New physics searches at kaon and hyperon factories.

Rare meson decays are among the most sensitive probes of both heavy and light new physics. Among them, new physics searches using kaons benefit from their small total decay widths and the availability of very large datasets. On the other hand, useful complementary information is provided by hyperon decay measurements. We summarize the relevant phenomenological models and the status of the searches in a comprehensive list of kaon and hyperon decay channels. We identify new search strategies for under-explored signatures, and demonstrate that the improved sensitivities from current and next-generation experiments could lead to a qualitative leap in the exploration of light dark sectors.

Self-Consistent Extraction of Spectroscopic Bounds on Light New Physics.

Fundamental physical constants are determined from a collection of precision measurements of elementary particles, atoms, and molecules. This is usually done under the assumption of the standard model (SM) of particle physics. Allowing for light new physics (NP) beyond the SM modifies the extraction of fundamental physical constants. Consequently, setting NP bounds using these data, and at the same time assuming the Committee on Data of the International Science Council recommended values for the fundamental physical constants, is not reliable. As we show in this Letter, both SM and NP parameters can be simultaneously determined in a consistent way from a global fit. For light vectors with QED-like couplings, such as the dark photon, we provide a prescription that recovers the degeneracy with the photon in the massless limit and requires calculations only at leading order in the small new physics couplings. At present, the data show tensions partially related to the proton charge radius determination. We show that these can be alleviated by including contributions from a light scalar with flavor nonuniversal couplings.

Probiotic yeast Saccharomyces boulardii (nom. nud.) modulates adhesive properties of Candida glabrata.

Following the widespread use of immunosuppressive therapy together with broad-spectrum antimycotic therapy, the frequency of mucosal and systemic infections caused by the pathogenic yeast Candida glabrata has increased in the past decades. Due to the resistance of C. glabrata to existing azole drugs, it is very important to look for new strategies helping the treatment of such fungal diseases. In this study, we investigated the effect of the probiotic yeast Saccharomyces boulardii (nom. nud.) on C. glabrata adhesion at different temperatures, pH values, and in the presence of fluconazole, itraconazole and amphotericin B. We also studied the adhesion of C. glabrata co-culture with Candida krusei, Saccharomyces cerevisiae, two bacterial probiotics Lactobacillus rhamnosus and Lactobacillus casei The method used to assess adhesion was crystal violet staining. Our results showed that despite the nonadhesiveness of S. boulardii cells, this probiotic significantly affected the adherence ability of C. glabrata This effect was highly dependent on C. glabrata strain and was either antagonistic or synergistic. Regarding the extrinsic factors, temperature did not indicate any significant influence on this S. boulardii modulatory effect, while at high pH and at increased concentrations of antimycotics, S. boulardii did not manage to repress the adhesion of C. glabrata strains. The experiments of C. glabrata co-cultures with other species showed that the adhesiveness of two separate cultures could not be used to predict the adhesiveness of their co-culture.

Quorum-sensing in yeast and its potential in wine making.

This mini-review synthesises the present knowledge of microbial quorum-sensing, with a specific focus on quorum-sensing in yeast, and especially in wine yeast. In vine and wine ecosystems, yeast co-interact with a large variety of microorganisms, thereby affecting the fermentation process and, consequently, the flavour of the wine. The precise connections between microbial interactions and quorum-sensing remain unclear, but we describe here how and when some species start to produce quorum-sensing molecules to synchronously adapt their collective behaviour to new conditions. In Saccharomyces cerevisiae, the quorum-sensing molecules were identified as 2-phenylethanol and tryptophol. However, it was recently shown that also a quorum-sensing molecule formerly identified only in Candida albicans, tyrosol, appears to be regulated in S. cerevisiae according to cell density. This review describes the methods for detection and quantification of those quorum-sensing molecules, their underlying mechanisms of action, and their genetic background. It also examines the external stimuli that evoke the quorum-sensing mechanism in the wine-processing environment. The review closes with insight into the biotechnological applications that are already making use of the advantages of quorum-sensing systems and indicates the important questions that still need to be addressed in future research into quorum-sensing.

Exclusive window onto Higgs Yukawa couplings.

We show that both flavor-conserving and flavor-violating Yukawa couplings of the Higgs boson to first- and second-generation quarks can be probed by measuring rare decays of the form h→MV, where M denotes a vector meson and V indicates either γ, W or Z. We calculate the branching ratios for these processes in both the standard model and its possible extensions. We discuss the experimental prospects for their observation. The possibility of accessing these Higgs couplings appears to be unique to the high-luminosity LHC and future hadron colliders, providing further motivation for those machines.

Astrophysics-independent bounds on the annual modulation of dark matter signals.

We show how constraints on the time integrated event rate from a given dark matter (DM) direct detection experiment can be used to bound the amplitude of the annual modulation signal in another experiment. The method requires only mild assumptions about the properties of the local DM distribution: that it is temporally stable on the scale of months and spatially homogeneous on the ecliptic. We apply the method to the annual modulation signal in DAMA/LIBRA, which we compare to the bounds derived from XENON10, XENON100, cryogenic DM search, and SIMPLE data. Assuming a DM mass of 10 GeV, we show that under the above assumptions about the DM halo, a DM interpretation of the DAMA/LIBRA signal is excluded for several classes of models: at 6.3σ (4.6σ) for elastic isospin conserving (violating) spin-independent interactions, and at 4.9σ for elastic spin-dependent interactions on protons.

Implications of lepton flavor universality violations in B decays.

Present measurements of b→cτν and b→uτν transitions differ from the standard model predictions of lepton flavor universality by almost 4σ. We examine new physics interpretations of this anomaly. An effective field theory analysis shows that minimal flavor violating models are not preferred as an explanation, but are also not yet excluded. Allowing for general flavor violation, right-right vector and right-left scalar quark currents are identified as viable candidates. We discuss explicit examples of two Higgs doublet models, leptoquarks as well as quark and lepton compositeness. Finally, implications for LHC searches and future measurements at the (super-)B factories are presented.

Erratum to: Anomaly free Froggatt-Nielsen models of flavor.

[This corrects the article DOI: 10.1007/JHEP10(2019)188.].

Forward-backward asymmetry in tt production from flavor symmetries.

We show that the forward-backward asymmetry in top quark pair production can be enhanced by fields that transform nontrivially under the flavor group and satisfy minimal flavor violation, while at the same time the constraints from associated effects on the dσ(tt)/dM(tt) distribution, dijet resonance searches, same-sign top-pair production, and other phenomenology are satisfied. We work out two examples in detail: one where a scalar color antisextet field that is also an antisextet of SU(3)(U) enhances the forward-backward asymmetry and one where the enhancement arises from a vector color octet field that is also an octet of SU(3)(U).

Linear vs. Non-linear Modelling. Case study: modelling of binding affinity of inhibitors to Trypsin.

On the set of 53 trypsin inhibitors the affinity to the covalent bound ligands is modeled using linear (MLR) and non-linear (ANN) methods. Each compound is represented by 343 chemical descriptors. The hypothesis was that linear models are not sufficiently flexible to yield the best model, because in MLR (multiple regression analysis) the number of variables (descriptors) is limited by the number of objects in the training set. On the other hand the CP-ANN (counter-propagation-artificial neural network) is not limited by this restriction and can thus involve larger number of variables than there are compounds in the training set. Both methods are applied on the same division of 53 compounds on the training, test, and validation sets. In a systematic GA (genetic algorithm) search the MLR models containing all possible forms of linear polynomials, i.e., from 3 to 25 variables were scanned and no better model that one obtained by the CP-ANN model was found.

Invasive growth of Saccharomyces cerevisiae depends on environmental triggers: a quantitative model.

In this contribution, the influence of various physicochemical factors on Saccharomyces cerevisiae invasive growth is examined quantitatively. Agar-invasion assays are generally applied for in vitro studies on S. cerevisiae invasiveness, the phenomenon observed as a putative virulence trait in this clinically more and more concerning yeast. However, qualitative agar-invasion assays, used until now, strongly limit the feasibility and interpretation of analyses and therefore needed to be improved. Besides, knowledge in this field concerning the physiology of invasive growth, influenced by stress conditions related to the human alimentary tract and food, is poor and should be expanded. For this purpose, a quantitative agar-invasion assay, presented in our previous work, was applied in this contribution to clarify the significance of the stress factors controlling the adhesion and invasion of the yeast in greater detail. Ten virulent and non-virulent S. cerevisiae strains were assayed at various temperatures, pH values, nutrient starvation, modified atmosphere, and different concentrations of NaCl, CaCl2 and preservatives. With the use of specific parameters, like a relative invasion, eight invasive growth models were hypothesized, which enabled intelligible interpretation of the results. A strong preference for invasive growth (meaning high relative invasion) was observed when the strains were grown on nitrogen- and glucose-depleted media. A significant increase in the invasion of the strains was also determined at temperatures typical for human fever (37-39 degrees C). On the other hand, a strong repressive effect on invasion was found in the presence of salts, anoxia and some preservatives.

Implications of the dimuon CP asymmetry in B(d,s) decays.

The D0 Collaboration reported a 3.2σ deviation from the standard model (SM) prediction in the like-sign dimuon asymmetry. Assuming that new physics contributes only to B(d,s) mixing, we show that the data can be analyzed without using the theoretical calculation of ΔΓ(s), allowing for robust interpretations. We find that this framework gives a good fit to all measurements, including the recent CDF Collaboration S(ψϕ) result. The data allow universal new physics with similar contributions relative to the SM in the B(d) and B(s) systems, but favors a larger deviation in B(s) than in B(d) mixing. The general minimal flavor violation framework with flavor diagonal CP violating phases can account for the former case and remarkably even for the latter case. This observation makes it simpler to speculate about which extensions with general flavor structure may also fit the data.

Discovering Higgs boson decays to lepton jets at hadron colliders.

The Higgs boson may decay predominantly into a hidden sector, producing lepton jets instead of the standard Higgs signatures. We propose a search strategy for such a signal at hadron colliders. A promising channel is the associated production of the Higgs boson with a Z or W. The dominant background is Z or W plus QCD jets. The lepton jets can be discriminated from QCD jets by cutting on the electromagnetic fraction and charge ratio. The former is the fraction of jet energy deposited in the electromagnetic calorimeter and the latter is the ratio of energy carried by charged particles to the electromagnetic energy. We use a Monte Carlo description of detector response to estimate QCD rejection efficiencies of O(10⁻³) per jet. The expected 5σ (3σ) discovery reach in Higgs boson mass is ∼115 GeV (150 GeV) at the Tevatron with 10 fb⁻¹ of data and ∼110 GeV (130 GeV) at the 7 TeV LHC with 1 fb⁻¹.

The effect of fungicides on yeast communities associated with grape berries.

The influence of three commonly used fungicides (iprodione, pyrimethanil and fludioxonil plus cyprodinil) on the density and diversity of yeast populations present on grape berries was evaluated. At the time of harvest, the fungicide residues on grapes were below the maximum permitted levels. In general, larger yeast counts were found on the treated grapes than on the control samples. Among 23 species identified, Cryptococcus magnus, Rhodotorula glutinis and Sporidiobolus pararoseus dominated on sound grape berries. The results showed that the tested fungicides had only a minor impact on the composition of grape berry communities in comparison with the effect of weather conditions and the mode of grape berry sampling. Halo assays using filter discs loaded with fungicides were used as in vitro tests of the sensitivity of grape berry isolates. The fungicide containing pyrimethanil suppressed the growth of all basidiomycetous yeast species, while the sporadically occurring fermentative yeasts were unaffected. Fungicides with fludioxonil plus cyprodinil and iprodione as active substances showed specificity for certain species. Our results suggest that after the safety interval, the presence of fungicides has a minor impact on the composition of grape berry communities, although at the time of fungicide applications, the yeast species composition changes.

Extended connectivity in directed graphs.

An algorithm for the evaluation of the extended connectivity in directed graphs is described and discussed. The algorithm is a general purpose one for finding the number of all paths from any given node Vi in a directed graph toward all leaves that can be reached from that particular node Vi in the graph.

Smoking guns for on-shell new physics at the LHC.

Using Tevatron bounds we derive upper limits on the LHC Higgs boson production rate assuming that no beyond the standard model (BSM) particles are being produced near their mass shell. A violation of these limits would constitute a smoking gun for light BSM particles. Furthermore, we demonstrate how R(T), the ratio of the partially integrated Higgs transverse momentum distribution to the inclusive rate, can also be used as a probe of light BSM particles. This ratio is insensitive to heavy virtual effects and is approximately model independent. The perturbative expansion for R(T) has reduced renormalization scale dependence, due to a cancellation of Wilson coefficients. A deviation from the SM value implies that light BSM particles are being produced near their mass shell. A model with colored scalars is used to investigate the model independence of R(T).

Quantitative agar-invasion assay.

A new method for quantification of yeast invasion into the agar medium was developed. Classical agar-invasion assays have been the methods of choice for determination of yeast invasion, but their main disadvantage is the lack of quantification. Our new Quantitative yeast agar-invasion test allows for quantitative measurements and enables sorting strains by their degree of invasiveness. The invasion abilities were measured for 10 clinical and non-clinical Saccharomyces cerevisiae strains and a strain of Candida albicans. Finally, the correlation between the degrees of strains invasiveness and their reported virulence was observed, proposing our assay as a method for quick determination of yeast virulence potential.

Synergistic and antagonistic effects of immunomodulatory drugs on the action of antifungals against Candida glabrata and Saccharomyces cerevisiae.

Candidemia and other forms of invasive fungal infections caused by Candida glabrata and to a lesser extent Saccharomyces cerevisiae are a serious health problem, especially if their steadily rising resistance to the limited range of antifungal drugs is taken into consideration. Various drug combinations are an attractive solution to the resistance problem, and some drug combinations are already common in the clinical environment due to the nature of diseases or therapies. We tested a few of the common antifungal-immunomodulatory drug combinations and evaluated their effect on selected strains of C. glabrata and S. cerevisiae. The combinations were performed using the checkerboard microdilution assay and interpreted using the Loewe additivity model and a model based on the Bliss independence criterion. A synergistic interaction was confirmed between calcineurin inhibitors (Fk506 and cyclosporine A) and antifungals (fluconazole, itraconazole, and amphotericin B). A new antagonistic interaction between mycophenolic acid (MPA) and azole antifungals was discovered in non-resistant strains. A possible mechanism that explains this is induction of the Cdr1 efflux pump by MPA in C. glabrata ATCC 2001. The Pdr1 regulatory cascade plays a role in overall resistance to fluconazole, but it is not essential for the antagonistic interaction. This was confirmed by the Cgpdr1Δ mutant still displaying the antagonistic interaction between the drugs, although at lower concentrations of fluconazole. This antagonism calls into question the use of simultaneous therapy with MPA and azoles in the clinical environment.

On representation of proteins by star-like graphs.

To arrive at graphical representations of proteins one is confronted with number of arbitrary decisions how to assign the 20 natural amino acids to equivalent or non-equivalent sites of underlying geometrical objects used for construction of their graphical representation. Here we consider representation of proteins based on generalized star graphs, which are graphs with one vertex of maximal degree in the center to which are attached other vertices of either degree one or two. The matrix representation of proteins based on star-like graphs has an important advantage in that, while its pictorial representation depends on selected assignment of amino acids to various branches of star graph, its properties do not depend on the adopted assignment of vertices to amino acids. Hence, the derived graph invariants, devoid of artifacts associated with graphical representations of biosequences, will better reflect upon the inherent properties of protein structure. We describe several graph invariants, mostly extracted from distance matrices of star-like graphs, which can serve as protein descriptors. The approach is illustrated on strand A of the human insulin.