Miracle-dz/UniFAR-FTUs huggingface dataset:
IN VITRO EVALUATION OF MICROBIAL ANTAGONISTS AGAINST SCLEROTIUM ROLFSII

Trichoderma harzianum and T. longibrachiatum were found to inhibit the in vitro growth of S. rolfsii and produced coiling around mycelium of S. rolfsii resulting in lysis of hyphae. T. pseudokoningii, T. polysporum and Gliocladium virens also inhibited the growth of S. rolfsii. Where Aspergillus niger, A. fumigatus, A. flavus, A. terreus, A. nidulans, A. sulphureus, A. parasiticus, A. tamarii, A. versicolar, A. versiclar and A. wentii were used, colonies of Aspergillus spp. , and S. rolfsii met each other but S. rolfsii later overgrew the colonies of Aspergillus spp.
Macrohabitat Effects on Summer Survival, Movements, and Clutch Success of Northern Bobwhite in Kansas

Despite being among the most intensively studied and managed species of wildlife in the world. northern bobwhite (Colinus virginianus) populations have declined over most of their range. Although macro habitat features associated with high bobwhite densities have been described, few data exist linking habital attributes with individual survival or productivity. We compared survival, clutch success, and home range size of radiotagged bobwhite during summer between 2 areas in Kansas with different land uses (cropland domi nated [CSA] vs. rangeland dominated [RSA]), and compared macrohabitat surrounding surviving versus dep redated adults and clutches within areas at 5 spatial scales. Female survival (CSA = 0.26 [SE = 0.01], n = 46, RSA = 0.36 [SE = 0.02]. n = 32), home range size (CSA = 75 ± 15 ha; x ± SE: RSA = 54 ± 16 ha). and clutch success (CSA = 0.58; RSA = 0.67) were similar (P > 0.05) between areas, whereas male survival was higher (P = 0.021) on the RSA (0.51 [SE = 0.01]. n = 70) than on the CSA (0.26 [SE = 0.01], n = 61) Within the RSA. surviving adults had more cropland and greater mean distances to grassland in areas sur rounding them at small to intermediate scales than those that were depredated (P 0.1) on the CSA. Successful clutches on the CSA were surrounded by less rangeland and more hayland at small to intermediate scales than those that were depredated (P 0.1) on the RSA. Our results suggest the amount of breeding (i.e., grassland) habitat as well as its composition and distribution influenced some aspects of bobwhite survival and productivity, but habitat selection could not be used to reliably identify habitat attributes associated with higher probabilities of adult survival or clutch success. Re versing bobwhite population declines at large scales depends on identifying macrohabitat attributes that spe effically influence individual fitness rather than population distributions.
Detection of a high-confidence quasi-periodic oscillation in radio light curve of the high redshift FSRQ PKS J0805–0111

In this work, we have searched for quasi-periodic oscillations (QPOs) in the 15 GHz light curve of the FSRQ PKS J0805--0111 monitored by the Owens Valley Radio Observatory (OVRO) 40 m telescope during the period from 2008 January 9 to 2019 May 9, using the weighted wavelet Z-transform (WWZ) and the Lomb-Scargle Periodogram (LSP) techniques. This is the first time to search for a periodic radio signal in the FSRQ PKS J0805–0111 by these two methods. Both methods consistently reveal a repeating signal with a periodicity of 3.38 ± 0.8 yr (>99.7% confidence level). In order to determine the significance of the periods, the false alarm probability method was applied, and a large number of Monte Carlo simulations were performed. As possible explanations, we discuss a number of scenarios including the thermal instability of thin disks scenario, the spiral jet scenario and the binary supermassive black hole scenario. We expect that the binary black hole scenario, where the QPO is caused by the precession of binary black holes, is the most likely explanation. FSRQ PKS J0805-0111 thus could be a good binary black hole candidate. In the binary black hole scenario, the distance between the primary black hole and the secondary black hole is about 1.71 × 1016 cm.
Nonperturbative Infrared Finiteness in a Superrenormalizable Scalar Quantum Field Theory.

We present a study of the IR behavior of a three-dimensional superrenormalizable quantum field theory consisting of a scalar field in the adjoint of SU(N) with a φ^{4} interaction. A bare mass is required for the theory to be massless at the quantum level. In perturbation theory, the critical mass is ambiguous due to IR divergences, and we indeed find that at two loops in lattice perturbation theory the critical mass diverges logarithmically. It was conjectured long ago in [R. Jackiw et al., Phys. Rev. D 23, 2291 (1981)PRVDAQ0556-282110.1103/PhysRevD.23. 2291, T. Appelquist et al., Phys. Rev. D 23, 2305 (1981)PRVDAQ0556-282110.1103/PhysRevD.23. 2305] that superrenormalizable theories are nonperturbatively IR finite, with the coupling constant playing the role of an IR regulator. Using a combination of Markov Chain Monte Carlo simulations of the lattice-regularized theory, frequentist and Bayesian data analysis, and considerations of a corresponding effective theory, we gather evidence that this is indeed the case.
Encoding cloth manipulations using a graph of states and transitions

Cloth manipulation is very relevant for domestic robotic tasks, but it presents many challenges due to the complexity of representing, recognizing and predicting behaviour of cloth under manipulation. In this work, we propose a generic, compact and simplified representation of the states of cloth manipulation that allows for representing tasks as sequences of states and transitions. We also define a graph of manipulation primitives that encodes all the strategies to accomplish a task. Our novel representation is used to encode the task of folding a napkin, learned from an experiment with human subjects with video and motion data. We show how our simplified representation allows to obtain a map of meaningful motion primitives and to segment the motion data to obtain sets of trajectories, velocity and acceleration profiles corresponding to each manipulation primitive in the graph.
Learning Rewards from Linguistic Feedback

We explore unconstrained natural language feedback as a learning signal for artificial agents. Humans use rich and varied language to teach, yet most prior work on interactive learning from language assumes a particular form of input (e.g., commands). We propose a general framework which does not make this assumption, instead using aspect-based sentiment analysis to decompose feedback into sentiment over the features of a Markov decision process. We then infer the teacher's reward function by regressing the sentiment on the features, an analogue of inverse reinforcement learning. To evaluate our approach, we first collect a corpus of teaching behavior in a cooperative task where both teacher and learner are human. We implement three artificial learners: sentiment-based "literal" and "pragmatic" models, and an inference network trained end-to-end to predict rewards. We then re-run our initial experiment, pairing human teachers with these artificial learners. All three models successfully learn from interactive human feedback. The inference network approaches the performance of the "literal" sentiment model, while the "pragmatic" model nears human performance. Our work provides insight into the information structure of naturalistic linguistic feedback as well as methods to leverage it for reinforcement learning.
Generation of lyrics lines conditioned on music audio clips

We present a system for generating novel lyrics lines conditioned on music audio. A bimodal neural network model learns to generate lines conditioned on any given short audio clip. The model consists of a spectrogram variational autoencoder (VAE) and a text VAE. Both automatic and human evaluations demonstrate effectiveness of our model in generating lines that have an emotional impact matching a given audio clip. The system is intended to serve as a creativity tool for songwriters.
RTFE: A Recursive Temporal Fact Embedding Framework for Temporal Knowledge Graph Completion

Static knowledge graph (SKG) embedding (SKGE) has been studied intensively in the past years. Recently, temporal knowledge graph (TKG) embedding (TKGE) has emerged. In this paper, we propose a Recursive Temporal Fact Embedding (RTFE) framework to transplant SKGE models to TKGs and to enhance the performance of existing TKGE models for TKG completion. Different from previous work which ignores the continuity of states of TKG in time evolution, we treat the sequence of graphs as a Markov chain, which transitions from the previous state to the next state. RTFE takes the SKGE to initialize the embeddings of TKG. Then it recursively tracks the state transition of TKG by passing updated parameters/features between timestamps. Specifically, at each timestamp, we approximate the state transition as the gradient update process. Since RTFE learns each timestamp recursively, it can naturally transit to future timestamps. Experiments on five TKG datasets show the effectiveness of RTFE.
Wasserstein Distributionally Robust Inverse Multiobjective Optimization

Inverse multiobjective optimization provides a general framework for the unsupervised learning task of inferring parameters of a multiobjective decision making problem (DMP), based on a set of observed decisions from the human expert. However, the performance of this framework relies critically on the availability of an accurate DMP, sufficient decisions of high quality, and a parameter space that contains enough information about the DMP. To hedge against the uncertainties in the hypothetical DMP, the data, and the parameter space, we investigate in this paper the distributionally robust approach for inverse multiobjective optimization. Specifically, we leverage the Wasserstein metric to construct a ball centered at the empirical distribution of these decisions. We then formulate a Wasserstein distributionally robust inverse multiobjective optimization problem (WRO-IMOP) that minimizes a worst-case expected loss function, where the worst case is taken over all distributions in the Wasserstein ball. We show that the excess risk of the WRO-IMOP estimator has a sub-linear convergence rate. Furthermore, we propose the semi-infinite reformulations of the WRO-IMOP and develop a cutting-plane algorithm that converges to an approximate solution in finite iterations. Finally, we demonstrate the effectiveness of our method on both a synthetic multiobjective quadratic program and a real world portfolio optimization problem.
The Askey–Wilson algebra and its avatars

The original Askey–Wilson algebra introduced by Zhedanov encodes the bispectrality properties of the eponym polynomials. The name Askey–Wilson algebra is currently used to refer to a variety of related structures that appear in a large number of contexts. We review these versions, sort them out and establish the relations between them. We focus on two specific avatars. The first is a quotient of the original Zhedanov algebra; it is shown to be invariant under the Weyl group of type D 4 and to have a reflection algebra presentation. The second is a universal analogue of the first one; it is isomorphic to the Kauffman bracket skein algebra (KBSA) of the four-punctured sphere and to a subalgebra of the universal double affine Hecke algebra (C1∨,C1) . This second algebra emerges from the Racah problem of Uq(sl2) and is related via an injective homomorphism to the centralizer of Uq(sl2) in its threefold tensor product. How the Artin braid group acts on the incarnations of this second avatar through conjugation by R-matrices (in the Racah problem) or half Dehn twists (in the diagrammatic KBSA picture) is also highlighted. Attempts at defining higher rank Askey–Wilson algebras are briefly discussed and summarized in a diagrammatic fashion.
Disruption in the Chinese E-Commerce During COVID-19

The recent outbreak of the novel coronavirus (COVID-19) has infected millions of citizens worldwide and claimed many lives. This paper examines its impact on the Chinese e-commerce market by analyzing behavioral changes seen from a large online shopping platform. We first conduct a time series analysis to identify product categories that faced the most extensive disruptions. The time-lagged analysis shows that behavioral patterns seen in shopping actions are highly responsive to epidemic development. Based on these findings, we present a consumer demand prediction method by encompassing the epidemic statistics and behavioral features for COVID-19 related products. Experiment results demonstrate that our predictions outperform existing baselines and further extend to the long-term and province-level forecasts. We discuss how our market analysis and prediction can help better prepare for future pandemics by gaining an extra time to launch preventive steps.
Byzantine Fault-Tolerance in Decentralized Optimization under Minimal Redundancy

This paper considers the problem of Byzantine fault-tolerance in multi-agent decentralized optimization. In this problem, each agent has a local cost function. The goal of a decentralized optimization algorithm is to allow the agents to cooperatively compute a common minimum point of their aggregate cost function. We consider the case when a certain number of agents may be Byzantine faulty. Such faulty agents may not follow a prescribed algorithm, and they may share arbitrary or incorrect information with other non-faulty agents. Presence of such Byzantine agents renders a typical decentralized optimization algorithm ineffective. We propose a decentralized optimization algorithm with provable exact fault-tolerance against a bounded number of Byzantine agents, provided the non-faulty agents have a minimal redundancy.
MaP: A Matrix-based Prediction Approach to Improve Span Extraction in Machine Reading Comprehension

Span extraction is an essential problem in machine reading comprehension. Most of the existing algorithms predict the start and end positions of an answer span in the given corresponding context by generating two probability vectors. In this paper, we propose a novel approach that extends the probability vector to a probability matrix. Such a matrix can cover more start-end position pairs. Precisely, to each possible start index, the method always generates an end probability vector. Besides, we propose a sampling-based training strategy to address the computational cost and memory issue in the matrix training phase. We evaluate our method on SQuAD 1.1 and three other question answering benchmarks. Leveraging the most competitive models BERT and BiDAF as the backbone, our proposed approach can get consistent improvements in all datasets, demonstrating the effectiveness of the proposed method.
Establishment and characterization of fantail goldfish fin (FtGF) cell line from goldfish, Carassius auratus for in vitro propagation of Cyprinid herpes virus-2 (CyHV-2)

Background Herpesviral hematopoietic necrosis disease, caused by cyprinid herpesvirus-2 (CyHV-2), is responsible for massive mortalities in the aquaculture of goldfish, Carassius auratus. Permissive cell lines for the isolation and propagation of CyHV-2 have been established from various goldfish tissues by sacrificing the fish. Here, we report the development of a cell line, FtGF (Fantail Goldfish Fin), from caudal fin of goldfish using non-lethal sampling. We also describe a simple protocol for successful establishment and characterization of a permissive cell line through explant method and continuous propagation of CyHV-2 with high viral titer using this cell line. Methods Caudal fin tissue samples were collected from goldfish without killing the fish. Cell culture of goldfish caudal fin cells was carried out using Leibovitz’s L-15 (L-15) medium containing 20% FBS and 1X concentration of antibiotic antimycotic solution, incubated at 28 °C. Cells were characterized and origin of the cells was confirmed by sequencing fragments of the 16S rRNA and COI genes. CyHV-2 was grown in the FtGF cells and passaged continuously 20 times. The infectivity of the CyHV-2 isolated using FtGF cells was confirmed by experimental infection of naïve goldfish. Results The cell line has been passaged up to 56 times in L-15 with 10% FBS. Karyotyping of FtGF cells at 30th, 40th and 56th passage indicated that modal chromosome number was 2n = 104. Species authentication of FtGF was performed by sequencing of the 16S rRNA and COI genes. The cell line was used for continuous propagation of CyHV-2 over 20 passages with high viral titer of 107.8±0.26 TCID50/mL. Following inoculation of CyHV-2 positive tissue homogenate, FtGF cells showed cytopathic effect by 2nd day post-inoculation (dpi) and complete destruction of cells was observed by the 10th dpi. An experimental infection of naïve goldfish using supernatant from infected FtGF cells caused 100% mortality and CyHV-2 infection in the challenged fish was confirmed by the amplification of DNA polymerase gene, histopathology and transmission electron microscopy. These findings provide confirmation that the FtGF cell line is highly permissive to the propagation of CyHV-2.
The use of the circulating cathodic antigen (CCA) urine cassette assay for the diagnosis and assessment of cure of Schistosoma mansoni infections in an endemic area of the Amazon region

Abstract INTRODUCTION Schistosomiasis is a poverty-related disease that affects people in 78 countries worldwide. This study aimed to evaluate the point-of-care circulating cathodic antigen (POC-CCA) test performance using sensitive parasitological methods as a reference standard (RS) in individuals before and after treatment. METHODS The RS was established by combining the results of 16 Kato-Katz slides and the Helmintex® method. Positivity rates of the POC-CCA test and Kato-Katz and Helmintex® methods were calculated before treatment and 30 days afterward. Furthermore, the sensitivity, specificity, accuracy, and kappa coefficient before treatment were determined by comparing the methods. The cure rate was defined 30 days after treatment. RESULTS Among the 217 participants, the RS detected a total of 63 (29.0%) positive individuals. The POC-CCA test identified 79 (36.4%) infections. The evaluation of POC-CCA test performance in relation to the RS revealed a sensitivity of 61.9%, specificity of 74.0%, accuracy of 70.5%, and kappa coefficient of 0.33. Out of the 53 remaining participants after treatment, a total of 45 (81.1%) showed egg negative results, and 8 (18.9%) were egg positive according to the RS. A total of 5 (9.4%) egg-positive and 37 (69.8%) egg-negative individuals were positive by the POC-CCA test. CONCLUSIONS Our data show that the POC-CCA test has potential as an auxiliary tool for the diagnosis of Schistosoma mansoni infection, yielding better results than 16 Kato-Katz slides from three different stool samples. However, the immunochromatographic test lacks sufficient specificity and sensitivity for verifying the cure rate after treatment.
In situ forming microporous gelatin methacryloyl hydrogel scaffolds from thermostable microgels for tissue engineering

Abstract Converting biopolymers to extracellular matrix (ECM)‐mimetic hydrogel‐based scaffolds has provided invaluable opportunities to design in vitro models of tissues/diseases and develop regenerative therapies for damaged tissues. Among biopolymers, gelatin and its crosslinkable derivatives, such as gelatin methacryloyl (GelMA), have gained significant importance for biomedical applications due to their ECM‐mimetic properties. Recently, we have developed the first class of in situ forming GelMA microporous hydrogels based on the chemical annealing of physically crosslinked GelMA microscale beads (microgels), which addressed several key shortcomings of bulk (nanoporous) GelMA scaffolds, including lack of interconnected micron‐sized pores to support on‐demand three‐dimensional‐cell seeding and cell–cell interactions. Here, we address one of the limitations of in situ forming microporous GelMA hydrogels, that is, the thermal instability (melting) of their physically crosslinked building blocks at physiological temperature, resulting in compromised microporosity. To overcome this challenge, we developed a two‐step fabrication strategy in which thermostable GelMA microbeads were produced via semi‐photocrosslinking, followed by photo‐annealing to form stable microporous scaffolds. We show that the semi‐photocrosslinking step (exposure time up to 90 s at an intensity of ~100 mW/cm2 and a wavelength of ~365 nm) increases the thermostability of GelMA microgels while decreasing their scaffold forming (annealing) capability. Hinging on the tradeoff between microgel and scaffold stabilities, we identify the optimal crosslinking condition (exposure time ~60 s) that enables the formation of stable annealed microgel scaffolds. This work is a step forward in engineering in situ forming microporous hydrogels made up from thermostable GelMA microgels for in vitro and in vivo applications at physiological temperature well above the gelatin melting point.
Molecular study of drought response in the Mediterranean conifer Pinus pinaster Ait.: Differential transcriptomic profiling reveals constitutive water deficit‐independent drought tolerance mechanisms

Abstract Adaptation of long‐living forest trees to respond to environmental changes is essential to secure their performance under adverse conditions. Water deficit is one of the most significant stress factors determining tree growth and survival. Maritime pine (Pinus pinaster Ait.), the main source of softwood in southwestern Europe, is subjected to recurrent drought periods which, according to climate change predictions for the years to come, will progressively increase in the Mediterranean region. The mechanisms regulating pine adaptive responses to environment are still largely unknown. The aim of this work was to go a step further in understanding the molecular mechanisms underlying maritime pine response to water stress and drought tolerance at the whole plant level. A global transcriptomic profiling of roots, stems, and needles was conducted to analyze the performance of siblings showing contrasted responses to water deficit from an ad hoc designed full‐sib family. Although P. pinaster is considered a recalcitrant species for vegetative propagation in adult phase, the analysis was conducted using vegetatively propagated trees exposed to two treatments: well‐watered and moderate water stress. The comparative analyses led us to identify organ‐specific genes, constitutively expressed as well as differentially expressed when comparing control versus water stress conditions, in drought‐sensitive and drought‐tolerant genotypes. Different response strategies can point out, with tolerant individuals being pre‐adapted for coping with drought by constitutively expressing stress‐related genes that are detected only in latter stages on sensitive individuals subjected to drought.