bluuebunny/crossref_metadata_2025_split huggingface dataset:
Staphylococcus aureus Conquers Host by Hijacking Mitochondria via PFKFB3 in Epithelial Cells
Authors: Gao Xing , Feng Shiyuan , Wu Binfeng , Liu Laizhen , Xu Yuanyuan , Zhang Jinqiu , Miao Jinfeng 
Published: May 2024

Abstract
Staphylococcus aureus persists within mammary epithelial cells for an extended duration, exploiting the host metabolic resources to facilitate replication. This study revealed a mechanism by which intracellular S aureus reprograms host metabolism, with PFKFB3 playing a crucial role in this process. Mechanistically, S aureus induced mitochondrial damage, leading to increased levels of mitochondrial reactive oxygen species and dysfunction in the electron transport chain. Moreover, S aureus shifted the balance of mitochondrial dynamics from fusion to fission, subsequently activating PINK1-PRKN–dependent mitophagy, causing loss of sirtuin 3 to stabilize hypoxic inducible factor 1α, and shifting the host metabolism toward enhanced glycolysis. The inhibition of PFKFB3 reversed the mitochondrial damage and degradation of sirtuin 3 induced by S aureus. Overall, our findings elucidate the mechanism by which S aureus reprograms host metabolism, thereby offering insights into the treatment of S aureus infection.
Interactions between the nitrogen-fixing cyanobacterium Trichodesmium and siderophore-producing cyanobacterium Synechococcus under iron limitation
Authors: Sun Xumei , Xiao Yan , Yong Chengwen , Sun Hansheng , Li Shuangqing , Huang Hailong , Jiang Haibo 
Published: May 2024

Abstract
As diazotrophic cyanobacteria of tremendous biomass, Trichodesmium continuously provide a nitrogen source for carbon-fixing cyanobacteria and drive the generation of primary productivity in marine environments. However, ocean iron deficiencies limit growth and metabolism of Trichodesmium. Recent studies have shown the co-occurrence of Trichodesmium and siderophore-producing Synechococcus in iron-deficient oceans, but whether siderophores secreted by Synechococcus can be used by Trichodesmium to adapt to iron deficiency is not clear. We constructed a mutant Synechococcus strain unable to produce siderophores to explore this issue. Synechococcus filtrates with or without siderophores were added into a Trichodesmium microbial consortium consisting of Trichodesmium erythraeum IMS 101 as the dominant microbe with chronic iron deficiency. By analyzing the physiological phenotype, metagenome, and metatranscriptome, we investigated the interactions between the nitrogen-fixing cyanobacterium Tricodesmium and siderophore-producing cyanobacterium Synechococcus under conditions of iron deficiency. The results indicated that siderophores secreted by Synechococcus are likely to chelate with free iron in the culture medium of the Trichodesmium consortium, reducing the concentration of bioavailable iron and posing greater challenges to the absorption of iron by Trichodesmium. These findings revealed the characteristics of iron-competitive utilization between diazotrophic cyanobacteria and siderophore-producing cyanobacteria, as well as potential interactions, and provide a scientific basis for understanding the regulatory effects of nutrient limitation on marine primary productivity.
The role and mechanism of Bacillus megaterium strain A14 in inhibiting the cadmium uptake by peanut plants in acidic red soil
Authors: Yao Xiangzhi , Ren Jingyu , Fang Lirong , Sun Kai , He Wei 
Published: May 2024

Abstract

Aims
This study explores the potential of cadmium (Cd)-resistant bacteria, specifically Bacillus megaterium A14, to decrease Cd accumulation in peanuts, a crop susceptible to metal uptake from contaminated soils, by understanding the bacterium’s impact on plant Cd absorption mechanisms.

Methods and Results
Through pot experiments, we observed that A14 inoculation significantly increased peanut biomass under Cd stress conditions, primarily by immobilizing the metal and reducing its bioavailability. The bacterium effectively changed the distribution of Cd, with a notable 46.53% reduction in the exchangeable fraction, which in turn limited the expression of genes related to Cd transport in peanuts. Additionally, A14 enhanced the plant’s antioxidant response, improving its tolerance to stress. Microbial analysis through 16S sequencing demonstrated that A14 inoculation altered the peanut rhizosphere, particularly by increasing populations of Firmicutes and Proteobacteria, which play crucial roles in soil remediation from heavy metals.

Conclusion
The A14 strain effectively counters Cd toxicity in peanuts, promoting growth through soil Cd sequestration, root barrier biofilm formation, antioxidant system enhancement, suppression of Cd transport genes, and facilitation of Cd-remediating microorganisms.
The role of mechanotransduction in tendon
Authors: Nakamichi Ryo , Asahara Hiroshi 
Published: May 2024

Abstract
Tendons play an important role in the maintenance of motor function by connecting muscles and bones and transmitting forces. Particularly, the role of mechanical stress has primarily focused on the key mechanism of tendon homeostasis, with much research on this topic. With the recent development of molecular biological techniques, the mechanisms of mechanical stress sensing and signal transduction have been gradually elucidated with the identification of mechanosensor in tendon cells and the master regulator in tendon development. This review provides a comprehensive overview of the structure and function of tendon tissue, including the role for physical performance and the detailed mechanism of mechanotransduction in its regulation. An important lesson is that the role of mechanotransduction in tendon tissue is only partially clarified, indicating the complexity of the mechanisms of motor function and fueling increasing interest in uncovering these mechanisms.
Numerical simulation of acoustic wave propagation by finite element method based on optimized matrices
Authors: Li Lei , Wen Xiaotao , Tang Chao , Zhou Dongyong , Zhang Songgen 
Published: May 2024

Abstract
Based on the wave equation, scholars worldwide have proposed various methods for numerical simulation of seismic wave propagation in underground and surface media. The finite element method offers a unique advantage in accurately depicting the undulating surfaces and steep palaeoburial hills with its triangular mesh. However, its computational efficiency cannot meet our needs while lots of memory is occupied. To address this, we optimized and improved the critical mass matrix and stiffness matrix of spatial discretization of the acoustic wave equation. We first fully utilized the flexibility of triangles to fit different undulating terrains, then reorganized the numbering of triangle mesh nodes and elements to reduce the bandwidth of the matrices, and then used optimized matrices for solving. The Crank–Nicolson scheme was adopted for time discretization, and the perfectly matched layer condition was utilized to eliminate false waves reflected from the boundary. The numerical experiments with simple and significant fluctuation models proved that this method can accelerate computational efficiency while ensuring computational accuracy.
Combination of fuzzy control and reinforcement learning for wind turbine pitch control
Authors: Sierra-Garcia J Enrique , Santos Matilde 
Published: May 2024

Abstract
The generation of the pitch control signal in a wind turbine (WT) is not straightforward due to the nonlinear dynamics of the system and the coupling of its internal variables; in addition, they are subjected to the uncertainty that comes from the random nature of the wind. Fuzzy logic has proved useful in applications with changing system parameters or where uncertainty is relevant as in this one, but the tuning of the fuzzy logic controller (FLC) parameters is neither straightforward nor an easy task. On the other hand, reinforcement learning (RL) allows systems to automatically learn, and this capability can be exploited to tune the FLC. In this work, a WT pitch control architecture that uses RL to tune the membership functions and scale the output of a fuzzy controller is proposed. The RL strategy calculates the fuzzy controller gains in order to reduce the output power error of the WT according to the wind speed. Different reward mechanisms based on the output power error have been considered. Simulation results with different wind profiles show that this architecture performs better (123.7 W) in terms of power errors than an FLC without RL (133.2 W) or a simpler PID (208.8 W). Even more, it provides a smooth response and outperforms other hybrid controllers such as RL-PID and radial basis function neural network control.
Płonka adjunction
Authors: Climent Vidal J , Cosme Llópez E 
Published: May 2024

Abstract
Let $\varSigma $ be a signature without $0$-ary operation symbols and $\textsf{Sl}$ the category of semilattices. Then, after defining and investigating the categories $\int ^{\textsf{Sl}}\textrm{Isys}_{\varSigma }$, of inductive systems of $\varSigma $-algebras over all semilattices, which are ordered pairs $\boldsymbol{\mathscr{A}}= (\textbf{I},\mathscr{A})$ where $\textbf{I}$ is a semilattice and $\mathscr{A}$ an inductive system of $\varSigma $-algebras relative to $\textbf{I}$, and PłAlg$(\varSigma )$, of Płonka $\varSigma $-algebras, which are ordered pairs $(\textbf{A},D)$ where $\textbf{A}$ is a $\varSigma $-algebra and $D$ a Płonka operator for $\textbf{A}$, i.e. in the traditional terminology, a partition function for $\textbf{A}$, we prove the main result of the paper: There exists an adjunction, which we call the Płonka adjunction, from $\int ^{\textsf{Sl}}\textrm{Isys}_{\varSigma }$ to PłAlg$(\varSigma )$.
A new species of the endemic Tarsomys clade (Muridae, Rodentia) from eastern Mindanao Island, Philippines
Authors: Rickart Eric A , Rowsey Dakota M , Ibañez Jayson C , Quidlat Roselyn S , Balete Danilo S , Heaney Lawrence R 
Published: May 2024

Abstract
Based on molecular and morphological evidence, we describe a new species of murine rodent from Mt. Kampalili in easternmost Mindanao Island, Philippines. It is the third known species of Tarsomys, a genus endemic to Mindanao. The new species differs from congeners (T. apoensis and T. echinatus) in having smaller body size, shorter tail, smaller hind feet, soft and dense pelage of darker color, smaller skull with a broader zygomatic plate, shorter incisive foramina, and longer auditory bullae. The new species belongs to the “Tarsomys clade” of tribe Rattini that has diversified principally on Mindanao where, in addition to the 3 species of Tarsomys, it is represented by 2 species of Limnomys and 1 species of Baletemys. The Tarsomys clade also includes the Rattus everetti complex which is widespread throughout the oceanic portion of the Philippines and likely consists of at least 4 species. Molecular phylogenetic analysis strongly supports a sister relationship between this new species and T. apoensis, which diverged approximately 1.0 to 1.75 Ma. The phylogenetic position, morphological distinctness, and relatively ancient persistence of this species support within-island diversification as the most substantial contributor to existing species richness of small mammals in the Philippines.
A review ofMusca sorbens(Diptera: Muscidae) andMusca domesticabehavior and responses to chemical and visual cues
Authors: Jones Robert T , Fagbohun Ifeoluwa K , Spencer Freya I , Chen-Hussey Vanessa , Paris Laura A , Logan James G , Hiscox Alexandra 
Published: May 2024

AbstractMusca flies (Diptera: Muscidae) have been found culpable in the mechanical transmission of several infectious agents, including viruses, bacteria, protozoans, and helminths, particularly in low-income settings in tropical regions. In large numbers, these flies can negatively impact the health of communities and their livestock through the transmission of pathogens. In some parts of the world, Musca sorbens is of particular importance because it has been linked with the transmission of trachoma, a leading cause of preventable and irreversible blindness or visual impairment caused by Chlamydia trachomatis, but the contribution these flies make to trachoma transmission has not been quantified and even less is known for other pathogens. Current tools for control and monitoring of house flies remain fairly rudimentary and have focused on the use of environmental management, insecticides, traps, and sticky papers. Given that the behaviors of flies are triggered by chemical cues from their environment, monitoring approaches may be improved by focusing on those activities that are associated with nuisance behaviors or with potential pathogen transmission, and there are opportunities to improve fly control by exploiting behaviors toward semiochemicals that act as attractants or repellents. We review current knowledge on the odor and visual cues that affect the behavior of M. sorbens and Musca domestica, with the aim of better understanding how these can be exploited to support disease monitoring and guide the development of more effective control strategies.
Wire-tracking of bent electric cable using X-ray CT and deep active learning
Authors: Hoshina Yutaka , Yamamoto Takuma , Uemura Shigeaki 
Published: May 2024

Abstract
We have demonstrated a quantification of all component wires in a bent electric cable, which is necessary for discussion of cable products in actual use cases. Quantification became possible for the first time because of our new technologies for image analysis of bent cables. In this paper, various image analysis techniques to detect all wire tracks in a bent cable are demonstrated. Unique cross-sectional image construction and deep active learning schemes are the most important items in this study. These methods allow us to know the actual state of cables under external loads, which makes it possible to elucidate the mechanisms of various phenomena related to cables in the field and further improve the quality of cable products.
Beyond floral initiation: the role of flower bud dormancy in flowering time control of annual plants
Authors: Penfield Steven 
Published: May 2024

Abstract
The phenology of temperate perennials, including the timing of vegetative growth and flowering, is well known to be controlled by seasonal dormancy cycles. Dormant structures are known as buds and have specialized covering structures, symplastic isolation from the plant, and often autonomous stores of carbon and nitrogen reserves. In contrast, in annual plants, our current understanding of the control of the timing of flowering focuses on the mechanisms affecting floral initiation, the transition from a vegetative apical meristem to a inflorescence meristem producing flower primordia in place of leaves. Recently we revealed that annual crops in Brassicaceae exhibit chilling-responsive growth control in a manner closely resembling bud dormancy breakage in perennial species. Here I discuss evidence that vernalization in autumn is widespread and further discuss its role in inducing flower bud set prior to winter. I also review evidence that flower bud dormancy has a more widespread role in annual plant flowering time control than previously appreciated.
Exploring natural genetic diversity in a bread wheat multi-founder population: dual imaging of photosynthesis and stomatal kinetics
Authors: Faralli Michele , Mellers Greg , Wall Shellie , Vialet-Chabrand Silvere , Forget Guillaume , Galle Alexander , Van Rie Jeron , Gardner Keith A , Ober Eric S , Cockram James , Lawson Tracy 
Published: May 2024

Abstract
Recent research has shown that optimizing photosynthetic and stomatal traits holds promise for improved crop performance. However, standard phenotyping tools such as gas exchange systems have limited throughput. In this work, a novel approach based on a bespoke gas exchange chamber allowing combined measurement of the quantum yield of PSII (Fq'/Fm'), with an estimation of stomatal conductance via thermal imaging was used to phenotype a range of bread wheat (Triticum aestivum L.) genotypes. Using the dual-imaging methods and traditional approaches, we found broad and significant variation in key traits, including photosynthetic CO2 uptake at saturating light and ambient CO2 concentration (Asat), photosynthetic CO2 uptake at saturating light and elevated CO2 concentration (Amax), the maximum velocity of Rubisco for carboxylation (Vcmax), time for stomatal opening (Ki), and leaf evaporative cooling. Anatomical analysis revealed significant variation in flag leaf adaxial stomatal density. Associations between traits highlighted significant relationships between leaf evaporative cooling, leaf stomatal conductance, and Fq'/Fm', highlighting the importance of stomatal conductance and stomatal rapidity in maintaining optimal leaf temperature for photosynthesis in wheat. Additionally, gsmin and gsmax were positively associated, indicating that potential combinations of preferable traits (i.e. inherently high gsmax, low Ki, and maintained leaf evaporative cooling) are present in wheat. This work highlights the effectiveness of thermal imaging in screening dynamic gs in a panel of wheat genotypes. The wide phenotypic variation observed suggested the presence of exploitable genetic variability in bread wheat for dynamic stomatal conductance traits and photosynthetic capacity for targeted optimization within future breeding programmes.
Turmeric and curcumin as adjuncts in controlling Helicobacter pylori-associated diseases: a narrative review
Authors: Boyanova Lyudmila , Medeiros José , Yordanov Daniel , Gergova Raina , Markovska Rumyana 
Published: May 2024

Abstract
Non-antibiotic adjuncts may improve Helicobacter pylori infection control. Our aim was to emphasize curcumin benefits in controlling H. pylori infection. We discussed publications in English mostly published since 2020 using keyword search. Curcumin is the main bioactive substance in turmeric. Curcumin inhibited H. pylori growth, urease activity, three cag genes, and biofilms through dose- and strain-dependent activities. Curcumin also displayed numerous anticancer activities such as apoptosis induction, anti-inflammatory and anti-angiogenic effects, caspase-3 upregulation, Bax protein enhancement, p53 gene activation, and chemosensitization. Supplementing triple regimens, the agent increased H. pylori eradication success in three Iranian studies. Bioavailability was improved by liposomal preparations, lipid conjugates, electrospray-encapsulation, and nano-complexation with proteins. The agent was safe at doses of 0.5–&gt;4 g daily, the most common (in 16% of the users) adverse effect being gastrointestinal upset. Notably, curcumin favorably influences the intestinal microbiota and inhibits Clostridioides difficile. Previous reports showed the inhibitory effect of curcumin on H pylori growth. Curcumin may become an additive in the therapy of H. pylori infection, an adjunct for gastric cancer control, and an agent beneficial to the intestinal microbiota. Further examination is necessary to determine its optimal dosage, synergy with antibiotics, supplementation to various eradication regimens, and prophylactic potential.
The thesan project: connecting ionized bubble sizes to their local environments during the Epoch of Reionization
Authors: Neyer Meredith , Smith Aaron , Kannan Rahul , Vogelsberger Mark , Garaldi Enrico , Galárraga-Espinosa Daniela , Borrow Josh , Hernquist Lars , Pakmor Rüdiger , Springel Volker 
Published: May 2024

ABSTRACT
An important characteristic of cosmic hydrogen reionization is the growth of ionized gas bubbles surrounding early luminous objects. Ionized bubble sizes are beginning to be probed using Lyman α emission from high-redshift galaxies, and will also be probed by upcoming 21 cm maps. We present results from a study of bubble sizes using the state-of-the-art thesan radiation-hydrodynamics simulation suite, which self-consistently models radiation transport and realistic galaxy formation. We employ the mean free path method and track the evolution of the effective ionized bubble size at each point (Reff) throughout the Epoch of Reionization. We show that there is a slow growth period for regions ionized early, but a rapid ‘flash ionization’ process for regions ionized later as they immediately enter a large, pre-existing bubble. We also find that bright sources are preferentially in larger bubbles, and find consistency with recent observational constraints at z ≳ 9, but tension with idealized Lyman α damping-wing models at z ≈ 7. We find that high-overdensity regions have larger characteristic bubble sizes, but the correlation decreases as reionization progresses, likely due to runaway formation of large percolated bubbles. Finally, we compare the redshift at which a region transitions from neutral to ionized (zreion) with the time it takes to reach a given bubble size and conclude that zreion is a reasonable local probe of small-scale bubble size statistics ($R_\text{eff} \lesssim 1\, \rm {cMpc}$). However, for larger bubbles, the correspondence between zreion and size statistics weakens due to the time delay between the onset of reionization and the expansion of large bubbles, particularly at high redshifts.
Unveiling the complex circumgalactic medium: a comparative study of merging and non-interacting galaxy groups
Authors: Fernández-Figueroa Antonia , Kacprzak Glenn G , Nielsen Nikole M , Barone Tania M , Nateghi Hasti , Sameer  , Fisher Deanne B , Chu Bronwyn Reichardt 
Published: May 2024

ABSTRACT
While most galaxies live in group environments where they undergo an accelerated evolution, the characteristics of their circumgalactic medium (CGM) remain uncertain. We present an analysis of the CGM of two galaxy groups in different stages of interaction: (G1) a close pair of galaxies (z = 0.043) separated by 87 kpc that do not show signs of interactions and (G2) four merging galaxies (z = 0.098) separated by 10 kpc. We present spatially resolved Keck/Keck Cosmic Web Imager galaxy observations and Hubble Space Telescope (HST)/COS quasar spectra (G1 at 48 kpc and G2 at 100 kpc away) to quantify both the resolved galaxy and CGM properties in these two different group environments. G1 contains two typical star-forming galaxies with no evidence of strong outflows. G2 contains two star-forming, one post-starburst and one quiescent galaxy. Both groups have a range of CGM-detected metal lines (H i, C ii, Si ii, Si iii, N v, and O vi). Despite G2 being twice as far from the quasar, G2 has $\log (N({{{\rm H}{\small I}}})/{\rm cm}^{-2})=17.33$, compared to $\log (N({{{\rm H}{\small I}}})/{\rm cm}^{-2})=16.43$ for G1. We find that the CGM of the merging galaxies (G2) is more kinematically complex, is in a higher ionization state, spans a wider range of metallicities and column densities, has smaller cloud sizes, and is inconsistent with the simple superposition model that seems to match well with G1. We conclude that the complexity of the CGM in merging galaxies surpasses that of not strongly interacting galaxies, suggesting that mergers play a significant role in shaping the intricate structure of the CGM.