Miracle-dz/UniFAR-FTUs huggingface dataset:
An Updated Global Species Diversity and Phylogeny in the Forest Pathogenic Genus Heterobasidion (Basidiomycota, Russulales)

Heterobasidion species are amongst the most intensively studied polypores because several species are aggressive white rot pathogens of managed coniferous forests mainly in Europe and North America. In the present study, both morphological and multilocus phylogenetic analyses were carried out on Heterobasidion samples from Asia, Oceania, Europe and North America. Three new taxa were found, i.e., H. armandii, H. subinsulare, and H. subparviporum are from Asia and are described as new species. H. ecrustosum is treated as a synonym of H. insulare. So far, six taxa in the H. annosum species complex are recognized. Heterobasidion abietinum, H. annosum, and H. parviporum occur in Europe, H. irregulare, and H. occidentale in North America, and H. subparviporum in East Asia. The North American H. irregulare was introduced to Italy during the Second World War. Species in the H. annosum complex are pathogens of coniferous trees, except H. subparviporum that seems to be a saprotroph. Ten species are found in the H. insulare species complex, all of them are saprotrophs. The pathogenic species are distributed in Europe and North America; the Asian countries should consider the European and North American species as entry plant quarantine fungi. Parallelly, European countries should consider the American H. occidentale and H. irregulare as entry plant quarantine fungi although the latter species is already in Italy, while North America should treat H. abietinum, H. annosum s.s. , and H. parviporum as entry plant quarantine fungi. Eight Heterobasidion species found in the Himalayas suggest that the ancestral Heterobasidion species may have occurred in Asia.
Characterizing Marine Heatwaves in the Kerguelen Plateau Region

Marine heatwaves (MHWs) are prolonged extreme oceanic warm water events. Globally, the frequency and intensity of MHWs have been increasing in recent years, and it is expected that this trend is reflected in the Kerguelen Plateau region. MHWs can negatively impact the structure of marine biodiversity, marine ecosystems, and commercial fisheries. Considering that the KP is a hot-spot for marine biodiversity, characterizing MHWs and their drivers for this region is important, but has not been performed. Here, we characterize MHWs in the KP region between January 1994 and December 2016 using a combination of remotely sensed observations and output from a publicly available model hindcast simulation. We describe a strong MHW event that starts during the 2011/2012 austral summer and persists through winter, dissipating in late 2012. During the winter months, the anomalous temperature signal deepens from the surface to a depth of at least 150 m. We show that downwelling-favorable winds occur in the region during these months. At the end of 2012, as the MHW dissipates, upwelling-favorable winds prevail. We also show that the ocean temperature on the KP is significantly correlated with key modes of climate variability. Over the KP, temperature at both the ocean surface and at a depth of 150 m correlates significantly with the Indian Ocean Dipole. To the south of the KP, temperature variations are significantly correlated with the El Niño Southern Oscillation, and to both the north and south of the KP, with the Southern Annular Mode. These results suggest there may be potential predictability in ocean temperatures, and their extremes, in the KP region. Strong MHWs, like the event in 2012, may be detrimental to the unique ecosystem of this region, including economically relevant species, such as the Patagonian Toothfish.
Transcriptional Regulation of Drought Response in Arabidopsis and Woody Plants

Within the context of global warming, long-living plants such as perennial woody species endure adverse conditions. Among all of the abiotic stresses, drought stress is one of the most detrimental stresses that inhibit plant growth and productivity. Plants have evolved multiple mechanisms to respond to drought stress, among which transcriptional regulation is one of the key mechanisms. In this review, we summarize recent progress on the regulation of drought response by transcription factor (TF) families, which include abscisic acid (ABA)-dependent ABA-responsive element/ABRE-binding factors (ABRE/ABF), WRKY, and Nuclear Factor Y families, as well as ABA-independent AP2/ERF and NAC families, in the model plant Arabidopsis. We also review what is known in woody species, particularly Populus, due to its importance and relevance in economic and ecological processes. We discuss opportunities for a deeper understanding of drought response in woody plants with the development of high-throughput omics analyses and advanced genome editing techniques.
Separation and recovery of cellulose and lignin using ionic liquids: a process for recovery from paper‐based waste

BACKGROUND: The production of paper makes use of cellulose and lignin as a raw material, and almost all cellulose and lignin production comes from raw wood materials, contributing to deforestation and resulting in potential environmental harm. It is therefore beneficial to develop technologies for cellulose and lignin recovery for re-use and sustainability of resources. RESULTS: Three imidazolium based ionic liquids (ILs), 1-(2-cyanoethyl)-3-methylimidazolium bromide (cyanoMIMBr), 1-propyl-3-methylimidazolium bromide (propylMIMBr) and 1-butyl-3-methylimidazolium chloride (butylMIMCl), were synthesised by microwave technology and fully characterised by mass spectrometry, thermogravimetric differential scanning calorimetry, thin layer chromatography, nuclear magnetic resonance and Fourier transform infrared spectroscopies. Cellulose and lignin were soluble in all three ILs with solubility being greatest in cyanoMIMBr. Regeneration of cellulose and lignin was achieved from saturated solutions of cellulose in IL and lignin in IL for all three ILs. The ILs propylMIMBr and butylMIMBr have been used for the first time in the separation and recovery of cellulose and lignin and regeneration of the IL from a mixture of cellulose and lignin in IL. FTIR analysis confirms successful recovery. CONCLUSIONS: This work demonstrates the ability of ILs to separate and recover cellulose and lignin from a mixed system. Copyright © 2009 Society of Chemical Industry
Assessing the Transitional Impact and Mental Health Consequences of the COVID-19 Pandemic Onset

In this article, we report the results of a survey of North American adults (n = 1,215) conducted between March 24 and 30, 2020 at the onset of the COVID-19 pandemic. Respondents completed the COVID-TIS (Transitional Impact Scale-Pandemic version) and the 21-item Depression, Anxiety, and Stress Scale (DASS), indicated their level of COVID-infection concern for themselves and close others, and provided demographic information. The results indicated: (a) during its early stage, the pandemic produced only moderate levels of material and psychological change; (b) the pandemic produced mild to moderate levels of psychological distress; (c) respondents who lost their jobs as a result of the pandemic experienced more change and more psychological distress than those who did not, and (d) younger respondents and less well-educated ones experienced more psychological distress than older respondents. Unexpectedly, (e) respondents indicated that they were more concerned that friends and family members would become infected with COVID-19 than that they would be. We conclude by speculating that these results are driven less by the immediate changes brought about by the pandemic and more by uncertainty concerning its long-term economic and social impact.
Induction of Trained Immunity by Recombinant Vaccines

Vaccines represent an important strategy to protect humans against a wide variety of pathogens and have even led to eradicating some diseases. Although every vaccine is developed to induce specific protection for a particular pathogen, some vaccine formulations can also promote trained immunity, which is a non-specific memory-like feature developed by the innate immune system. It is thought that trained immunity can protect against a wide variety of pathogens other than those contained in the vaccine formulation. The non-specific memory of the trained immunity-based vaccines (TIbV) seems beneficial for the immunized individual, as it may represent a powerful strategy that contributes to the control of pathogen outbreaks, reducing morbidity and mortality. A wide variety of respiratory viruses, including respiratory syncytial virus (hRSV) and metapneumovirus (hMPV), cause serious illness in children under 5 years old and the elderly. To address this public health problem, we have developed recombinant BCG vaccines that have shown to be safe and immunogenic against hRSV or hMPV. Besides the induction of specific adaptive immunity against the viral antigens, these vaccines could generate trained immunity against other respiratory pathogens. Here, we discuss some of the features of trained immunity induced by BCG and put forward the notion that recombinant BCGs expressing hRSV or hMPV antigens have the capacity to simultaneously induce specific adaptive immunity and non-specific trained immunity. These recombinant BCG vaccines could be considered as TIbV capable of inducing simultaneously the development of specific protection against hRSV or hMPV, as well as non-specific trained-immunity-based protection against other pathogenic viruses.
CircRNAs: Emerging Bladder Cancer Biomarkers and Targets

Circular RNAs (circRNAs) are newly discovered intriguing RNAs due to the covalently closed loop structure, high stability, tissue specificity, and functional diversity. In recent years, a large number of circRNAs have been identified through high-throughput sequencing technology and bioinformatics methods, the abnormal expression of circRNAs are closely related to many diseases including bladder cancer (BC). CircRNAs have been proven to have several functions, such as acting as a regulator of parental gene transcription, miRNA sponge and interacting with proteins to regulate its expression. In addition, some circRNAs have been identified to encode proteins. CircRNAs have the characteristics of high abundance, high stability, wide distribution in body fluids, tissue specificity, and developmental stage specificity, which determine that circRNAs has great potential to be utilized as biomarkers for BC. Herein, we briefly summarize the biogenesis, functions and roles, and the current research progress of circRNAs in BC with a focus on the potential application for BC diagnosis, treatment, and prognosis.
Spontaneous Agglomeration of Fluorinated Janus Particles and Its Effect on the Adsorption Behavior of Oil-Air Surfaces

Based on the Pickering emulsion template method, two types of Janus particles with different relative amphiphilic areas for stabilizing non-aqueous foam were synthesized. In addition, particles with uniformly modified surface were synthesized for comparison. By adjusting oil mixtures, the behavior of particles on the oil-air surface was measured. Moreover, the role of particle agglomerates in surface adsorption process was investigated. Affected by the particle surface contact angle, the surface activity of Janus particles is not always greater than that of uniformly modified particles, which is reflected on delta surface tension and the volume of foam generated. The oil-surface adsorption process of synthesized Janus particles is not only occurred in the form of independent detached particles, but also in the form of particle agglomerates. The adsorption of the particles from the bulk phase to the surface requires the contact angle of the Cassie–Baxter composite surface of the particle agglomerates to be around 90°, but the inherent contact angle of the individual particles is <90°.
The Molecular Landscape and Biological Alterations Induced by PRAS40-Knockout in Head and Neck Squamous Cell Carcinoma

PRAS40 (Prolin-rich Akt substrate of 40 kDa) is a critical protein, which directly connects PI3K/Akt and mTORC1 pathway. It plays an indispensable role in the development of various diseases. However, the relationship between PRAS40 and head and neck squamous cell carcinoma (HNSCC) remains unclear. Here, our study indicated that high expression of PRAS40 mRNA is a favorable prognostic factor in HNSCC patients by analyzing 498 clinical and mRNA data. Moreover, we confirmed that CRISPR/Cas9 induced PRAS40-knockout would promote colony formation, cell migration, and invasion in several HNSCC cell lines. RNA-seq was employed to investigate the further possible mechanisms involving the above regulations by PRAS40 in HNSCC cells. The molecular landscape contributed by 253 differentially expressed mRNA after PRAS40-knockout was enriched in TGF-beta, PI3K-Akt, P53, mTOR, NF-κB signaling pathway. Partial molecular alternations within these pathways were validated by qPCR or Western blotting. Besides, we found that high expression of PRAS40 in HNSC patients would present more CD8+ T and T follicular helper cells, but less Th17 cells than the patients with low expression of PRAS40. The altered molecular pathways and tumor-infiltrating immune cells might associate with the mechanism of PRAS40 being a suppressor in HNSCC cells, which would provide a potential prognostic predictor and therapeutic target in HNSCC patients.
The Effect of Reviewers’ Self-Disclosure of Personal Review Record on Consumer Purchase Decisions: An ERPs Investigation

Personal review record, as a form of personally identifiable information, refers to the past review information of a reviewer. The disclosure of reviewers’ personal information on electronic commerce websites has been found to substantially impact consumers’ perception regarding the credibility of online reviews. However, personal review record has received little attention in prior research. The current study investigated whether the disclosure of personal review record influenced consumers’ information processing and decision making by adopting event-related potentials (ERPs) measures, as ERPs allow for a nuanced examination of the neural mechanisms that underlie cognitive processes. At the behavioral level, we found that the purchase rate was higher and that the reaction time was shorter when the review record was disclosed (vs. when it was not), indicating that the disclosed condition was more favorable to the participants. Moreover, ERPs data showed that the disclosed condition induced an attenuated N400 component and an increased LPP component relative to the undisclosed condition, suggesting that the former condition gave rise to less cognitive and emotional conflict and to more positive evaluations. Thus, by elucidating potential cognitive and neural underpinnings, this study demonstrates the positive impact of reviewers’ disclosure of personal review record on consumers’ purchase decisions.
Modelling intercontinental transport of atmospheric sulphur in the northern hemisphere

Intercontinental exchange of sulphur in major parts of the northern hemisphere has been studied with a 3-dimensional Eulerian transport model that resolves regional scale variability. Model results for 1988 have been evaluated against daily observations of sulphur dioxide and particulate sulphate in Europe and North America and show that the model reproduces the episodic character of oxidised sulphur in air. Yearly averages agree with the observations within a factor of 2, at over 75% of the sites. Monthly budgets for intercontinental exchange of sulphur are presented and related to large scale atmospheric flow patterns. Intercontinental transport of sulphur is related to mid-latitude cyclone tracks, and few events determine a considerable part of the yearly intercontinental exchange. European anthropogenic sulphur dominates the averaged air concentrations and depositions over the simulation area. The contribution of European sulphur over the Sea of Japan is calculated to be 50–75 mg(S) m −2 yr −1 or 5–10% of the total deposition calculated for that area. Over the West Siberian Planes, the European contribution is estimated to be 150–200 mg(S) m −2 yr −1 that is, 40–50% of the yearly calculated deposition. The relative contributions of intercontinental transport from anthropogenic sources in Asia and North America and biogenic sources in the North Atlantic Ocean to the European deposition levels are similar and range from 2 to 4%. In certain areas and seasons, however, these relative contributions can be much larger. DOI: 10.1034/j.1600-0889.1998. t01-3-00002.x
Formation of the ion-pair in electron recombination with H+3

We present a two-dimensional theoretical study of the formation of the ion-pair, H+2 + H−, in electron recombination with H+3 in its ground electronic and vibrational state. The relevant potential energy surfaces, electronic couplings and autoionization widths are calculated by combining electron scattering calculations with quantum chemistry calculations. The nuclear dynamics on six coupled electronic states is studied by propagating wave packets using the MCTDH (Multi Configuration Time-Dependent Hartree) method. Also the cross section for ion-pair formation in electron recombination with D+3 is calculated.
SARS-CoV-2 Viral RNA Shedding for More Than 87 Days in an Individual With an Impaired CD8+ T Cell Response

Prolonged shedding of viral RNA occurs in some individuals following SARS-CoV-2 infection. We perform comprehensive immunologic evaluation of one individual with prolonged shedding. The case subject recovered from severe COVID-19 and tested positive for SARS-CoV-2 viral RNA repeatedly as many as 87 days after the first positive test, 97 days after symptom onset. The subject did not have any associated rise in anti-Spike protein antibody titers or plasma neutralization activity, arguing against re-infection. This index subject exhibited a profoundly diminished circulating CD8+ T cell population and correspondingly low SARS-CoV-2-specific CD8+ T cell responses when compared with a cohort of other recovering COVID-19 subjects. CD4+ T cell responses and neutralizing antibody responses developed as expected in this individual. Our results demonstrate that detectable viral RNA shedding in the upper airway can occur more than 3 months following infection in some individuals with COVID-19 and suggest that impaired CD8+ T cells may play a role in prolonged viral RNA shedding.
Multi-Omics Driven Metabolic Network Reconstruction and Analysis of Lignocellulosic Carbon Utilization in Rhodosporidium toruloides

An oleaginous yeast Rhodosporidium toruloides is a promising host for converting lignocellulosic biomass to bioproducts and biofuels. In this work, we performed multi-omics analysis of lignocellulosic carbon utilization in R. toruloides and reconstructed the genome-scale metabolic network of R. toruloides. High-quality metabolic network models for model organisms and orthologous protein mapping were used to build a draft metabolic network reconstruction. The reconstruction was manually curated to build a metabolic model using functional annotation and multi-omics data including transcriptomics, proteomics, metabolomics, and RB-TDNA sequencing. The multi-omics data and metabolic model were used to investigate R. toruloides metabolism including lipid accumulation and lignocellulosic carbon utilization. The developed metabolic model was validated against high-throughput growth phenotyping and gene fitness data, and further refined to resolve the inconsistencies between prediction and data. We believe that this is the most complete and accurate metabolic network model available for R. toruloides to date.
Identification of IL10RA by Weighted Correlation Network Analysis and in vitro Validation of Its Association With Prognosis of Metastatic Melanoma

Skin cutaneous melanoma (SKCM) is the major cause of death for skin cancer patients, its high metastasis often leads to poor prognosis of patients with malignant melanoma. However, the molecular mechanisms underlying metastatic melanoma remain to be elucidated. In this study we aim to identify and validate prognostic biomarkers associated with metastatic melanoma. We first construct a co-expression network using large-scale public gene expression profiles from GEO, from which candidate genes are screened out using weighted gene co-expression network analysis (WGCNA). A total of eight modules are established via the average linkage hierarchical clustering, and 111 hub genes are identified from the clinically significant modules. Next, two other datasets from GEO and TCGA are used for further screening of biomarker genes related to prognosis of metastatic melanoma, and identified 11 key genes via survival analysis. We find that IL10RA has the highest correlation with clinically important modules among all identified biomarker genes. Further in vitro biochemical experiments, including CCK8 assays, wound-healing assays and transwell assays, have verified that IL10RA can significantly inhibit the proliferation, migration and invasion of melanoma cells. Furthermore, gene set enrichment analysis shows that PI3K-AKT signaling pathway is significantly enriched in metastatic melanoma with highly expressed IL10RA, indicating that IL10RA mediates in metastatic melanoma via PI3K-AKT pathway.
Remnants of Native Vegetation Surrounding Do Not Affect the Diversity and Density of Birds in Brazilian Grassland-Restoration Sites

Since in general the surrounding landscape influences the species diversity and abundance in fragments of native vegetation, an amount of native-vegetation cover nearby may also positively affect communities in restored areas, regardless of the sizes of individual habitat patches. We investigated for the first time whether the species richness, total abundance, and density of grassland birds in restoration sites are influenced by the amount of native grassland in the surrounding landscape in the Brazilian Pampa. We sampled birds by point counts in five restoration sites in the most representative area of grasslands in Brazil. We established an outer buffer zone with a 1 km-radius around the point-count areas in each site, and calculated the percentage of native grassland vegetation in the surrounding landscape. Bird species richness and abundance did not show a significant response to the amount of neighboring native grassland in restored areas. Individual analyses of the density of seven bird species associated to grassland also showed similar pattern. We believe the vegetation structure in these restoration sites may already been sufficiently re-established to provide necessary resources and a suitable habitat for the birds. Even so, we assume that previously existing landscape features were important for recovery of the vegetation structure, as continuous native grassland in the surroundings. Thus, we recommend consider the landscape context as an additional issue in studies dealing with conservation strategies for recovery of grasslands in Brazil.