bluuebunny/crossref_metadata_2025_split huggingface dataset:
FYB1-targeted modulation of CAPG promotes AML progression
Authors: Liu Wenyuan , Yin Hongli , Xie Zhiwei , Fang Fang , Chu Jinhua , Yang Linhai , Huang Lingling , Tu Songji , Cai Huaju , Wu Zhengyu , Wei Anbang , Liu Chengzhu , Hong Yi , Tian Xiaotong , Cheng Yan , Pan Jian , Wang Ningling , Zhang Kunlong 
Published: May 2024

Abstract
Acute myeloid leukemia (AML) is a rare and heterogeneous disease. Over the past few decades, patient prognosis has improved with continuous improvements in treatment, but outcomes for some patients with primary drug resistance or relapse after treatment remain poor. Additional therapies to improve outcomes for these patients are urgently needed. FYB1 expression differs substantially between AML tissues and normal tissues. High FYB1 expression is correlated with poorer overall survival (OS), indicating that FYB1 may regulate AML progression. Therefore, understanding the effect of FYB1 on AML could improve the success rate of therapeutic approaches and prognosis for patients with AML. In this study, through analysis of large databases and both in vivo and in vitro experiments, we assessed the expression and role of FYB1 in AML and the relationship of FYB with patient prognosis. Downstream targets of the FYB1 gene were analyzed by RNA-seq. Database mining and in vitro experiments were used to further clarify the effect of the downstream target gelsolin-like actin-capping protein (CAPG) on AML cells and its relationship with patient prognosis. FYB1 expression was significantly higher in AML tissue and corresponded with a poor prognosis. FYB1 knockdown inhibited AML cell proliferation, promoted cell apoptosis, reduced cell adhesion capability and significantly reduced the tumor formation rate in mice. In addition, FYB1 knockdown induced a notable decrease in CAPG expression. The suppression of CAPG significantly inhibited cell proliferation and increased cell apoptosis. The conclusions of this study underscore the pivotal role of the FYB1/CAPG axis in promoting AML. We propose that the FYB1/CAPG axis could serve as a new thread in the development of therapeutic strategies for AML.
New exact optical soliton solutions of the derivative nonlinear Schrödinger equation family
Authors: Aydemir Tuğba 
Published: May 2024

AbstractIn this study, we use a systematic approach named the generalized unified method (GUM) to construct the general exact solutions of the derivative nonlinear Schrödinger (DNLS) family that also includes perturbed terms, which are the Kaup–Newell equation, the Chen–Lee–Liu equation, and the Gerdjikov–Ivanov equation. The GUM provides more general exact solutions with free parameters for nonlinear partial differential equations such that some solutions obtained by different exact solution methods, including the hyperbolic function solutions, the trigonometric function solutions, and the exponential solutions, are derived from these solutions by giving special values to these free parameters. Additionally, the used method reduces a large number of calculations compared to other exact solution methods, enabling computations to be made in a short, effortless, and elegant way. We investigate the DNLS family in this work because of its extensive applications in nonlinear optics. Particularly, the obtained optical soliton solutions of the DNLS family are useful for describing waves in optics and facilitating the interpretation of the propagation of solitons through optical fibers. Furthermore, this work not only contributes significantly to the advancement of soliton dynamics and their applications in photonic systems but also be productively used for more equations that occur in mathematical physics and engineering problems. Finally, 2D and 3D graphs of some derived solutions are plotted to illustrate behaviors of optical soliton.
Optical fiber fronthaul segment in open radio access 5G networks: enhanced performance utilizing AFBG
Authors: Mustafa Fathy M. , Kholidy Hisham A. , Sayed Ahmed F. , Aly Moustafa H. , Elmisery F. A. 
Published: May 2024

AbstractIn open Radio access network (oRAN) 5G networks, a fronthaul segment between virtual Distribution unit (vDU) edge cloud and other external Remote radio units (RRUs) sites is very important to transmit high data rate to achieve 5G requirements. Performance parameters such as Quality factor (Q-factor) and Bit error rate (BER) of an optical fiber fronthaul segment are the main important parameters to enhance latency and bit rate. An Apodized fiber bragg grating (AFBG) is utilized with different apodization profiles to optimize linewidth of an optical signal leading to enhance performance. The designed AFBG is used with a data rate of 25 Gb/s optical Ethernet module at the vDU edge cloud to optimize the linewidth of the optical signal between the vDU and the RRU in the fronthaul optical fiber segment. The AFBG is investigated at different connections pre, post, and symmetrical connections, where different apodization functions are used in the AFBG design. It is found that the best results for the maximum Q-factor and minimum BER are 9.2 and 2.72e− 21, respectively, obtained from uniform function in the symmetrical connection. Finally, the proposed model linewidth is 0.408 nm, which is better than 1.56 nm that is evaluated by related work.
Broadband dispersion compensation and high birefringence photonic crystal fiber for CWDM/DWDM networks
Authors: Allam Mohammed A. , Ali Tamer A. , Rafat Nadia H. 
Published: May 2024

AbstractIn this study, we propose a new design based on photonic crystal fibers (PCFs) for broadband dispersion compensation in telecommunication networks. The proposed design has a hexagonal structure arrangement of air-holes rings of different diameters between the silica core and the cladding. The PCF properties like effective area, nonlinearity, dispersion slope, confinement loss, and birefringence are reported and discussed. For the best performance we present three designs A, B and C. Simulation results show that the three designs cover the six-telecommunication optical bands O-, E-, S-, C-, L- and U- bands (wavelengths ranging from 1260 to 1675 nm). Design A achieves a large negative dispersion value of about − 1716 ps/(nm.km) with relative dispersion slope equals to that of conventional single-mode optical fibers (SMFs) of about 0.0036 nm−1, which makes it very suitable for long-haul DWDM transmission systems. With a little modification in the core, designs B and C achieve much higher confinement ability and achieve a very large birefringence value for polarization mode dispersion and sensing applications. Design C is engineered to have exact opposite dispersion of SMF with zero dispersion at the wavelength 1310 nm, which makes it a promising design in CWDM transmission system. The numerical values have been investigated using the full vector finite element method.
Observations of root hair patterning in soils: Insights from synchrotron-based X-ray computed microtomography
Authors: Duddek Patrick , Papritz Andreas , Ahmed Mutez Ali , Lovric Goran , Carminati Andrea 
Published: May 2024

Abstract
Background And Aims
Root hair emergence is affected by heterogeneities in water availability in the growth medium. Root hairs preferentially emerge into air, whereas their emergence into water is inhibited. Yet, these results were based either on destructive methods or on roots grown on an agar-air interface. Additionally, there is a lack of knowledge about the spatial distribution of root hairs as hairs elongate radially across the rhizosphere. Therefore, root hair growth in soils remains largely unexplored.

Methods
Maize (Zea Mays L.) plants were grown in microcosms which were scanned with a synchrotron-based X-ray $$\mu $$
μ
CT. The distribution of root hairs along the root epidermis and radially across the rhizosphere (i.e. as function of distance from the root epidermis) was analysed using spatial point pattern analysis.

Results
While hairs emerged randomly in air-filled pores, their emergence was inhibited where the root was in contact with the soil matrix. As hairs elongated radially into the soil, they were preferentially located in the close proximity of soil particles. In maize, we rarely observed root hairs penetrating into soil aggregates.

Conclusion
We conclude that in maize, root hairs grow in air-filled pores at the root-soil interface, where the flow of nutrients and water is impeded. Across the rhizosphere, hairs establish contact to the soil by growing in the proximity to soil particles. The effect of hairs on uptake processes, plant anchorage and rhizosheath formation might be limited (in maize) as they hardly penetrate into soil aggregates.
Accurate photosynthetic parameter estimation at low stomatal conductance: effects of cuticular conductance and instrumental noise
Authors: Hussain Syed Bilal , Stinziano Joseph , Pierre Myrtho O. , Vincent Christopher 
Published: May 2024

AbstractAccurate estimation of photosynthetic parameters is essential for understanding plant physiological limitations and responses to environmental factors from the leaf to the global scale. Gas exchange is a useful tool to measure responses of net CO2 assimilation (A) to internal CO2 concentration (Ci), a necessary step in estimating photosynthetic parameters including the maximum rate of carboxylation (Vcmax) and the electron transport rate (Jmax). However, species and environmental conditions of low stomatal conductance (gsw) reduce the signal-to-noise ratio of gas exchange, challenging estimations of Ci. Previous works showed that not considering cuticular conductance to water (gcw) can lead to significant errors in estimating Ci, because it has a different effect on total conductance to CO2 (gtc) than does gsw. Here we present a systematic assessment of the need for incorporating gcw into Ci estimates. In this study we modeled the effect of gcw and of instrumental noise and quantified these effects on photosynthetic parameters in the cases of four species with varying gsw and gcw, measured using steady-state and constant ramping techniques, like the rapid A/Ci response method. We show that not accounting for gcw quantitatively influences Ci and the resulting Vcmax and Jmax, particularly when gcw exceeds 7% of the total conductance to water. The influence of gcw was not limited to low gsw species, highlighting the importance of species-specific knowledge before assessing A/Ci curves. Furthermore, at low gsw instrumental noise can affect Ci estimation, but the effect of instrumental noise can be minimized using constant-ramping rather than steady-state techniques. By incorporating these considerations, more precise measurements and interpretations of photosynthetic parameters can be obtained in a broader range of species and environmental conditions.
Categoricity Problem for LP and K3
Authors: Tabakci Selcuk Kaan 
Published: May 2024

AbstractEven though the strong relationship between proof-theoretic and model-theoretic notions in one’s logical theory can be shown by soundness and completeness proofs, whether we can define the model-theoretic notions by means of the inferences in a proof system is not at all trivial. For instance, provable inferences in a proof system of classical logic in the logical framework do not determine its intended models as shown by Carnap (Formalization of logic, Harvard University Press, Cambridge, 1943), i.e., there are non-Boolean models that satisfy its provable inferences. In the literature, this is known as the Categoricity problem or Carnap’s problem. In this paper, we will discuss the Categoricity problem (or Carnap’s problem) for three-valued logics K3 and LP. We will provide three different restrictions on admissible models that will deliver us categoricity results, some of which draw from the solutions provided for the Categoricity problem for classical logic in Belnap and Massey (Stud Log 49(1):67–82, 1990) and Bonnay and Westerståhl (Erkenntis 81(4):721–739, 2016). We will then argue that two of those solutions are philosophically well-motivated: (1) restricting the admissible models where negation is interpreted as a Strong Kleene truth-function, and (2) restricting the admissible models where a complex formula is assigned the third value when its immediate subformulas are assigned the third value.
Propositional Type Theory of Indeterminacy
Authors: Aranda Víctor , Martins Manuel , Manzano María 
Published: May 2024

AbstractThe aim of this paper is to define a partial Propositional Type Theory. Our system is partial in a double sense: the hierarchy of (propositional) types contains partial functions and some expressions of the language, including formulas, may be undefined. The specific interpretation we give to the undefined value is that of Kleene’s strong logic of indeterminacy. We present a semantics for the new system and prove that every element of any domain of the hierarchy has a name in the object language. Finally, we provide a proof system and a (constructive) proof of completeness.
Synopsis of the species of Ortholinea Shulman, 1962 (Cnidaria: Myxosporea: Ortholineidae)
Authors: Rangel Luis F. , Rocha Sónia , Santos Maria J. 
Published: May 2024

AbstractA synopsis of Ortholinea Shulman, 1962 (Cnidaria: Myxosporea: Ortholineidae) is presented and identifies 26 nominal species presently allocated within this genus. Species morphological and morphometric features, tissue tropism, type-host, and type-locality are provided from original descriptions. Data from subsequent redescriptions and reports is also given. Accession numbers to sequences deposited in GenBank are indicated when available, and the myxospores were redrawn based on original descriptions. The information gathered shows that Ortholinea infect a wide taxonomic variety of freshwater and marine fish. Nonetheless, the broad host specificity reported for several species is not fully supported by morphological descriptions and requires molecular corroboration. The members of this genus are coelozoic and mainly parasitize the urinary system, with few species occurring in the gallbladder. Ortholinea visakhapatnamensis is the only exception, being histozoic in the visceral peritoneum. Molecular data of the small subunit ribosomal RNA gene (SSU rDNA) is available for about one third of Ortholinea species, with genetic interspecific variation ranging between 1.65% and 29.1%. Phylogenetic analyses reveal Ortholinea to be polyphyletic, with available SSU rDNA sequences clustering within the subclades of the highly heterogenous freshwater urinary clade of the oligochaete-infecting lineage. The life cycles of two Ortholinea species have been clarified based on molecular inferences and identify triactinomyxon actinospores as counterparts, and marine oligochaetes of the family Naididae as permissive hosts to this genus.
Nomenclatural stability and the longevity of helminth species names
Authors: Poulin Robert , Presswell Bronwen 
Published: May 2024

AbstractAlthough most Latin binomial names of species are valid, many are eventually unaccepted when they are found to be synonyms of previously described species, or superseded by a new combination when the species they denote are moved to a different genus. What proportion of parasite species names become unaccepted over time, and how long does it take for incorrect names to become unaccepted? Here, we address these questions using a dataset comprising thousands of species names of parasitic helminths from four higher taxa (Acanthocephala, Nematoda, Cestoda, and Trematoda). Overall, among species names proposed in the past two-and-a-half centuries, nearly one-third have since been unaccepted, the most common reason being that they have been superseded by a new combination. A greater proportion of older names (proposed pre-1950) have since been unaccepted compared to names proposed more recently, however most taxonomic acts leading to species names being unaccepted (through either synonymy or reclassification) occurred in the past few decades. Overall, the average longevity of helminth species names that are currently unaccepted was 29 years; although many remained in use for over 100 years, about 50% of the total were invalidated within 20 years of first being proposed. The patterns observed were roughly the same for all four higher helminth taxa considered here. Our results provide a quantitative illustration of the self-correcting nature of parasite taxonomy, and can also help to calibrate future estimates of total parasite biodiversity.
Rapid production of abundant transgenic pomegranate (Punica granatum) hairy roots
Authors: Singh Sailendra , Yaritz Uri , Ramer Nadav , Holland Doron , Amir Rachel , Tian Li 
Published: May 2024

AbstractPomegranates (Punica granatum) are known for their high levels of health-beneficial compounds that belong to the hydrolyzable tannin (HT) and flavonoid families. However, a significant gap in our understanding exists of the biosynthetic and regulatory genes related to the accumulation of these compounds. To this end, the induction and transformation of hairy roots presents an exciting opportunity to decipher genetically the functions of candidate genes involved in the HT and flavonoid metabolism. This study aims at improving methods for rapid and abundant hairy root production from pomegranate explants by increasing seed germination rates and expediting the attainment of requisite biomass for multifaceted analyses. We found that treating seeds with sandpaper and concentrated sulfuric acid significantly enhanced their germination rates. Interestingly, no correlation between seed-coat texture and seed germination rate was observed among the 20 pomegranate accessions evaluated in this study. Notably, transferring hairy roots from agar plates to soil promoted rapid root biomass growth compared to maintaining them on agar plates. Root biomass as well as levels of gallic acid (a precursor for HT biosynthesis) and punicalagins (the major HTs in roots) across 15 pomegranate accessions were also analyzed. Three of these accessions exhibited higher seed germination percentages along with augmented biomass and elevated punicalagin levels. These pomegranate accessions emerge as promising germplasm for future genetic transformation and functional genomics studies.
Demonstration and Analysis of Conditions to Obtain a High Strength Inconel 625 to Stainless Steel 304L Interface by Directed Energy Deposition
Authors: Stair A. J. , Webler Bryan A. , Beuth Jack L. , de Boer Maarten P. 
Published: May 2024

AbstractFunctional grading (FG) is often used to bond dissimilar metals. However, that approach is complicated from a manufacturing perspective, and the associated challenges can outweigh the benefits of FG. Here, we investigate a directly bonded interface by transitioning from stainless steel 304L (SS304L) to Inconel 625 (IN625) using powder-feed directed energy deposition with a laser beam energy source (DED-LB). Both cracking and the presence of carbide phases have been reported in this multi-materials system. Conditions that unambiguously achieve crack-free joints have not yet been established. With DED-LB, we consistently observe solidification cracking in melt pools containing > 50 wt pct SS304L, while no cracking is observed in melt pools with < 40 wt pct SS304L. Variations on the most up-to-date solidification cracking model are applied to gain insight into the cracking dependencies. Parameters that give rise to defect-free single layers also enable defect-free multilayer prints despite the additional thermal cycling. Upon printing and testing full-sized ASTM E8 tensile specimens, the interface is sufficiently strong that failure occurs solely within the SS304L region, indicating a joint strength of > 650 MPa. Thus, a simple method to attain high strength joints for these dissimilar metal alloys is demonstrated.
Concentration-Dependent Effects of Boric Acid on Osteogenic Differentiation of Vascular Smooth Muscle Cells
Authors: Al Khalif Osama , Sezer Gülay 
Published: May 2024

Abstract
Vascular calcification can be triggered by oxidative stress and inflammation. Although boron possesses antioxidant and anti-inflammatory properties, its effect on osteogenic differentiation of vascular smooth muscle cells (VSMCs) has yet to be examined. Therefore, we aimed to investigate the effect of boric acid (BA), the main form of boron in body fluids, on the osteogenic differentiation of VSMCs. Following the isolation of VSMCs, the effects of BA on cell proliferation were determined by MTT. The impact of various BA concentrations on the osteogenic differentiation of VSMCs was evaluated by Alizarin red S and alkaline phosphatase (ALP) stainings and the o-cresolphthalein complexone method. In addition, mRNA expressions of osteogenic-related (Runx2 and ALP) and antioxidant system-related genes (Nrf2 and Nqo1) were detected using qRT-PCR analysis. BA treatments did not alter the proliferation of VSMCs. Osteogenic differentiation of VSMCs treated with 100 and 500 μM BA (moderate and high plasma concentrations) was no different from untreated cells. However, increased osteogenic differentiation was observed with the lowest blood level (2 μM) and extremely high BA concentration (1000 μM). Consistent with these results, mRNA expression of Runx2 increased with 2 and 1000 μM BA treatments, while Nrf2 and Nqo1 expressions increased significantly with 100 and 500 μM BA. BA has different effects on VSMCs at various concentrations. The low blood level and too high BA concentration appear detrimental as they increase the osteogenic differentiation of VSMCs in vitro. We propose to investigate BA’s effects and mechanism of action on vascular calcification in vivo.
Modeling and therapeutic targeting of t(8;21) AML with/without TP53 deficiency
Authors: Zhang Wenyu , Li Jingmei , Yamamoto Keita , Goyama Susumu 
Published: May 2024

AbstractAcute myeloid leukemia (AML) with t(8;21)(q22;q22.1);RUNX1-ETO is one of the most common subtypes of AML. Although t(8;21) AML has been classified as favorable-risk, only about half of patients are cured with current therapies. Several genetic abnormalities, including TP53 mutations and deletions, negatively impact survival in t(8;21) AML. In this study, we established Cas9+ mouse models of t(8;21) AML with intact or deficient Tpr53 (a mouse homolog of TP53) using a retrovirus-mediated gene transfer and transplantation system. Trp53 deficiency accelerates the in vivo development of AML driven by RUNX1-ETO9a, a short isoform of RUNX1-ETO with strong leukemogenic potential. Trp53 deficiency also confers resistance to genetic depletion of RUNX1 and a TP53-activating drug in t(8;21) AML. However, Trp53-deficient t(8;21) AML cells were still sensitive to several drugs such as dexamethasone. Cas9+ RUNX1-ETO9a cells with/without Trp53 deficiency can produce AML in vivo, can be cultured in vitro for several weeks, and allow efficient gene depletion using the CRISPR/Cas9 system, providing useful tools to advance our understanding of t(8;21) AML.