Miracle-dz/UniFAR-FTUs huggingface dataset:
Plant Growth Promoting Actinobacteria, the Most Promising Candidates as Bioinoculants?

Plant Growth Promoting Bacteria (PGPBs) are a strong ally for sustainable agriculture. They offer an interesting alternative to chemical fertilizers and pesticides. Many microorganisms have been widely documented for their PGPR traits, but actinobacterial microbes which have been increasingly documented only these two past decades for their ability to promote plant growth. Their action on plant health and yield could be either direct, indirect or both. This review will cover articles that have been published on Actinobacteria PGP traits, highlighting the involved mechanisms to reveal their strong potential as microbial fertilizers. Possible strategies to encourage Actinobacteria use as bioinoculants are also discussed.
Comparative Safety and Efficacy of Eight Antithrombotic Regimens for Patients With Atrial Fibrillation Undergoing Percutaneous Coronary Intervention

Background Antithrombotic therapy for patients with atrial fibrillation undergoing percutaneous coronary intervention is facing major treatment problems in clinical practice. Methods We firstly conducted a Bayesian network meta-analysis to study the safety and efficacy of different antithrombotic regimens. Only randomized controlled trials from PubMed, Web of Science, Cochrane Central Register of Controlled Trials, Embase, and China National Knowledge Infrastructure were included in our study. The Bayesian random-effects model was used in this study. The primary safety and efficacy outcomes were major bleeding according to the criteria of Thrombolysis In Myocardial Infarction (TIMI) and trial-defined major adverse cardiovascular events, respectively. The secondary safety outcomes were combined TIMI major and minor bleeding, trial-defined primary bleeding events, and intracranial hemorrhage. The secondary efficacy outcomes were all-cause or cardiovascular mortality, myocardial infarction, stroke, stent thrombosis, and hospitalization. Results Total of 11,532 patients from the five randomized controlled trials were analyzed, of whom 8,426 were male. Compared with vitamin K antagonist (VKA) plus P2Y12 inhibitor, the odds ratios (95% credible intervals) for TIMI major bleeding were 1.70 (0.77–3.80) for VKA plus dual antiplatelet therapy (DAPT), 1.20 (0.30–4.60) for rivaroxaban plus P2Y12 inhibitor, 1.00 (0.25–3.90) for rivaroxaban plus DAPT, 0.76 (0.21–2.80) for dabigatran plus P2Y12 inhibitor, 0.71 (0.25–2.10) for apixaban plus P2Y12 inhibitor, 1.40 (0.52–3.80) for apixaban plus DAPT, and 1.00 (0.27–4.00) for edoxaban plus P2Y12 inhibitor. For trial-defined major adverse cardiovascular events, compared with VKA plus P2Y12 inhibitor, the odds ratios (95% credible intervals) were 1.10 (0.61–2.00) for VKA plus DAPT, 1.20 (0.45–3.70) for rivaroxaban plus P2Y12 inhibitor, 1.10 (0.38–3.20) for rivaroxaban plus DAPT, 1.10 (0.43–3.10) for dabigatran plus P2Y12 inhibitor, 1.00 (0.47–2.20) for apixaban plus P2Y12 inhibitor, 0.99 (0.46–2.20) for apixaban plus DAPT, and 1.20 (0.43–3.40) for edoxaban plus P2Y12 inhibitor. Apixaban plus P2Y12 inhibitor was the highest-ranking of safety outcomes and VKA plus P2Y12 inhibitor was the highest-ranking of efficacy outcomes other than trial-defined major adverse cardiovascular events. Conclusion Apixaban plus P2Y12 inhibitor seems to be linked with fewer bleeding complications while retaining antithrombotic efficacy. Moreover, for most efficacy indicators, the ranking of VKA plus P2Y12 inhibitor is still very high. Systematic Review Registration [www.crd. york.ac. uk/prospero/], identifier [CRD42020149894].
The Interaction Between CitMYB52 and CitbHLH2 Negatively Regulates Citrate Accumulation by Activating CitALMT in Citrus Fruit

Citric acid plays significant roles in numerous physiological processes in plants, including carbon metabolism, signal transduction, and tolerance to environmental stress. For fruits, it has a major effect on fruit organoleptic quality by directly influencing consumer taste. Citric acid in citrus is mainly regulated by the balance between synthesis, degradation, and vacuolar storage. The genetic and molecular regulations of citric acid synthesis and degradation have been comprehensively elucidated. However, the transporters for citric acid in fruits are less well understood. Here, an aluminum-activated malate transporter, CitALMT, was characterized. Transient overexpression and stable transformation of CitALMT significantly reduced citrate concentration in citrus fruits and transgenic callus. Correspondingly, transient RNA interference-induced silencing of CitALMT and increased citrate significantly, indicating that CitALMT plays an important role in regulating citrate concentration in citrus fruits. In addition, dual-luciferase assays indicated that CitMYB52 and CitbHLH2 could trans-activate the promoter of CitALMT. EMSA analysis showed that CitbHLH2 could physically interact with the E-box motif in the CitALMT promoter. Bimolecular fluorescence complementation assays, yeast two-hybrid, coimmunoprecipitation and transient overexpression, and RNAi assay indicated that the interaction between CitMYB52 and CitbHLH2 could synergistically trans-activate CitALMT to negatively regulate citrate accumulation.
Quantum web of trust

Authentication is the foremost requirement for any online secure transaction. In post quantum era, public key encryption is considered no longer a safe option. The research is therefore, progressing toward providing a quantum resistant solution using both classical as well as quantum computing medium. The paper proposes a quantum based mutual authentication protocol for autonomous system, utilizing the properties of quantum mechanics for exchange, storage and validation of confidential data. The protocol so designed evolves into a chain of mutually trusted nodes to form quantum web of trust. The protocol cater for devices infected with malware by utilizing physically unclonable function inside trusted platform module. The mathematical expressions conveying the correctness of operations has been demonstrated on a quantum machine to verify the efficacy of the protocol. The security analysis demonstrates the ability of the proposed protocol to mitigate cyber attacks and eavesdropping in the network.
Blazing Fast PSI from Improved OKVS and Subfield VOLE

We present new semi-honest and malicious secure PSI protocols that outperform all prior works by several times in both communication and running time. Our semi-honest protocol for n = 2^20 can be performed in 0.37 seconds compared to the previous best of 2 seconds (Kolesnikov et al., CCS 2016). This can be further reduced to 0.16 seconds with 4 threads. Similarly, our protocol sends 187n bits compared to 426n bits of the next most communication-efficient protocol (Rindal et al., Eurocrypt 2021). Additionally, we apply our new techniques to the circuit PSI protocol of Rindal et al. and observe a 6x improvement in running time. These performance results are obtained by two types of improvements. The first is an optimization to the protocol of Rindal et al. to utilize sub-field vector oblivious linear evaluation. This optimization allows our construction to be the first to achieve a communication complexity of O(n lambda + n log n) where lambda is the statistical security parameter. In particular, the communication overhead of our protocol does not scale with the computational security parameter times n. Our second improvement is to the OKVS data structure which our protocol crucially relies on. In particular, our construction improves both the computation and communication efficiency as compared to prior work (Garimella et al., Crypto 2021). These improvements stem from algorithmic changes to the data structure along with new techniques for obtaining both asymptotic and tight concrete bounds on its failure probability.
Putting up 1 the swiss army knife of homomorphic calculations 2 by means of TFHE functional bootstrapping

In this work, we ﬁrst propose a new full domain functional bootstrapping 5 method with TFHE for evaluating any function of domain and codomain the real torus 6 T by using a small number of bootstrappings. This result improves some aspects of 7 previous approaches: like them, we allow for evaluating any functions, but with better 8 precision. In addition, we develop eﬃcient multiplication and addition over ciphertexts 9 building on the digit-decomposition approach of [GBA21]. As a practical application, 10 our results lead to an eﬃcient implementation of ReLU , one of the most used activation 11 functions in deep learning. The paper is concluded by extensive experimental results 12 comparing each building block as well as their practical relevance and trade-oﬀs. 13
Development in a suspensory ring test apparatus for studying dynamic contact performance between soil and structure

In order to study the dynamic contact performance between soil and structure,on the basis of the DYS200-1-05 shaking table system,a test apparatus was designed,which was made up of horizontal load unit,vertical load unit,suspensory ring container,sensors,data logger,and so on.Its features and applications include the following aspects.First,the influence of the load frequency and velocity on the contact performance between soil and structure can be researched.Second,the vertical force on the interface is constant,and the horizontal force paralleled to the interface can be carried out by different frequency.Third,the shear distortion of the test soil is considered,thereby,the relationship between damage to soil-structure system and that to soil can be studied in test.Then,some tests were finished.The test results indicate that the test apparatus is reliable and applicable to study the dynamic mechanical characteristics of the contact between soil and structure.
Slope stability analysis of earth-rock dams based on unified strength criterion by genetic algorithm

Based on the nonlinear unified strength criterion,an optimal analytic model for slope stability analysis of earth-rock dam is proposed;and the sliding surface is searched on the basis of shear-crack failure criteria in nonlinear unified strength theory without assumption of the shape of sliding surface in advance.As we all know that the Mohr-Coulomb law is widely applied to analyzing slope stability of earth-rock dam.In this paper,linear and nonlinear unified strength theory is applied to the stability analysis of slope of earth-rock dam.The research results show that the stability factor of slope can be increased when considering the effect of nonlinear failure criterion and intermediate principal stress.The application of genetic algorithm to slope stability analysis shows that the genetic algorithm can consequently overcome the weakness of simply relapsing into local optimal solutions brought on by traditional optimal algorithm.Numerical results are given to illustrate the genetic algorithm to be more compatible and reasonable than most of optimal algorithms.
Emulating interactions between microorganisms and tumor microenvironment to develop cancer theranostics

The occurrence of microorganisms has been confirmed in the tumor microenvironment (TME) of many different organs. Microorganisms (e.g., phage, virus, bacteria, fungi, and protozoa) present in TME modulate TME to inhibit or promote tumor growth in species-dependent manners due to the special physiological and pathological features of each microorganism. Such microorganism-TME interactions have recently been emulated to turn microorganisms into powerful cancer theranostic agents. To facilitate scientists to explore microorganisms-TME interactions further to develop improved cancer theranostics, here we critically review the characteristics of different microorganisms that can be found in TME, their interactions with TME, and their current applications in cancer diagnosis and therapy. Clinical trials of using microorganisms for cancer theranostics are also summarized and discussed. Moreover, the emerging technology of whole-metagenome sequencing that can be employed to precisely determine microbiota spectra is described. Such technology enables scientists to gain an in-depth understanding of the species and distributions of microorganisms in TME. Therefore, scientists now have new tools to identify microorganisms (either naturally present in or introduced into TME) that can be used as effective probes, monitors, vaccines, or drugs for potentially advancing cancer theranostics to clinical applications.
In situ intestinal perfusion in knockout mice demonstrates inhibition of intestinal P-glycoprotein by ritonavir causing increased darunavir absorption

Darunavir is a second-generation protease inhibitor designed to have antiviral efficacy against HIV-1 with multiple resistance mutations to protease inhibitors. It is always co-administered with a sub-therapeutic dose of ritonavir. It has been shown that darunavir and ritonavir are substrates of P-glycoprotein (P-gp). We explored the contribution of P-gp to the transport characteristics of darunavir (up to 100 µM) using Caco-2 monolayers and the recently developed in situ intestinal perfusion technique using wild-type and mdr1a/1b (-/-) mice. We observed that, in vitro , P-gp has a modulatory effect on the absorption of darunavir, even at a concentration of 100 µM (efflux ratio = 25). Simulated intestinal fluids (FaSSIF) partially inhibited P-gp functionality, which was further inhibited by adding the P-gp inhibitors verapamil, PSC833, GF120918 or ritonavir. Using the in situ intestinal perfusion technique, it was demonstrated that coperfusion with ritonavir resulted in a similar apparent permeability coefficient as observed using P-gp knockout mice, which was 2.7-fold higher than in control mice. We conclude that, in mice, even at a relevant intraluminal concentration of darunavir, P-gp has a modulatory effect on the absorption of darunavir. However, this P-gp mediated darunavir transport is inhibited when combined with ritonavir.
SETTLEMENT AFTER CONSTRUCTION OF EMBANKMENT WITH SOFT ROADBED IN KONGLONG JIUJIANG SECTION OF JING-JIU RAILWAY AND ITS ANALYSES

The statistic analyses on practically measured settlement data for the embankments with soft roadbed have been put forward. The amount of settlement after construction and the change of the speed of settlement are forecasted. At the same time, the author analyzes the factors which influence the settlement after construction as follows: the settlement of the main body of embankment, the different periods of construction, and the soft soil layers beneath the consolidated layer of the soft roadbed.
Instruction Set Design Methodology for In-Memory Computing through QEMU-based System Emulator

In-Memory Computing (IMC) is a promising paradigm to mitigate the von Neumann bottleneck. However its evaluation on complete applications in the context of full-scale systems is limited by the complexity of simulation frameworks as well is the disjunction between hardware exploration and compiler support. This paper proposes a global exploration flow in the scale of Instruction Set Architectures (ISA) to perform both modeling and the generation of compiler support to perform ISA-level exploration. Our emulation methodology is based on QEMU, implements a performance model based on hardware characterizations from the State-of-the-Art, and allows the modeling of cache hierarchies, while our compiler support is automatically generated and based on a specialized compiler. We evaluate three applications in the domains of image processing and linear algebra on a reference IMC architecture, and analyze the obtained results to validate our methodology.
Precise Divide-By-Zero Detection with Affirmative Evidence

The static detection of divide-by-zero, a common programming error, is particularly prone to false positives because conventional static analysis reports a divide-by-zero bug whenever it cannot prove the safety property – the divisor variable is not zero in all executions. When reasoning the program semantics over a large number of under-constrained variables, conventional static analyses significantly loose the bounds of divisor variables, which easily fails the safety proof and leads to a massive number of false positives. We propose a static analysis to detect divide-by-zero bugs taking additional evidence for under-constrained variables into consideration. Based on an extensive empirical study of known divide-by-zero bugs, we no longer arbitrarily report a bug once the safety verification fails. Instead, we actively look for affirmative evidences, namely source evidence and bound evidence, that imply a high possibility of the bug to be triggerable at runtime. When applying our tool Wit to the real-world software such as the Linux kernel, we have found 72 new divide-by-zero bugs with a low false positive rate of 22%.
A Web-Based Stratified Stepped Care Mental Health Platform (TourHeart): Semistructured Interviews With Stakeholders

Background TourHeart, a web-based stratified stepped care mental health platform, is a one-stop solution that integrates psychoeducation and other well-being promotional tools for mental health promotion and mental illness prevention and evidence-based, low-intensity psychological interventions for the treatment of people with anxiety and depressive symptoms. Instead of focusing only on symptom reduction, the platform aims to be person-centered and recovery-oriented, and continual feedback from stakeholders is sought. Understanding the perspectives of users and service providers enables platform developers to fine-tune both the design and content of the services for enhanced service personalization and personal recovery. Objective This qualitative study evaluated a web-based mental health platform by incorporating the perspectives of both users and service providers who administered the platform and provided coaching services. The platform included both web-based and offline services targeting adults along the mental health spectrum based on the two-continua model of mental health and mental illness. Methods Interview questions were designed based on the Reach, Effectiveness, Adoption, Implementation, and Maintenance framework (RE-AIM). Views on offline services, the design of the web-based platform, user experience, and the contents of the platform were explored using semistructured interviews. A total of 27 service users and 22 service providers were recruited using purposive criterion sampling. A hybrid thematic analysis was performed to identify salient aspects of users’ and providers’ experiences with and views of the platform. Results Totally, 3 broad themes (namely, the quality of the platform, drivers for platform use, and coaching services) emerged from the interview data that highlighted users’ views of and experiences with the web-based platform. The platform’s general esthetics, operations, and contents were found to be critical features and drivers for continued use. Although coaching services were indispensable, participants preferred the autonomy and anonymity associated with web-based mental health services. Conclusions This study highlights the importance of web-based mental health services being easy to navigate and understand, being user-centric, and providing adequate guidance in self-help. It also confirms existing design standards and recommendations and suggests that more rigorous, iterative user experience research and robust evaluation should be conducted in the future adaptation of web-based stratified stepped care services, so that they can be more personalized and better promote personal recovery.
The Atypical Chemerin Receptor GPR1 Displays Different Modes of Interaction with β-Arrestins in Humans and Mice with Important Consequences on Subcellular Localization and Trafficking

Atypical chemokine receptors (ACKRs) have emerged as a subfamily of chemokine receptors regulating the local bioavailability of their ligands through scavenging, concentration, or transport. The biological roles of ACKRs in human physiology and diseases are often studied by using transgenic mouse models. However, it is unknown whether mouse and human ACKRs share the same properties. In this study, we compared the properties of the human and mouse atypical chemerin receptor GPR1 and showed that they behave differently regarding their interaction with β-arrestins. Human hGPR1 interacts with β-arrestins as a result of chemerin stimulation, whereas its mouse orthologue mGPR1 displays a strong constitutive interaction with β-arrestins in basal conditions. The constitutive interaction of mGPR1 with β-arrestins is accompanied by a redistribution of the receptor from the plasma membrane to early and recycling endosomes. In addition, β-arrestins appear mandatory for the chemerin-induced internalization of mGPR1, whereas they are dispensable for the trafficking of hGPR1. However, mGPR1 scavenges chemerin and activates MAP kinases ERK1/2 similarly to hGPR1. Finally, we showed that the constitutive interaction of mGPR1 with β-arrestins required different structural constituents, including the receptor C-terminus and arginine 3.50 in the second intracellular loop. Altogether, our results show that sequence variations within cytosolic regions of GPR1 orthologues influence their ability to interact with β-arrestins, with important consequences on GPR1 subcellular distribution and trafficking.
The Importance of Lipid Conjugation on Anti-Fusion Peptides against Nipah Virus

Nipah virus (NiV) is a recently emerging zoonotic virus that belongs to the Paramyxoviridae family and the Henipavirus genus. It causes a range of conditions, from asymptomatic infection to acute respiratory illness and fatal encephalitis. The high mortality rate of 40 to 90% ranks these viruses among the deadliest viruses known to infect humans. Currently, there is no antiviral drug available for Nipah virus disease and treatment is only supportive. Thus, there is an urgent demand for efficient antiviral therapies. NiV F protein, which catalyzes fusion between the viral and host membranes, is a potential target for antiviral drugs, as it is a key protein in the initial stages of infection. Fusion inhibitor peptides derived from the HRC-domain of the F protein are known to bind to their complementary domain in the protein’s transient intermediate state, preventing the formation of a six-helix bundle (6HB) thought to be responsible for driving the fusion of the viral and cell membranes. Here, we evaluated the biophysical and structural properties of four different C-terminal lipid-tagged peptides. Different compositions of the lipid tags were tested to search for properties that might promote efficacy and broad-spectrum activity. Fluorescence spectroscopy was used to study the interaction of the peptides with biomembrane model systems and human blood cells. In order to understand the structural properties of the peptides, circular dichroism measurements and molecular dynamics simulations were performed. Our results indicate a peptide preference for cholesterol-enriched membranes and a lipid conjugation-driven stabilization of the peptide α-helical secondary structure. This work may contribute for the development of highly effective viral fusion against NiV inhibitors.