activity is an effective strategy for the development of targeted molecular imaging and therapy. Here we report a new class of cationic multidomain peptides (MDPs) that can undergo enzyme-mediated molecular transformation followed by supramolecular assembly to form nanofibers in which cationic clusters are presented on a rigid β-sheet backbone. This structural transformation, which is induced by cells overexpressing the specific enzymes, led to a shift in the membrane perturbation potential of the MDPs, and consequently enhanced cell uptake and drug delivery efficacy. We envision the directed self-assembly based on modularly designed MDPs as a highly promising approach to generate dynamic supramolecular nanomaterials with emerging membrane activity for a range of disease targeted molecular imaging and therapy applications.

Analytical computation of quasinormal modes of slowly rotating black holes in dynamical Chern-Simons gravity

Using gravitational wave observations to search for deviations from general relativity (GR) in the strong-gravity regime has become an important research direction. One aspect of the strong gravity modifications to GR is parity violation. Chern Simons (CS) gravity is one of the most frequently studied parity-violating models of strong gravity. CS gravity is indistinguishable from GR for all conformally flat space-times and for space-times that possess a maximally symmetric two-dimensional subspace. Also, it is known that the Kerr black hole is not a solution for CS gravity. At the same time, the only rotating solution available in the literature for dynamical CS (DCS) gravity is the slow-rotating case most accurately known to quadratic order in spin. In this work, for the slow-rotating case (accurate to first order in spin), we derive the linear perturbation equations governing the metric and the DCS field accurate to linear order in spin and quadratic order in the CS coupling parameter ($\ensuremath{\alpha}$) and obtain the quasinormal mode (QNM) frequencies. After confirming the recent results of Wagle et al. arXiv:2103.09913, we find an additional contribution to the eigenfrequency correction at the leading perturbative order of ${\ensuremath{\alpha}}^{2}$. Unlike Wagle et al., we also find corrections to frequencies in the polar sector. We compute these extra corrections by evaluating the expectation values of the perturbative potential on unperturbed QNM wave functions along a contour deformed into the complex-$r$ plane. For $\ensuremath{\alpha}=0.1{M}^{2}$, we obtain the ratio of the imaginary parts of the DCS correction to the GR correction in the first QNM frequency (in the polar sector) to be 0.263 implying significant change. For the (2, 2) mode, the DCS corrections make imaginary part of the first QNM of the fundamental mode less negative, thereby decreasing the decay rate. Our results, along with future gravitational wave observations, can be used as a test for DCS gravity and to further constrain the CS coupling parameters.

Abstract P508: Hyperglycemia Exacerbated Sars-cov-2 Spike Protein-induced Electrophysiological Dysfunctions In Hipsc-derived Cardiomyocytes

Background: Cardiac arrhythmias, heart failure, and myocarditis are common symptoms associated with coronavirus 2 (SARS-CoV-2) infection. The cytopathic effect of SARS-CoV-2 is initiated by spike protein (S-protein) binding to the ACE2 receptor. However, cellular mechanisms of SARS-CoV-2 causing cardiac complications, particularly in a subset of the population such as diabetic patients, remain unclear. Aims: To determine electrophysiological cytopathic effects of SARS-CoV-2 S-protein in human induced pluripotent stem cell-derived cardiomyocytes (hiPSC-CMs). Methods and Results: CMs were differentiated from WTC-11, then re-plated on 48-well microelectrode array (MEA) plates and cultured under normal or hyperglycemic conditions (Glucose 5 mM (NG), and Glucose 20 mM (HG)) for three days. These HiPSC-CMs were treated with recombinant S-protein with or without insulin supplementation. Cardiac modules in AxIS MEA program were used to acquire and analyze electric and contractile functions. Beat period and field potential duration were significantly prolonged, while conductance velocity and spike slope were accelerated in HG without insulin compared to that in HG with insulin (p<0.05). S-protein-induced perturbations in local extracellular action potential (LEAP) matrices (e.g., LPD30, 50, 90) and Contractility matrices in HG were mitigated by insulin treatment. Higher concentration S-protein induced perturbations in normal hiPSC-CMs (NG+insulin). One day after S-protein treatment, CM functions appeared comparable to the pretreatment state, although changes in some electro-contractile matrices persisted. Conclusion: These results demonstrate SARS-CoV-2 viral structural protein can induce acute electrophysiological dysfunctions in hiPSC-CMs, which is influenced by glucose level. This establishes a new model for dissecting the mechanism of cardiac complications in viral infection.

Birhythmicity, intrinsic entrainment, and minimal chimeras in an electrochemical experiment.

The coexistence of limit cycles in a phase space, so called birhythmicity, is a phenomenon known to exist in many systems in various disciplines. Yet, detailed experimental investigations are rare, as are studies on the interaction between birhythmic components. In this article, we present experimental evidence for the existence of birhythmicity during the anodic electrodissolution of Si in a fluoride-containing electrolyte using weakly illuminated n-type Si electrodes. Moreover, we demonstrate several types of interaction between the coexisting limit cycles, in part resulting in peculiar dynamics. The two limit cycles exhibit vastly different sensitivities with respect to a small perturbation of the electrode potential, rendering the coupling essentially unidirectional. A manifestation of this is an asymmetric 1:2 intrinsic entrainment of the coexisting limit cycles on an individual uniformly oscillating electrode. In this state, the phase-space structure mediates the locking of one of the oscillators to the other one across the separatrix. Furthermore, the transition scenarios from one limit cycle to the other one at the borders of the birhythmicity go along with different types of spatial symmetry breaking. Finally, the master-slave type coupling promotes two (within the experimental limits) identical electrodes initialized on the different limit cycles to adopt states of different complexity: one of the electrodes exhibits irregular, most likely chaotic, motion, while the other one exhibits period-1 oscillations. The coexistence of coherence and incoherence is the characteristic property of a chimera state, the two coupled electrodes constituting an experimental example of a smallest chimera state in a minimal network configuration.

The Oxidative Potential of Fine Particulate Matter and Metabolic Perturbations in Plasma and Saliva

BACKGROUND AND AIM: Exposure assessment and health impact evaluation of particulate matter (PM) mixtures remain very challenging. Fine particle oxidative potential (FPMOP) has been considered as a key health-relevant particulate parameter. We measured FPMOP exposures in a recent panel study and corresponding metabolic perturbations to evaluate its potential epidemiologic value and examine molecular mechanisms underlying PM-related health impacts. METHODS: We recruited 54 participants from two dormitories in Atlanta, GA near and far from a congested highway. Indoor or outdoor FPMOP levels at the dormitories were measured using dithiothreitol (DTT) assay. Plasma and saliva samples were collected from participants at four time points during 12 weeks. Liquid chromatography coupled with high-resolution mass spectrometry was used to profile the participants’ metabolome. We used mixed effect models to examine associations between metabolic features and FPMOP, controlling for potential confounders including age, gender, race, and body mass index. Significant metabolic features meeting false positive discovery rate at 20% were used for pathway enrichment analysis and metabolite annotation. RESULTS:The 96h-mean water soluble FPMOP levels at the near and far dormitories prior to biosample collection were 26.3 and 22.9 nmol/min/μg, respectively. In total, we extracted 20,766 metabolic features from plasma samples and 29,013 from saliva samples. Purine metabolism, N-glycan biosynthesis, and beta-alanine metabolism were most strongly associated with 5 or more FPMOP-related measurements in plasma, while vitamin E metabolism, leukotriene metabolism, and glycosphingolipid metabolism were found associated with FPMOP in saliva. We confirmed 6 metabolites directly associated with FPMOP measurements including hypoxanthine, histidine, pyruvate, (s)-lactate/glyceraldehyde, azelaic acid, and petroselinic acid/elaidic acid/oleate, which were implications of perturbations in amino acid, carbohydrate, nucleotide and lipid metabolism. CONCLUSIONS:We identified metabolites and pathways perturbations in plasma and saliva following by higher FPMOP exposure in panel-based setting. Perturbations in amino acid, carbohydrate, nucleotide and lipid metabolism may elicit PM-related health impacts. KEYWORDS: Fine Particle Oxidative Potential, Metabolomics, Air Pollution, Dithiothreitol Assay

Compact representation of generalized molecular polarizabilities and efficient calculation of polarization energy in an arbitrary electric field

AbstractGeneralized polarizabilities and the molecular charge distribution can describe the response of a molecule in an arbitrary static electric field up to second order. Depending on the expansion functions used to describe the perturbing potential, the generalized polarizability matrix can have rather large dimension (~1000). This matrix is the discretized version of the density response function or electronic susceptibility. Diagonalizing and truncating it can lead to significant (over an order of magnitude) speed‐up in simulations. We have analyzed the convergence behavior of the generalized polarizability using a plane wave basis for the potential. The eigenfunctions of the generalized polarizability matrix are the natural polarization potentials. They are potentially useful to construct efficient polarizability models for molecules.

Thick branes with inner structure in mimetic f(R) gravity

In this paper, we study the structure and gravitational resonances of thick branes generated by a mimetic scalar field in f(R) gravity. We obtain several typical thick brane solutions for f(R)=R+alpha R^2. To study their stability, we analyze the tensor perturbation of the metric. It is shown that any thick brane model with df/dR>0 is stable and the graviton zero mode can be localized on the brane for each solution, which indicates that the four-dimensional Newtonian gravity can be restored. The effect of the parameter alpha on the gravitational resonances is studied. As a brane splits into multi sub-branes, the effective potential of the tensor perturbation will have an abundant inner structure with multi-wells, and this will lead to new phenomena of the gravitational resonances.

Ion chamber and film-based quality assurance of mixed electron-photon radiation therapy.

In previous work, we demonstrated that mixed electron-photon radiation therapy (MBRT) produces treatment plans with improved normal tissue sparing and similar target coverage, when compared to photon-only plans. The purpose of this work was to validate the MBRT delivery process on a Varian TrueBeam accelerator and laying the groundwork for a patient-specific quality assurance (QA) protocol based on ion chamber point measurements and 2D film measurements. MC beam models used to calculate the MBRT dose distributions of each modality (photons/electrons) were validated with a single-angle beam MBRT treatment plan delivered on a slab of Solid Water phantom with a film positioned at a depth of 2cm. The measured film absorbed dose was compared to the calculated dose. To validate clinical deliveries, a polymethyl methacrylate (PMMA) cylinder was machined and holes were made to fit an ionization chamber. A complex MBRT plan involving a photon arc and three electron delivery angles was created with the aim of reproducing a clinically realistic dose distribution in typical soft tissue sarcoma tumours of the extremities. The treatment plan was delivered on the PMMA cylinder. Point measurements were taken with an Exradin A1SL chamber at two nominal depths: 1.4cm and 2.1cm. The plan was also delivered on a second identical phantom with an insert at 2cm depth, where a film was placed. An existing EGSnrc user-code, SPRRZnrc, was modified to calculate the stopping power ratios between any materials in the same voxelized geometry used for dose calculation purposes. This modified code, called SPRXYZnrc, was used to calculate a correction factor, , accounting for the differences in electron fluence spectrum at the measurement point compared to that at reference conditions. The uncertainty associated with neglecting potential ionization chamber fluence perturbation correction factors using this approach was estimated. The film measurement from the Solid Water phantom treatment plan was in good agreement with the simulated dose distribution, with a gamma pass rate of 96.1% for a 3%/2mm criteria. For the PMMA phantom delivery, for the same gamma criteria, the pass rate was 97.3%. The ion chamber measurements of the total delivered dose agreed with the MC-simulated dose within 2.1%. The beam quality correction factors amounted to, at most, a 4% correction on the ion chamber measurement. However, individual contribution of low electron energies proved difficult to precisely measure due to their steep dose gradients, with disagreements of up to 28%±15% at 2.1cm depth (6MeV). Ion chamber measurement procedure of electron beams was achieved in less than 5min, and the entire validation process including phantom setup was performed in less than 30min. The agreement between measured and simulated MBRT doses indicates that the dose distributions obtained from the MBRT treatment planning algorithm are realistically achievable. The SPRXYZnrc MC code allowed for convenient calculations of simultaneously with the dose distributions, laying the groundwork for patient-specific QA protocol practical for clinical use. Further investigation is needed to establish the accuracy of our ionization chamber correction factors calculations at low electron energies.

Macrophage-Derived Cholesterol Contributes to Therapeutic Resistance in Prostate Cancer.

Castration-resistant prostate cancer (CRPC) is a lethal stage of disease in which androgen receptor (AR) signaling is persistent despite androgen deprivation therapy (ADT). Most studies have focused on investigating cell-autonomous alterations in CRPC, while the contributions of the tumor microenvironment are less well understood. Here we sought to determine the role of tumor-associated macrophages in CRPC, based upon their role in cancer progression and therapeutic resistance. In a syngeneic model that reflected the mutational landscape of CRPC, macrophage depletion resulted in a reduced transcriptional signature for steroid and bile acid synthesis, indicating potential perturbation of cholesterol metabolism. As cholesterol is the precursor of the five major types of steroid hormones, we hypothesized that macrophages were regulating androgen biosynthesis within the prostate tumor microenvironment. Macrophage depletion reduced androgen levels within prostate tumors and restricted AR nuclear localization in vitro and in vivo. Macrophages were also cholesterol-rich and were able to transfer cholesterol to tumor cells in vitro. AR nuclear translocation was inhibited by activation of liver X receptor (LXR)-β, the master regulator of cholesterol homeostasis. Consistent with these data, macrophage depletion extended survival during ADT and the presence of macrophages correlated with therapeutic resistance in patient-derived explants. Taken together, these findings support the therapeutic targeting of macrophages in CRPC. SIGNIFICANCE: These results suggest that macrophage-targeted therapies can be combined with androgen deprivation therapy to treat patients with prostate cancer by limiting cholesterol bioavailability and the production of intratumoral androgens.See related commentary by Al-Janabi and Lewis, p. 5399.

Copper(II) Complexes Containing Natural Flavonoid Pomiferin Show Considerable In Vitro Cytotoxicity and Anti-inflammatory Effects.

A series of new heteroleptic copper(II) complexes of the composition [Cu(L)(bpy)]NO3·2MeOH (1), [Cu(L)(dimebpy)]NO3·2H2O (2), [Cu(L)(phen)]NO3·2MeOH (3), [Cu(L)(bphen)]NO3·MeOH (4), [Cu(L)(dppz)]NO3·MeOH (5) was prepared, where HL = 3-(3,4-dihydroxyphenyl)-5-hydroxy-8,8-dimethyl-6-(3-methylbut-2-ene-1-yl)-4H,8H-benzo[1,2-b:3,4-b′]dipyran-4-one, (pomiferin) and bpy = 2,2′-bipyridine, dimebpy = 4,4′-dimethyl-2,2′-bipyridine, phen = 1,10-phenanthroline, bphen = 4,7-diphenyl-1,10-phenanthroline, and dppz = dipyrido[3,2-a:2′,3′-c]phenazine. The complexes were characterized using elemental analysis, infrared and UV/Vis spectroscopies, mass spectrometry, thermal analysis and conductivity measurements. The in vitro cytotoxicity, screened against eight human cancer cell lines (breast adenocarcinoma (MCF-7), osteosarcoma (HOS), lung adenocarcinoma (A549), prostate adenocarcinoma (PC-3), ovarian carcinoma (A2780), cisplatin-resistant ovarian carcinoma (A2780R), colorectal adenocarcinoma (Caco-2) and monocytic leukemia (THP-1), revealed the complexes as effective antiproliferative agents, with the IC50 values of 2.2–13.0 μM for the best performing complexes 3 and 5. All the complexes 1–5 showed the best activity against the A2780R cells (IC50 = 2.2–6.6 μM), and moreover, the complexes demonstrated relatively low toxicity on healthy human hepatocytes, with IC50 > 100 μM. The complexes were evaluated by the Annexin V/propidium iodide apoptosis assay, induction of cell cycle modifications in A2780 cells, production of reactive oxygen species (ROS), perturbation of mitochondrial membrane potential, inhibition of apoptosis and inflammation-related signaling pathways (NF-κB/AP-1 activity, NF-κB translocation, TNF-α secretion), and tested for nuclease mimicking activity. The obtained results revealed the corresponding complexes to be effective antiproliferative and anti-inflammatory agents.

Neural Mechanism of Repeated Transcranial Magnetic Stimulation to Enhance Visual Working Memory in Elderly Individuals With Subjective Cognitive Decline.

Visual working memory (VWM), the core process inherent to many advanced cognitive processes, deteriorates with age. Elderly individuals usually experience defects in the processing of VWM. The dorsolateral prefrontal cortex is a key structure for the top-down control of working memory processes. Many studies have shown that repeated transcranial magnetic stimulation (rTMS) improves VWM by modulating the excitability of neurons in the target cortical region, though the underlying neural mechanism has not been clarified. Therefore, this study sought to assess the characteristics of brain memory function post-rTMS targeting the left dorsolateral prefrontal cortex. The study stimulated the left dorsolateral prefrontal cortex in elderly individuals by performing a high-frequency rTMS protocol and evaluated behavioral performance using cognitive tasks and a VWM task. Based on the simultaneously recorded electroencephalogram signals, event-related potential and event-related spectral perturbation analysis techniques were used to investigate the variation characteristics of event-related potential components' (N2PC and CDA) amplitudes and neural oscillations in elderly individuals to elucidate the effect of high-frequency rTMS. The results found that rTMS enhanced VWM performance and significantly improved attention and executive function in elderly individuals with subjective cognitive decline. We therefore speculate that rTMS enhances VWM by increasing the N2PC and CDA amplitude, alongside increasing β oscillation activity. This would improve the attention and allocation of resources in elderly individuals such as to improve an individual's VWM.

Critical properties of the prethermal Floquet time crystal

The critical properties characterizing the formation of the Floquet time crystal in the prethermal phase are investigated analytically in the periodically driven $O(N)$ model. In particular, we focus on the critical line separating the trivial phase with period synchronized dynamics and absence of long-range spatial order from the non-trivial phase where long-range spatial order is accompanied by period-doubling dynamics. In the vicinity of the critical line, with a combination of dimensional expansion and exact solution for $N\to\infty$, we determine the exponent $\nu$ that characterizes the divergence of the spatial correlation length of the equal-time correlation functions, the exponent $\beta$ characterizing the growth of the amplitude of the order-parameter, as well as the initial-slip exponent $\theta$ of the aging dynamics when a quench is performed from deep in the trivial phase to the critical line. The exponents $\nu, \beta, \theta$ are found to be identical to those in the absence of the drive. In addition, the functional form of the aging is found to depend on whether the system is probed at times that are small or large compared to the drive period. The spatial structure of the two-point correlation functions, obtained as a linear response to a perturbing potential in the vicinity of the critical line, is found to show algebraic decays that are longer ranged than in the absence of a drive, and besides being period-doubled, are also found to oscillate in space at the wave-vector $\omega/(2 v)$, $v$ being the velocity of the quasiparticles, and $\omega$ being the drive frequency.

Phenomenological Implications of Modified Loop Cosmologies: An Overview

In this paper, we first provide a brief review of the effective dynamics of two recently well-studied models of modified loop quantum cosmologies (mLQCs), which arise from different regularizations of the Hamiltonian constraint and show the robustness of a generic resolution of the big bang singularity, replaced by a quantum bounce due to non-perturbative Planck scale effects. As in loop quantum cosmology (LQC), in these modified models the slow-roll inflation happens generically. We consider the cosmological perturbations following the dressed and hybrid approaches and clarify some subtle issues regarding the ambiguity of the extension of the effective potential of the scalar perturbations across the quantum bounce, and the choice of initial conditions. Both of the modified regularizations yield primordial power spectra that are consistent with current observations for the Starobinsky potential within the framework of either the dressed or the hybrid approach. But differences in primordial power spectra are identified among the mLQCs and LQC. In addition, for mLQC-I, striking differences arise between the dressed and hybrid approaches in the infrared and oscillatory regimes. While the differences between the two modified models can be attributed to differences in the Planck scale physics, the permissible choices of the initial conditions and the differences between the two perturbation approaches have been reported for the first time. All these differences, due to either the different regularizations or the different perturbation approaches in principle can be observed in terms of non-Gaussianities.

The phenylpropanoid pathway inhibitor piperonylic acid induces broad-spectrum pest and disease resistance in plants.

Although many phenylpropanoid pathway-derived molecules act as physical and chemical barriers to pests and pathogens, comparatively little is known about their role in regulating plant immunity. To explore this research field, we transiently perturbed the phenylpropanoid pathway through application of the CINNAMIC ACID-4-HYDROXYLASE (C4H) inhibitor piperonylic acid (PA). Using bioassays involving diverse pests and pathogens, we show that transient C4H inhibition triggers systemic, broad-spectrum resistance in higher plants without affecting growth. PA treatment enhances tomato (Solanum lycopersicum) resistance in field and laboratory conditions, thereby illustrating the potential of phenylpropanoid pathway perturbation in crop protection. At the molecular level, transcriptome and metabolome analyses reveal that transient C4H inhibition in tomato reprograms phenylpropanoid and flavonoid metabolism, systemically induces immune signalling and pathogenesis-related genes, and locally affects reactive oxygen species metabolism. Furthermore, C4H inhibition primes cell wall modification and phenolic compound accumulation in response to root-knot nematode infection. Although PA treatment induces local accumulation of the phytohormone salicylic acid, the PA resistance phenotype is preserved in tomato plants expressing the salicylic acid-degrading NahG construct. Together, our results demonstrate that transient phenylpropanoid pathway perturbation is a conserved inducer of plant resistance and thus highlight the crucial regulatory role of this pathway in plant immunity.

Binary Metabolic Phenotypes and Phenotype Diversity Metrics for the Functional Characterization of Microbial Communities.

The profiling of 16S rRNA revolutionized the exploration of microbiomes, allowing to describe community composition by enumerating relevant taxa and their abundances. However, taxonomic profiles alone lack interpretability in terms of bacterial metabolism, and their translation into functional characteristics of microbiomes is a challenging task. This bottom-up approach minimally requires a reference collection of major metabolic traits deduced from the complete genomes of individual organisms, an accurate method of projecting these traits from a reference collection to the analyzed amplicon sequence variants (ASVs), and, ultimately, an approach to a microbiome-wide aggregation of predicted individual traits into physiologically relevant cumulative metrics to characterize and compare multiple microbiome samples. In this study, we extended a previously introduced computational approach for the functional profiling of complex microbial communities, which is based on the concept of binary metabolic phenotypes encoding the presence (“1”) or absence (“0”) of various measurable physiological properties in individual organisms that are termed phenotype carriers or non-carriers, respectively. Derived from complete genomes via metabolic reconstruction, binary phenotypes provide a foundation for the prediction of functional traits for each ASV identified in a microbiome sample. Here, we introduced three distinct mapping schemes for a microbiome-wide phenotype prediction and assessed their accuracy on the 16S datasets of mock bacterial communities representing human gut microbiome (HGM) as well as on two large HGM datasets, the American Gut Project and the UK twins study. The 16S sequence-based scheme yielded a more accurate phenotype predictions, while the taxonomy-based schemes demonstrated a reasonable performance to warrant their application for other types of input data (e.g., from shotgun metagenomics or qPCR). In addition to the abundance-weighted Community Phenotype Indices (CPIs) reflecting the fractional representation of various phenotype carriers in microbiome samples, we employ metrics capturing the diversity of phenotype carriers, Phenotype Alpha Diversity (PAD) and Phenotype Beta Diversity (PBD). In combination with CPI, PAD allows to classify the robustness of metabolic phenotypes by their anticipated stability in the face of potential environmental perturbations. PBD provides a promising approach for detecting the metabolic features potentially contributing to disease-associated metabolic traits as illustrated by a comparative analysis of HGM samples from healthy and Crohn’s disease cohorts.