Miracle-dz/UniFAR-FTUs huggingface dataset:
Optimization of a static headspace GC-MS method and its application in metabolic fingerprinting of the leaf volatiles of 42 citrus cultivars

Citrus leaves, which are a rich source of plant volatiles, have the beneficial attributes of rapid growth, large biomass, and availability throughout the year. Establishing the leaf volatile profiles of different citrus genotypes would make a valuable contribution to citrus species identification and chemotaxonomic studies. In this study, we developed an efficient and convenient static headspace (HS) sampling technique combined with gas chromatography-mass spectrometry (GC-MS) analysis and optimized the extraction conditions (a 15-min incubation at 100 ˚C without the addition of salt). Using a large set of 42 citrus cultivars, we validated the applicability of the optimized HS-GC-MS system in determining leaf volatile profiles. A total of 83 volatile metabolites, including monoterpene hydrocarbons, alcohols, sesquiterpene hydrocarbons, aldehydes, monoterpenoids, esters, and ketones were identified and quantified. Multivariate statistical analysis and hierarchical clustering revealed that mandarin (Citrus reticulata Blanco) and orange (Citrus sinensis L. Osbeck) groups exhibited notably differential volatile profiles, and that the mandarin group cultivars were characterized by the complex volatile profiles, thereby indicating the complex nature and diversity of these mandarin cultivars. We also identified those volatile compounds deemed to be the most useful in discriminating amongst citrus cultivars. This method developed in this study provides a rapid, simple, and reliable approach for the extraction and identification of citrus leaf volatile organic compound, and based on this methodology, we propose a leaf volatile profile-based classification model for citrus.
Prognosis of hyperviscosity syndrome in newly diagnosed multiple myeloma in modern-era therapy: A real-life study

Hyperviscosity syndrome (HVS) is a rare complication of newly diagnosed multiple myeloma (NDMM) related to high tumour burden. Studies about the prognosis of HVS in modern-era therapy for NDMM are missing. We investigated a retrospective cohort study of NDMM with HVS between 2011-2021. Thirty-nine NDMM patients with HVS were included. HVS presentation was heterogeneous, with asymptomatic, mild, and neurological forms in 23%, 59%, and 18% of cases, respectively. No thrombosis or major bleeding was observed. Therapeutic plasma exchanges were used in 92% of patients, which were effective and well tolerated. No rebound effect was observed. All patients except one had at least one CRAB criterion. Most of the patients received bortezomib and high-dose steroids (95%) associated with an immunomodulatory drug (43%) or alkylating agents (42%). HVS in NDMM patients had dismal overall survival matched to multiple myeloma patient controls (without HVS) in our center (median: 3.6 vs. 7.7 years, p=0.01), as confirmed by multivariate analysis. Early deaths (in the first two months) occurred in 21% of older patients (>65 years). HVS in NDMM patients is a rare but life-threatening complication associated with high lethality in older patients and be a potential dismal prognosis factor in the modern treatment era.
The enhanced and optimal piezoelectric coefficients in single crystalline barium titanate with engineered domain configurations

In this letter, we report a micromechanical analysis to explain the enhanced piezoelectric coefficients in ferroelectric single crystals poled along a nonpolar axis, where the coexistence of several variants leads to a complicated domain configuration. The engineered domain configuration in the crystal is constructed first using energy minimization approach, and the effective moduli of single crystal with engineered domain configuration is then determined using homogenization theory. Following this procedure, we calculate the effective electromechanical moduli of tetragonal barium titanate poled along [111] direction, where the piezoelectric coefficient d33 is found to be 70% higher than those poled along [001], consistent with experimental observation. Piezoelectric coefficient d32 is also found to be 114% higher. In addition, we notice that poling along [111] direction does not lead to the optimal domain configuration, since barium titanate poled along [110] direction has much higher d32 and d33. The an.
Immunoglobulin VDJ repertoires reveal hallmarks of germinal centers in unique cell clusters isolated from zebrafish (Danio rerio) lymphoid tissues

DNA mutagenesis during antibody affinity maturation has potentially oncogenic or autoimmune outcomes if not tightly controlled as it is in mammalian germinal centers. Cold blooded vertebrates lack germinal centers, yet have a functional Ig gene mutator enzyme, Aicda. In fish there are clusters of Aicda+ cells encircled by pigmented ‘melano-macrophages’ and we test the hypothesis that these clusters are functionally analogous to germinal centers. Sequenced IgH VDJ repertoire libraries from individual isolated clusters showed evidence of B-cell clonal expansion and VDJ somatic hypermutation. Construction of Ig clonal lineage trees revealed that unlike surrounding lymphoid tissue, each cluster is dominated by a few B-cell VDJ clonotypes having hundreds of mutated variants. Recruitment of B-cells to the clusters appears to be ongoing, as there are additional Ig clones having smaller lineages. Finally, we show evidence for positive selection for replacement mutations in regions encoding the antigen contact loops, but not in the framework regions, consistent with functional antibody modification. Melano-macrophages appear to trap the Ag used for post-mutation B-cell selection, performing a role analogous to the follicular dendritic cells of mammalian germinal centers. These findings provide insights into the evolution of the affinity maturation process, the improvement of fish vaccines and possibly also the workings of atypical ectopic germinal centers generated in several human diseases.
Social media use and mental health of urban residents during China's second COVID-19 outbreak

Background A multitude of literature has shown that during the 2019 COVID-19 outbreak, people's reliance on social media has been closely related with serious psychological problems. The “information epidemic” has sparked each country's attention. These countries including China have tried to find the solution and taken a series of measures. In January 2021, the COVID-19 broke out again in Shijiazhuang, China. Has the impact of social media on mental health changed? Methods Our data are based on an online survey of Chinese in January 2021, with 904 valid samples from 18 different provinces in China. We applied the methods of structural equation model analysis and the tendency value matching to conduct systematic analysis. Results Our research found that 38.9% of the population suffered from depression and 12.61% of the population suffered from anxiety. Chinese urban residents are more dependent on social media, with up to 80.1% of participants using social media frequently. Our research found that the relationship between social media use and residents' mental health has dramatically changed. More use of social media has been significantly associated with less depression and anxiety, especially among young people and women. Our findings are the first to reveal the relation's change between social media and mental health. Conclusions These findings implied that changes in the social media environment probably lead to changes in relationship between social media use and mental health since the outbreak began in 2019. Truthful and comprehensive social media information and a healthy positive social media environment can contribute to residents' mental health improvement and the fight against “information epidemic. ”
Contrastive topics decomposed

The analysis of contrastive topics introduced in Buring 1997b and further developed in Buring 2003 relies on distinguishing two types of constituents that introduce alternatives: the sentence focus, which is marked by a FOC feature, and the contrastive topic, which is marked by a CT feature. A non-compositional rule of interpretation that refers to these features is used to derive a topic semantic value, a nested set of sets of propositions. This paper presents evidence for a correlation between the restrictive syntax of nested focus operators and the syntax of contrastive topics, a correlation which is unexpected under this analysis. A compositional analysis is proposed that only makes use of the flatter focus semantic values introduced by focus operators. The analysis aims at integrating insights from the original analysis while at the same time capturing the observed syntactic restrictions.
Overexpression of proinflammatory cytokines in dental pulp tissue and distinct bacterial microbiota in carious teeth of Mexican Individuals

The prevalence of dental caries in the Mexican adult population aged 20 to 85 years is around 93.3%, and 50% in Mexican children and adolescents. Worldwide, it is the most common non-communicable disease. One of the main etiological factors for dental caries is the oral microbiome and changes in its structure and function, with an expansion of pathogenic bacteria like Streptococcus mutans. The exposed dental pulp tissue triggers an innate immune response to counteract this bacterial invasion. The relation between oral dysbiosis and innate immune responses remains unclear. We aimed to understand the relationship between innate immune response and the oral microbiota by quantifying the expression of Toll-like receptors (TLRs) and proinflammatory markers (cytokines and a chemokine) in dental pulp tissue, either exposed or not to carious dentin, and to correlate this information with the oral microbiome found in healthy teeth and those with moderate caries. RNA was purified from pulp tissue, subjected to RT-qPCR and analysed with the ΔΔCt method. Supragingival dental plaque of non-carious teeth and dentin of carious teeth were subjected to 16S targeted sequencing. Principal coordinate analysis, permutational multivariate ANOVA, and linear discriminant analysis were used to assess differences between non-carious and carious teeth. Correlations were assessed with Spearman´s test and corrected for multiple comparisons using the FDR method. The relative abundance (RA) of Lactobacillus, Actinomyces, Prevotella, and Mitsuokella was increased in carious teeth; while the RA of Haemophilus and Porphyromonas decreased. Olsenella and Parascardovia were only detected in carious teeth. Significant overexpression of interleukin 1 beta (IL1 β), IL6, and CXCL8 was detected in pulp tissue exposed to carious dentin. IL1β correlated positively with TLR2 and Actinomyces; yet negatively with Porphyromonas. These findings suggest that immune response of pulp tissue chronically exposed to cariogenic microbiome is triggered by proinflammatory cytokines IL1β and IL6 and the chemokine CXCL8.
Sliding Mode Control of Vibration in Uncertain Time-delay Systems

This paper presents a proportional-integral sliding mode control (PISMC) methodology for the robust control of vibration in a linear uncertain system with state and input delays. The systems are assumed to have structured, unmatched and time-varying parameter uncertainties. Based on Lyapunov stability theorem and linear matrix inequality (LMI) H ∞ technique, a sufficient condition is derived to guarantee the global stability of the dynamics and achieve a prescribed H ∞ norm bound of disturbance attenuation for all admissible uncertainties without the state predictor. Furthermore, this scheme assures robustness against state delays, input delays, parameter uncertainties and disturbances simultaneously. Simulation results demonstrate the efficacy of the proposed control methodology.
Effect of artificial insemination in comparison to natural mating on the reproductive performance and profitability of smallholder pig production system in Indian Himalaya

In fragile ecosystems, smallholder pig production systems provide food and nutritional security to resource-poor communities. Pigs are the main livestock raised by indigenous communities in the Himalayan region of India, but their productivity is low for several reasons. The present study aimed to study the pig herd size and to evaluate the impact of artificial insemination (AI) on profitability and sustainability in the small-holder pig production system. A total of 612 AIs were carried out in 483 sows in the farmer's field along with 114 sows that underwent natural breeding. A comparison was made between the reproductive performance of sows following AI and natural breeding. The profitability and economics of AI and natural breeding were also compared. The mean pig population varied from 4.75 to 6.42 in the study region. The farrowing rate, total born piglets (TBPs), and live born piglets (LBPs) were significantly higher (P < 0.001) in artificially inseminated sows compared to naturally bred sows (9.37 vs. 6.28; 8.93 vs. 5.45). Farrowing rate (P = 0.005), TBP, and LBP were significantly (P < 0.001) higher in sows inseminated by female inseminator as compared to male inseminator (81.26 vs. 71.42%; 9.65 vs. 8.80; 9.21 vs. 8.38). The insemination by uneducated farmers resulted in significantly (P = 0.002) lower farrowing rate, TBP (P < 0.001), LBP (P < 0.001), and AI per farrowing (P = 0.042). The farmers who did AI for the third time and more than three times recorded significantly (P < 0.001) higher farrowing rates, TBP, and LBP. The farrowing rate was significantly (P < 0.001) less in sows that were located more than 30 km away from the semen center (66.66 vs. 82.90%). The net return per sow was significantly higher (P < 0.001) in artificially inseminated sows (US$464.8 vs. US$248.11). AI resulted in an 87.33% increase in net returns per farrowing as compared to natural breeding. In conclusion, AI in smallholder pig production systems has the potential to sustainably improve the profitability as well as the food and nutritional security of resource-poor farmers.
Effects of flywheel resistance training on the running economy of young male well-trained distance runners

The study aimed to investigate the effect of flywheel accentuated eccentric loading (AEL) training on the running economy (RE) of young male well-trained distance runners. Twenty-two runners participated and were randomly assigned to the flywheel (FG, n = 12) and the control group (CG, n = 10). Traditional endurance training was performed in both groups three times a week for 6-week, while traditional resistance and flywheel AEL training was added to the CG and FG respectively. Subjects performed the incremental exercise test, squat jump, and countermovement jump (CMJ) before and after training. The results showed that 1) the RE at 65% of peak oxygen consumption (VO2peak), 75% VO2peak, and 85% VO2peak improved significantly after 6 weeks of training (p < 0.01, Effect size (ES) = 0.76; p < 0.01, ES = 1.04; p < 0.01, ES = 1.85) in FG, and the RE of 85% VO2peak in FG was significantly lower than CG (p < 0.05, ES = 0.30); 2) in post-training, both squat jump (p < 0.01, ES = 0.73) and CMJ (p < 0.01, ES = 1.15) performance, eccentric utilization ratio (p < 0.04, ES = 0.44), the rate of force development (RFD) of squat jump (p < 0.05, ES = 0.46), and CMJRFD (p < 0.01, ES = 0.66) were significantly improved in FG. And there are no significant differents in CG group because it was maintain training for our participants. Our findings showed that 1) flywheel AEL training improves the muscles’ explosive strength and other neuromuscular functions, and improves the athlete’s running economy under 65%, 75%, and 85% VO2peak, which potentially increases endurance performance. 2) Flywheel AEL training can improve the height, RFD, and the eccentric utilization ratio of squat jump and CMJ, and other lower limb elastic potential energy indicators of the young male, well-trained distance runners.
Combination TIGIT/PD-1 blockade enhances the efficacy of neoantigen vaccines in a model of pancreatic cancer

Background Cancer neoantigens are important targets of cancer immunotherapy and neoantigen vaccines are currently in development in pancreatic ductal adenocarcinoma (PDAC) and other cancer types. Immune regulatory mechanisms in pancreatic cancer may limit the efficacy of neoantigen vaccines. Targeting immune checkpoint signaling pathways in PDAC may improve the efficacy of neoantigen vaccines. Methods We used KPC4580P, an established model of PDAC, to test whether neoantigen vaccines can generate therapeutic efficacy against PDAC. We focused on two immunogenic neoantigens associated with genetic alterations in the CAR12 and CDK12 genes. We tested a neoantigen vaccine comprised of two 20-mer synthetic long peptides and poly IC, a Toll-like receptor (TLR) agonist. We investigated the ability of neoantigen vaccine alone, or in combination with PD-1 and TIGIT signaling blockade to impact tumor growth. We also assessed the impact of TIGIT signaling on T cell responses in human PDAC. Results Neoantigen vaccines induce neoantigen-specific T cell responses in tumor-bearing mice and slow KPC4580P tumor growth. However, KPC4580P tumors express high levels of PD-L1 and the TIGIT ligand, CD155. A subset of neoantigen-specific T cells in KPC4580P tumors are dysfunctional, and express high levels of TIGIT. PD-1 and TIGIT signaling blockade in vivo reverses T cell dysfunction and enhances neoantigen vaccine-induced T cell responses and tumor regression. In human translational studies, TIGIT signaling blockade in vitro enhances neoantigen-specific T cell function following vaccination. Conclusions Taken together, preclinical and human translational studies support testing neoantigen vaccines in combination with therapies targeting the PD-1 and TIGIT signaling pathways in patients with PDAC.
Involvement of the STING signaling in COVID-19

The coronavirus disease 2019 (COVID-19) pandemic caused by the infection of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has cast a notorious damage to the public health and global economy. The Stimulator of Interferon Genes (STING) is a crucial element of the host antiviral pathway and plays a pivotal but complex role in the infection and development of COVID-19. Herein, we discussed the antagonistic mechanism of viral proteins to the STING pathway as well as its activation induced by host cells. Specifically, we highlighted that the persistent activation of STING by SARS-CoV-2 led to abnormal inflammation, and STING inhibitors could reduce the excessive inflammation. In addition, we also emphasized that STING agonists possessed antiviral potency against diverse coronavirus and showed adjuvant efficacy in SARS-CoV-2 vaccines by inducing IFN responses.
Myomedin replicas of gp120 V3 loop glycan epitopes recognized by PGT121 and PGT126 antibodies as non-cognate antigens for stimulation of HIV-1 broadly neutralizing antibodies

Introduction Imprinting broadly neutralizing antibody (bNAb) paratopes by shape complementary protein mimotopes represents a potential alternative for developing vaccine immunogens. This approach, designated as a Non-Cognate Ligand Strategy (NCLS), has recently been used for the identification of protein variants mimicking CD4 binding region epitope or membrane proximal external region (MPER) epitope of HIV-1 envelope (Env) glycoprotein. However, the potential of small binding proteins to mimic viral glycan-containing epitopes has not yet been verified. Methods In this work, we employed a highly complex combinatorial Myomedin scaffold library to identify variants recognizing paratopes of super candidate bNAbs, PGT121 and PGT126, specific for HIV-1 V3 loop epitopes. Results In the collection of Myomedins called MLD variants targeted to PGT121, three candidates competed with gp120 for binding to this bNAb in ELISA, thus suggesting an overlapping binding site and epitope-mimicking potential. Myomedins targeted to PGT126 designated MLB also provided variants that competed with gp120. Immunization of mice with MLB or MLD binders resulted in the production of anti-gp120 and -Env serum antibodies. Mouse hyper-immune sera elicited with MLB036, MLB041, MLB049, and MLD108 moderately neutralized 8-to-10 of 22 tested HIV-1-pseudotyped viruses of A, B, and C clades in vitro. Discussion Our data demonstrate that Myomedin-derived variants can mimic particular V3 glycan epitopes of prominent anti-HIV-1 bNAbs, ascertain the potential of particular glycans controlling neutralizing sensitivity of individual HIV-1 pseudoviruses, and represent promising prophylactic candidates for HIV-1 vaccine development.
POINTLIKE D-BRANE DYNAMICS AND SPACE-TIME UNCERTAINTY RELATION

We argue that the space-time uncertainty relation of the form {Delta}X{Delta}T{approx_gt}{alpha}{sup {prime}} for the observability of the distances with respect to time, {Delta}T, and space, {Delta}X, is universally valid in string theory including D-branes. This relation has been previously proposed by one (T.Y.) of the present authors as a simple qualitative representation of the perturbative short-distance structure of fundamental string theory. We show that the relation, combined with the usual quantum mechanical uncertainty principle, explains the key qualitative features of D-particle dynamics. {copyright} {ital 1997} {ital The American Physical Society}
Investigating neurological symptoms of infectious diseases like COVID-19 leading to a deeper understanding of neurodegenerative disorders such as Parkinson's disease

Apart from common respiratory symptoms, neurological symptoms are prevalent among patients with COVID-19. Research has shown that infection with SARS-CoV-2 accelerated alpha-synuclein aggregation, induced Lewy-body-like pathology, caused dopaminergic neuron senescence, and worsened symptoms in patients with Parkinson's disease (PD). In addition, SARS-CoV-2 infection can induce neuroinflammation and facilitate subsequent neurodegeneration in long COVID, and increase individual vulnerability to PD or parkinsonism. These findings suggest that a post-COVID-19 parkinsonism might follow the COVID-19 pandemic. In order to prevent a possible post-COVID-19 parkinsonism, this paper reviewed neurological symptoms and related findings of COVID-19 and related infectious diseases (influenza and prion disease) and neurodegenerative disorders (Alzheimer's disease, PD and amyotrophic lateral sclerosis), and discussed potential mechanisms underlying the neurological symptoms and the relationship between the infectious diseases and the neurodegenerative disorders, as well as the therapeutic and preventive implications in the neurodegenerative disorders. Infections with a relay of microbes (SARS-CoV-2, influenza A viruses, gut bacteria, etc.) and prion-like alpha-synuclein proteins over time may synergize to induce PD. Therefore, a systematic approach that targets these pathogens and the pathogen-induced neuroinflammation and neurodegeneration may provide cures for neurodegenerative disorders. Further, antiviral/antimicrobial drugs, vaccines, immunotherapies and new therapies (e.g., stem cell therapy) need to work together to treat, manage or prevent these disorders. As medical science and technology advances, it is anticipated that better vaccines for SARS-CoV-2 variants, new antiviral/antimicrobial drugs, effective immunotherapies (alpha-synuclein antibodies, vaccines for PD or parkinsonism, etc.), as well as new therapies will be developed and made available in the near future, which will help prevent a possible post-COVID-19 parkinsonism in the 21st century.