Miracle-dz/UniFAR-FTUs huggingface dataset:
Intra-Annual Variation in Mesophotic Benthic Assemblages on the Insular Slope of Southwest Puerto Rico as a Function of Depth and Geomorphology

There is limited information on the intra-annual variability of mesophotic coral ecosystems (MCEs), worldwide. The benthic communities, measured as % cover, of two geomorphologically different mesophotic sites (El Hoyo and Hole-in-the-Wall) were examined during 2009–2010 in southwest Puerto Rico. Depths sampled were 50 and 70 m. At each site/depth combination, two permanent transects, measuring 10-m long by 40-cm wide, were surveyed by successive photoquadrants, 0.24 m2 in area. Scleractinian corals, octocorals, macroalgae, crustose coralline algae (CCA), sponges and unconsolidated sediment were the main components along the transects. Significant community differences were observed both among sites and among depths. Differences among sites were greater at 50 m than at 70 m. The El Hoyo site at 50 m was the most divergent, and this was due to a lower coral and sponge cover and a higher algal cover (Amphiroa spp., Peyssonnelia iridescens, turf) relative to the other site/depth combinations. As a consequence, the differences in community structure with depth were larger at El Hoyo than at Hole-in-the-Wall. The communities at 70 m were distinguished from those at 50 m by the greater proportion of the corals Agaricia undata, Madracis pharensis and CCA, and a reduced cover of the cyanobacterium Schizothrix. Temporal variation in the benthic assemblages was documented throughout the year. For both mesophotic sites, the magnitude of change at 50 m was significantly greater than at 70 m. For both depths, the magnitude of change at El Hoyo was significantly greater than at Hole-in-the-Wall. All assemblages experienced almost the same temporal patterns, despite the differences in species composition across sites and depths. Changes in temporal patterns are driven by an increase in the percent cover of the macroalgae Dictyota spp. , and a decrease in the percent cover of non-colonized substrata (sand, pavement or rubble). Relatively rapid, intra-annual changes are dictated by the negative correlation between cyclic Dictyota spp. cover and open substrata cover. Other observed mechanisms for rapid community changes in the photoquadrants were diseases and collapses of substrata along with their associated fauna indicating that small-scale disturbance processes may play an important role within MCEs.
Sex-Biased Habitat Use by Phyllostomid Bats on Riparian Corridors in a Human Dominated Tropical Landscape

Some animal species exhibit sex-specific patterns as an adaptation to their habitats, however, adaptability to a human-dominated landscape is commonly explored without considering intraspecific sexual differences. Differences between males and females lead to a sexual segregation in habitat use. In southern Mexico, we explored sex-specific responses to landscape modification of six common species of phyllostomid bats: Artibeus jamaicensis, A. lituratus, Sturnira lilium, Carollia perspicillata, Glossophaga soricina, and Platyrrhinus helleri using riparian corridors within continuous forest and cattle pastures. Furthermore, we explored sex related responses to vegetation attributes (i.e., tree height and basal area) and seasonality (i.e., wet and dry seasons). Overall, capture rates were significantly skewed toward females and riparian corridors in pastures. Females of G. soricina exhibited a strong positive relationship with greater tree height and basal area. Seasonality was important for A. lituratus and S. lilium females, only. The results indicate a sexual driven response of bats to habitat modification. The high energetic demands of females associated to reproduction could lead to foraging into riparian corridors in pastures. The presence of large trees along riparian corridors in pastures may help maintaining a diverse and dynamic bat community in modified tropical landscapes.
Growth and Anchorage of Myriophyllum spicatum L. in Relation to Water Depth and the Content of Organic Matter in Sediment

A large body of evidence suggests that the physical and chemical characteristics of the sediment in lakes that have undergone eutrophication have been significantly altered. However, the effects of alterations in sediments on submersed macrophytes remain unknown. In this study, we present the results of an outdoor experiment that examined how the growth and anchorage of the widespread submersed macrophyte Myriophyllum spicatum L. responded to the enrichment of organic matter in the sediments and whether water depth affects these responses. We found that low levels of enrichment with organic matter (≤7%) enhanced the growth of M. spicatum. In contrast, high levels of enrichment with organic matter (from 12 to 18%) slightly inhibited its growth. Although the anchorage force of M. spicatum slightly decreased with an increase in the content of organic matter in the sediment, it was much higher than the hydraulic drag force on plants at a relatively high current velocity, indicating that the plants were unlikely to be uprooted in these sediments. The water depth did not alter the responses of growth and anchorage of M. spicatum to enrichment with organic matter. Our results suggest that M. spicatum could be a potential species to restore eutrophic lakes, since it can grow well and anchor stably in sediments with relatively high organic matter and manage low light stress.
Effects of Simulated Microgravity and Hypergravity Conditions on Arm Movements in Normogravity

The human sensorimotor control has evolved in the Earth’s environment where all movement is influenced by the gravitational force. Changes in this environmental force can severely impact the performance of arm movements which can be detrimental in completing certain tasks such as piloting or controlling complex vehicles. For this reason, subjects that are required to perform such tasks undergo extensive training procedures in order to minimize the chances of failure. We investigated whether local gravity simulation of altered gravitational conditions on the arm would lead to changes in kinematic parameters comparable to the full-body experience of microgravity and hypergravity onboard a parabolic flight. To see if this would be a feasible approach for on-ground training of arm reaching movements in altered gravity conditions we developed a robotic device that was able to apply forces at the wrist in order to simulate micro- or hypergravity conditions for the arm while subjects performed pointing movements on a touch screen. We analyzed and compared the results of several kinematic parameters along with muscle activity using this system with data of the same subjects being fully exposed to microgravity and hypergravity conditions on a parabolic flight. Both in our simulation and in-flight, we observed a significant increase in movement durations in microgravity conditions and increased velocities in hypergravity for upward movements. Additionally, we noted a reduced accuracy of pointing both in-flight and in our simulation. These promising results suggest, that locally simulated altered gravity can elicit similar changes in some movement characteristics for arm reaching movements. This could potentially be exploited as a means of developing devices such as exoskeletons to aid in training individuals prior to undertaking tasks in changed gravitational conditions.
Using Genomics to Shape the Definition of the Agglutinin-Like Sequence (ALS) Family in the Saccharomycetales

The Candida albicans agglutinin-like sequence (ALS) family is studied because of its contribution to cell adhesion, fungal colonization, and polymicrobial biofilm formation. The goal of this work was to derive an accurate census and sequence for ALS genes in pathogenic yeasts and other closely related species, while probing the boundaries of the ALS family within the Order Saccharomycetales. Bioinformatic methods were combined with laboratory experimentation to characterize 47 novel ALS loci from 8 fungal species. AlphaFold predictions suggested the presence of a conserved N-terminal adhesive domain (NT-Als) structure in all Als proteins reported to date, as well as in S. cerevisiae alpha-agglutinin (Sag1). Lodderomyces elongisporus, Meyerozyma guilliermondii, and Scheffersomyces stipitis were notable because each species had genes with C. albicans ALS features, as well as at least one that encoded a Sag1-like protein. Detection of recombination events between the ALS family and gene families encoding other cell-surface proteins such as Iff/Hyr and Flo suggest widespread domain swapping with the potential to create cell-surface diversity among yeast species. Results from the analysis also revealed subtelomeric ALS genes, ALS pseudogenes, and the potential for yeast species to secrete their own soluble adhesion inhibitors. Information presented here supports the inclusion of SAG1 in the ALS family and yields many experimental hypotheses to pursue to further reveal the nature of the ALS family.
Transfer-Based Deep Neural Network for Fault Diagnosis of New Energy Vehicles

New energy vehicles are crucial for low carbon applications of renewable energy and energy storage, while effective fault diagnostics of their rolling bearings is vital to ensure the vehicle’s safe and effective operations. To achieve satisfactory rolling bearing fault diagnosis of the new energy vehicle, a transfer-based deep neural network (DNN-TL) is proposed in this study by combining the benefits of both deep learning (DL) and transfer learning (TL). Specifically, by first constructing the convolutional neural networks (CNNs) and long short-term memory (LSTM) to preprocess vibration signals of new energy vehicles, the fault-related preliminary features could be extracted efficiently. Then, a grid search method called step heapsort is designed to optimize the hyperparameters of the constructed model. Afterward, both feature-based and model-based TLs are developed for the fault condition classifications transfer. Illustrative results show that the proposed DNN-TL method is able to recognize different faults accurately and robustly. Besides, the training time is significantly reduced to only 18s, while the accuracy is still over 95%. Due to the data-driven nature, the proposed DNN-TL could be applied to diagnose faults of new energy vehicles, further benefitting low carbon energy applications.
A BCI-Based Study on the Relationship Between the SSVEP and Retinal Eccentricity in Overt and Covert Attention

Covert attention aids us in monitoring the environment and optimizing performance in visual tasks. Past behavioral studies have shown that covert attention can enhance spatial resolution. However, electroencephalography (EEG) activity related to neural processing between central and peripheral vision has not been systematically investigated. Here, we conducted an EEG study with 25 subjects who performed covert attentional tasks at different retinal eccentricities ranging from 0.75° to 13.90°, as well as tasks involving overt attention and no attention. EEG signals were recorded with a single stimulus frequency to evoke steady-state visual evoked potentials (SSVEPs) for attention evaluation. We found that the SSVEP response in fixating at the attended location was generally negatively correlated with stimulus eccentricity as characterized by Euclidean distance or horizontal and vertical distance. Moreover, more pronounced characteristics of SSVEP analysis were also acquired in overt attention than in covert attention. Furthermore, offline classification of overt attention, covert attention, and no attention yielded an average accuracy of 91.42%. This work contributes to our understanding of the SSVEP representation of attention in humans and may also lead to brain-computer interfaces (BCIs) that allow people to communicate with choices simply by shifting their attention to them.
Acetylcarnitine Is Associated With Cardiovascular Disease Risk in Type 2 Diabetes Mellitus

Objective This study aimed to identify the association between specific short-chain acylcarnitines and cardiovascular disease (CVD) in type 2 diabetes mellitus (T2DM). Method We retrieved 1,032 consecutive patients with T2DM who meet the inclusion and exclusion criteria from the same tertiary care center and extracted clinical information from electronic medical records from May 2015 to August 2016. A total of 356 T2DM patients with CVD and 676 T2DM patients without CVD were recruited. Venous blood samples were collected by finger puncture after 8 h fasting and stored as dried blood spots. Restricted cubic spline (RCS) analysis nested in binary logistic regression was used to identify possible cutoff points and obtain the odds ratios (ORs) and 95% confidence intervals (CIs) of short-chain acylcarnitines for CVD risk in T2DM. The Ryan–Holm step-down Bonferroni procedure was performed to adjust p-values. Stepwise forward selection was performed to estimate the effects of acylcarnitines on CVD risk. Result The levels of C2, C4, and C6 were elevated and C5-OH was decreased in T2DM patients with CVD. Notably, only elevated C2 was still associated with increased CVD inT2DM after adjusting for potential confounders in the multivariable model (OR = 1.558, 95%CI = 1.124–2.159, p = 0.008). Furthermore, the association was independent of previous adjusted demographic and clinical factors after stepwise forward selection (OR = 1.562, 95%CI = 1.132–2.154, p = 0.007). Conclusions Elevated C2 was associated with increased CVD risk in T2DM.
Association Between Out-of-Hour Admission and Short- and Long-Term Mortality in Acute Myocardial Infarction: A Systematic Review and Meta-Analysis

Objectives: Out-of-hour admission (on weekends, holidays, and weekday nights) has been associated with higher mortality in patients with acute myocardial infarction (AMI). We conducted a meta-analysis to verify the association between out-of-hour admission and mortality (both short- and long-term) in AMI patients. Design: This Systematic review and meta-analysis of cohort studies. Data Sources: PubMed and EMBASE were searched from inception to 27 May 2021. Eligibility Criteria for Selected Studies: Studies of any design examined the potential association between out-of-hour admission and mortality in AMI. Data Extraction and Synthesis: In total, 2 investigators extracted the data and evaluated the risk of bias. Analysis was conducted using a random-effects model. The results are shown as odds ratios [ORs] with 95% confidence intervals (CIs). I2 value was used to estimate heterogeneity. Grading of Recommendations Assessment, Development, and Evaluation was used to assess the certainty of the evidence. Results: The final analysis included 45 articles and 15,346,544 patients. Short-term mortality (defined as either in-hospital or 30-day mortality) was reported in 42 articles (15,340,220 patients). Out-of-hour admission was associated with higher short-term mortality (OR 1.04; 95%CI 1.02–1.05; I2 = 69.2%) but there was a significant statistical indication for publication bias (modified Macaskill's test P < 0.001). One-year mortality was reported in 10 articles (1,386,837 patients). Out-of-hour admission was also associated with significantly increased long-term mortality (OR 1.03; 95%CI 1.01–1.04; I2 = 66.6%), with no statistical indication of publication bias (p = 0.207). In the exploratory subgroup analysis, the intervention effect for short-term mortality was pronounced among patients in different regions (p = 0.04 for interaction) and socio-economic levels (p = 0.007 for interaction) and long-term mortality was pronounced among patients with different type of AMI (p = 0.0008 for interaction) or on different types of out-to-hour admission (p = 0.006 for interaction). Conclusion: Out-of-hour admission may be associated with an increased risk of both short- and long-term mortality in AMI patients. Trial Registration: PROSPERO (CRD42020182364).
Real-time detecting and tracking of traffic shockwaves based on weighted consensus information fusion in distributed video network

Tracking traffic shockwaves (queuing shockwave and discharge shockwave) in a road section between intersections can be applied to obtain various traffic parameters, such as the queue length, stop delay etc. In video processing of a distributed low-angle video network installed above the road section, various factors affect the accuracies of positioning of vehicles and tracking of traffic shockwaves. To overcome these effects, they propose a method of weighted consensus information fusion to track the traffic shockwaves in real time. In the visible region between opposite cameras, the cameras detect the shockwaves through the duplex flexible window fused with AdaBoost cascade classifiers and meanwhile dynamically estimate the weight of the measurement noise. In the blind region between contrary cameras, the cameras use the speed changes of the vehicles entering and leaving the blind region to estimate the shockwaves’ positions. Thus, by exchanging the information among the cameras through communication and dynamically adjusting the confidence level of the detected results, the algorithm of weighted consensus information fusion effectively obtains globally optimal estimation of the shockwaves. Experimental results show finer tracking results of the shockwaves during morning and evening rush hours by the proposed method.
Establishment of a Hyperacute Rejection Model of ABO-Incompatible Renal Transplantation in Nonhuman Primates

The establishment of a hyperacute rejection (HAR) model of ABO-incompatible kidney transplantation (ABOi-KTx) in nonhuman primates is of great significance for the study of the relevant clinical pathophysiological processes and related interventions in ABOi-KTx. In this study, blood group B cynomolgus monkeys were presensitized with synthetic blood group A-antigen conjugated to keyhole limpet hemocyanin (A-KLH) to boost circulating anti-A antibody levels. The serum anti-A antibody levels were measured by flow cytometry using type A human reagent red blood cells (RBCs) or monkey primary renal tubular epithelial cells (RTECs) as target cells. ABOi-KTx was performed in type B monkeys using type A monkeys as donors. After 14 days of A-KLH sensitization, 12 of 16 (75%) type B monkeys had significantly elevated anti-A antibody levels. We found that in order to avoid irregular results in the detection of blood group antibodies by flow cytometry, it was more effective to use RTECs rather than RBCs as target cells. In the absence of presensitization, ABOi-KTx in three monkeys with relatively high levels of natural anti-A antibodies did not produce HAR. However, when four Type B monkeys with significantly increased anti-A antibodies after presensitization were randomly selected as recipients for ABOi-KTx, the allografts in all four monkeys developed HAR with typical pathologic characteristics. Thus, we have successfully established a monkey model of HAR in ABOi-KTx via blood group antigen presensitization, which will be helpful for the further study of rejection, accommodation, and clinical intervention in ABOi-KTx.
Combination of Radiosensitivity Gene Signature and PD-L1 Status Predicts Clinical Outcome of Patients With Locally Advanced Head and Neck Squamous Cell Carcinoma: A Study Based on The Cancer Genome Atlas Dataset

Aim: The aim of our study was to investigate the potential predictive value of the combination of radiosensitivity gene signature and PD-L1 expression for the prognosis of locally advanced head and neck squamous cell carcinoma (HNSCC). Methods: The cohort was selected from The Cancer Genome Atlas (TCGA) and classified into the radiosensitive (RS) group and radioresistant (RR) group by a radiosensitivity-related gene signature. The cohort was also grouped as PD-L1-high or PD-L1-low based on PD-L1 mRNA expression. The least absolute shrinkage and selection operator (lasso)-based Cox model was used to select hub survival genes. An independent validation cohort was obtained from the Gene Expression Omnibus (GEO) database. Results: We selected 288 locally advanced HNSCC patients from TCGA. The Kaplan–Meier method found that the RR and PD-L1-high group had a worse survival than others (p = 0.033). The differentially expressed gene (DEG) analysis identified 553 upregulated genes and 486 downregulated genes (p < 0.05, fold change >2) between the RR and PD-L1-high group and others. The univariate Cox analysis of each DEG and subsequent lasso-based Cox model revealed five hub survival genes (POU4F1, IL34, HLF, CBS, and RNF165). A further hub survival gene-based risk score model was constructed, which was validated by an external cohort. We observed that a higher risk score predicted a worse prognosis (p = 0.0013). The area under the receiver operating characteristic curve (AUC) plots showed that this risk score model had good prediction value (1-year AUC = 0.684, 2-year AUC = 0.702, and 3-year AUC = 0.688). Five different deconvolution methods all showed that the B cells were lower in the RR and PD-L1-high group (p < 0.05). Finally, connectivity mapping analysis showed that the histone deacetylase (HDAC) inhibitor trichostatin A might have the potential to reverse the phenotype of RR and PD-L1-high in locally advanced HNSCC (p < 0.05, false discovery rate <0.1). Conclusion: The combination of 31-gene signature and the PD-L1 mRNA expression had a potential predictive value for the prognosis of locally advanced HNSCC who had RT. The B cells were lower in the RR and PD-L1-high group. The identified risk gene signature of locally advanced HNSCC and the potential therapeutic drug trichostatin A for the RR and PD-L1-high group are worth being further studied in a prospective homogenous cohort.
Probiotic Potential Analysis and Safety Evaluation of Enterococcus durans A8-1 Isolated From a Healthy Chinese Infant

To evaluate the probiotic characteristics and safety of Enterococcus durans isolate A8-1 from a fecal sample of a healthy Chinese infant, we determined the tolerance to low pH, survival in bile salts and NaCl, adhesion ability, biofilm formation, antimicrobial activity, toxin gene distribution, hemolysis, gelatinase activity, antibiotic resistance, and virulence to Galleria mellonella and interpreted the characters by genome resequencing. Phenotypically, E. durans A8-1 survived at pH 5.0 in 7.0% NaCl and 3% bile salt under aerobic and anaerobic condition. The bacterium had higher adhesion ability toward mucin, collagen, and Bovine Serum Albumin (BSA) in vitro and showed high hydrophobicity (79.2% in chloroform, 49.2% in xylene), auto-aggregation activity (51.7%), and could co-aggregate (66.2%) with Salmonella typhimurium. It had adhesion capability to intestinal epithelial Caco-2 cells (38.74%) with moderate biofilm production and antimicrobial activity against several Gram-positive pathogenic bacteria. A8-1 can antagonize the adhesion of S. typhimurium ATCC14028 on Caco-2 cells to protect the integrity of the cell membrane by detection of lactate dehydrogenase (LDH) and AKP activities. A8-1 also helps the cell relieve the inflammation induced by lipopolysaccharide by reducing the expression of cytokine IL-8 (P = 0.002) and TNF-α (P > 0.05), and increasing the IL-10 (P < 0.001). For the safety evaluation, A8-1 showed no hemolytic activity, no gelatinase activity, and had only asa1 positive in the seven detected virulence genes in polymerase chain reaction (PCR), whereas it was not predicted in the genome sequence. It was susceptible to benzylpenicillin, ampicillin, ciprofloxacin, levofloxacin, moxifloxacin, tigecycline, nitrofurantoin, linezolid, vancomycin, erythromycin, and quinupristin/dalofopine except clindamycin, which was verified by the predicted lasA, lmrB, lmrC, and lmrD genes contributing to the clindamycin resistance. The virulence test of G. mellonella showed that it had toxicity lower than 10% at 1 × 107 CFU. According to the results of these evaluated attributes, E. durans strain A8-1 could be a promising probiotic candidate for applications.