Miracle-dz/UniFAR-FTUs huggingface dataset:
Transgenerational effects and temperature variation alter life history traits of the moon jellyfish

Understanding the life history strategy of organisms is key to predicting their population dynamics. The population of scyphozoan jellyfish has displayed an increasing trend in recent decades, yet its life history strategy is not fully understood. To interpret the reproduction strategy of scyphozoan jellyfish from an evolutionary ecology perspective, we dissected 10 asexual generations of Aurelia coerulea polyps to investigate the relationships between transgenerational effects on their budding reproduction and strobilation. Our results reveal that a polyp’s average budding reproduction rate declined 32.82% through asexual generations within the experimental time. Furthermore, a longer culture duration counteracted the transgenerational effects on budding rates and strobilation afterward. Thus, this effort provides insight into the necessity of sexual reproduction in organisms involving a metagenic life cycle, i.e., to renew the asexual reproduction ability of a population. Besides this, we suggest taking note that it is necessary to know the “asexual age” of polyps when performing experimental studies and mathematical modeling to explore their population dynamics. Our results also present a valuable data set to interpret the evolution of the scyphozoan jellyfish’s life history strategy under multifactorial environments.
Current status and capacity of pathogen laboratories in centers for disease control and prevention in China during the COVID-19 pandemic: A nationwide cross-sectional survey

The pathogen laboratory (p-lab) is the core and primary department of centers for disease control and prevention (CDCs) in China to respond to infectious disease outbreaks such as COVID-19. To understand the current status and capacity of p-labs in Chinese CDCs during the COVID-19 pandemic, we conducted a nationwide cross-sectional survey among 399 respondents from 239 CDCs. Differences in the current status of p-labs in CDCs of provinces, cities, and counties mainly comprised laboratory equipment, IEIs, mastery of personal occupational skills, and maximum detection capacity. Most CDCs reported a lack of staff and funds for personnel, which should be a priority in China's upcoming public health reform. The development of sequencing technologies has received considerable attention in CDCs. These are mainly used to study respiratory viruses such as influenza and SARS-CoV-2. The COVID-19 pandemic has driven development of the CDCs in China, and personnel and funds are considered key factors in improving the detection capacity of CDC p-labs.
Changes in molecular characteristics and antimicrobial resistance of invasive Staphylococcus aureus infection strains isolated from children in Kunming, China during the COVID-19 epidemic

Invasive Staphylococcus aureus (S. aureus) infection is associated with high rates of mortality in children. No studies have been reported on invasive S. aureus infection among children in Kunming, China, and it remains unknown whether the COVID-19 epidemic has affected S. aureus prevalence in this region. Thus, this study investigated the changes in molecular characteristics and antimicrobial resistance of invasive S. aureus strains isolated from children in Kunming during 2019–2021. In total, 66 invasive S. aureus strains isolated from children were typed by multilocus sequence typing (MLST), spa, and Staphylococcal cassette chromosome mec (SCCmec), and antimicrobial resistance and virulence genes were analyzed. A total of 19 ST types, 31 spa types and 3 SCCmec types were identified. Thirty nine (59.09%) strains were methicillin-sensitive S. aureus (MSSA) and 27 (40.91%) strains were methicillin-resistant S. aureus (MRSA). The most common molecular type was ST22-t309 (22.73%, 15/66), followed by ST59-t437 (13.64%, 9/66). In 2019 and 2021, the dominant molecular type was ST22-t309, while in 2020, it was ST59-t437. After 2019, the dominant molecular type of MRSA changed from ST338-t437 to ST59-t437. All strains were susceptible to tigecycline, ciprofloxacin, moxifloxacin, vancomycin, quinopudine-dafoputin, linezolid, levofloxacin, and rifampicin. From 2019 to 2021, the resistance to penicillin and sulfamethoxazole initially decreased and then increased, a trend that contrasted with the observed resistance to oxacillin, cefoxitin, erythromycin, clindamycin, and tetracycline. Sixteen antimicrobial resistance profiles were identified, with penicillin-tetracycline-erythromycin-clindamycin-oxacillin-cefoxitin being the most common, and the antimicrobial resistance profiles varied by year. The carrier rates of virulence genes, icaA, icaD, hla, fnbA, fnbB, clfA, clfB, and cna were 100.00%. Furthermore, sak, pvl, icaC, icaR, fib, lip, hlb, hysA, sea, seb, and tsst-1 had carrier rates of 96.97, 92.42, 87.88, 69.70, 84.85, 62.12, 56.06, 50, 37.87, 30.30, and 7.58%, respectively. Since COVID-19 epidemic, the annual number of invasive S. aureus strains isolated from children in Kunming remained stable, but the molecular characteristics and antimicrobial resistance profiles of prevalent S. aureus strains have changed significantly. Thus, COVID-19 prevention and control should be supplemented by surveillance of common clinical pathogens, particularly vigilance against the prevalence of multidrug-resistant and high-virulence strains.
Rare disease-based scientific annotation knowledge graph

Rare diseases (RDs) are naturally associated with a low prevalence rate, which raises a big challenge due to there being less data available for supporting preclinical and clinical studies. There has been a vast improvement in our understanding of RD, largely owing to advanced big data analytic approaches in genetics/genomics. Consequently, a large volume of RD-related publications has been accumulated in recent years, which offers opportunities to utilize these publications for accessing the full spectrum of the scientific research and supporting further investigation in RD. In this study, we systematically analyzed, semantically annotated, and scientifically categorized RD-related PubMed articles, and integrated those semantic annotations in a knowledge graph (KG), which is hosted in Neo4j based on a predefined data model. With the successful demonstration of scientific contribution in RD via the case studies performed by exploring this KG, we propose to extend the current effort by expanding more RD-related publications and more other types of resources as a next step.
Musical feedback system Jymmin® leads to enhanced physical endurance in the elderly—A feasibility study

Background and objectives Active music-making in combination with physical exercise has evoked several positive effects in users of different age groups. These include enhanced mood, muscular effectivity, pain threshold, and decreased perceived exertion. The present study tested the applicability of this musical feedback system, called Jymmin®, in combination with strength-endurance exercises in a population of healthy older adults. Research design and methods Sixteen healthy, physically inactive older adults (5 males, 11 females) at the mean age of 70 years performed physical exercise in two conditions: A conventional work-out while listening passively music and a Jymmin® work-out, where musical sounds were created with one's work-out movements. According to the hypothesis that strength-endurance is increased during musical feedback exercise, parameters relating to strength-endurance were assessed, including exercise duration, number of repetitions, perceived exertion (RPE), and participants' mental state (Multidimensional Mood State Questionnaire; MDMQ). Results Results show that participants exercised significantly longer while doing Jymmin® (Mdn = 248.75 s) as compared to the conventional work-out (Mdn = 182.73 s), (Z = 3.408, p = 0.001). The RPE did not differ between conventional work-out and the Jymmin® condition, even though participants worked out significantly longer during the Jymmin® condition (Mdn = 14.50; Z = −0.905; p = 0.366). The results of the MDMQ showed no significant differences between both conditions (Z = −1.037; p = 0.300). Discussion and implications Results show that participants could work out longer while showing the same perceived exertion, relating to increased physical endurance. Music feedback work-out encouraged a greater degree of isometric contractions (muscle actively held at fixed length) and, therefore, less repetitions in this condition. In addition to the previously described effect on muscle effectivity, this non-stereotypic contraction pattern during music feedback training may have enhanced endurance in participants supporting them to better proportion energetic reserves during training (pacing). Clinical trial registration Identifier: DRKS00023645.
Nigella sativa supplementation improves cardiometabolic indicators in population with prediabetes and type 2 diabetes mellitus: A systematic review and meta-analysis of randomized controlled trials

Objective Nigella sativa (N. sativa) from the family Ranunculaceae has medicinal properties. Previous studies have reported promising findings showing that N. sativa may benefit cardiometabolic health; however, current evidence on its cardiometabolic effects on those with prediabetes and type 2 diabetes mellitus (T2DM) is still unclear. Hence, we conducted a systematic review and meta-analysis to assess the efficacy of N. sativa on cardiometabolic parameters in population with prediabetes and T2DM. Methods PubMed/Medline, ISI Web of Science, Scopus, and Cochrane library were systematically searched up to June 20, 2022. Meta-analyses using random-effects models were used. Results Eleven randomized controlled trials (RCTs) were included in the meta-analysis. N. sativa intervention resulted in significant changes in fasting plasma glucose (FPG), hemoglobin A1c (HbA1c), total cholesterol (TC), low-density lipoprotein cholesterol (LDL-C), c-reactive protein (CRP), and malondialdehyde (MDA), without overall changes in glucose levels after oral glucose tolerance test (OGTT), fasting insulin, homeostatic model assessment of insulin resistance (HOMA-IR), triglyceride, high-density lipoprotein cholesterol (HDL-C), and body mass index (BMI) when compared with the control group. In subgroup analyses, N. sativa supplementation enhanced serum levels of HDL-C in subjects with baseline HDL-C lower than 40 mg/dL. Furthermore, HOMA-IR and BMI values decreased in the N. sativa-supplemented group compared with the control group, when the length of follow-up was more than 8 weeks and the dose was more than 1 g/day for N. sativa supplementation, respectively. Conclusion Our findings indicate that N. sativa supplementation may effectively improve cardiometabolic profiles in individuals with prediabetes and T2DM.
B4galnt2-mediated host glycosylation influences the susceptibility to Citrobacter rodentium infection

Histo-blood group antigens in the intestinal mucosa play important roles in host–microbe interactions and modulate the susceptibility to enteric pathogens. The B4galnt2 gene, expressed in the GI tract of most mammals, including humans, encodes a beta-1,4-N-acetylgalactosaminyltransferase enzyme which catalyzes the last step in the biosynthesis of the Sd(a) and Cad blood group antigens by adding an N-acetylgalactosamine (GalNAc) residue to the precursor molecules. In our study, we found that loss of B4galnt2 expression is associated with increased susceptibility to Citrobacter rodentium infection, a murine model pathogen for human enteropathogenic Escherichia coli. We observed increased histopathological changes upon C. rodentium infection in mice lacking B4galnt2 compared to B4galnt2-expressing wild-type mice. In addition, wild-type mice cleared the C. rodentium infection faster than B4galnt2−/− knockout mice. It is known that C. rodentium uses its type 1 fimbriae adhesive subunit to bind specifically to D-mannose residues on mucosal cells. Flow cytometry analysis of intestinal epithelial cells showed the absence of GalNAc-modified glycans but an increase in mannosylated glycans in B4galnt2-deficient mice compared to B4galnt2-sufficient mice. Adhesion assays using intestinal epithelial organoid-derived monolayers revealed higher C. rodentium adherence to cells lacking B4galnt2 expression compared to wild-type cells which in turn was reduced in the absence of type I fimbriae. In summary, we show that B4galnt2 expression modulates the susceptibility to C. rodentium infection, which is partly mediated by fimbriae-mannose interaction.
Pollution level of trace metals (As, Pb, Cr and Cd) in the sediment of Rupsha River, Bangladesh: Assessment of ecological and human health risks

The study area was selected in the Rupsha river basin and the sediment samples were collected to determine trace metal concentrations of As, Pb, Cd, and Cr along with biological effects, and potential ecological and human health hazards for adults and children. The concentrations of trace metals were detected from sixty composite sediment samples using an Atomic Absorption Spectrophotometer (AAS) following some sequential analytical procedures. The mean concentrations of trace metals were organized in the descending order of chromium (Cr) (43.2 mg/kg) > lead (Pb) (29.21 mg/kg) > arsenic (As) (5.18 mg/kg) > cadmium (Cd) (1.8 mg/kg). The current study highlighted that metals were attributed to the riverine sediments from natural sources and other anthropogenic sources, particularly from various industries. Based on the effect-range classifications of threshold effect concentration (TEC) and probable effect concentration (PEC), the trace metal concentrations can impact on the sediment-dwelling organisms occasionally especially for Cr, Cd, and Pb. That is, the concentrations had negative biological consequences on aquatic creatures. The assessed potential ecological risk of Cd offers a significant risk to the aquatic ecosystem, whereas As, Cr, and Cd were in low-risk. Most of the sites of the study area were within the range of moderate risk, indicated by the risk index (RI) values. Furthermore, the applied sediment quality indices, geo-accumulation index (I geo) indicated that sediment was contaminated by Cd whereas contamination factor (CF) denoted that the sediment of the study area was moderately polluted by Pb. However, pollution load index (PLI) revealed that the study area was polluted for cumulative sence especially in winter season. The age-group risk index (HI) was much lower than the threshold limit of 1, showing that the pollution had no non-carcinogenic risk effect. Total carcinogenic risk (TCR) was less than one-tenth of a percentile. For the sake of human and environmental health, proper monitoring of metal element attribution and strict regulation are required to lessen trace metal pollution.
Assessing bilateral ankle proprioceptive acuity in stroke survivors: An exploratory study

Background Bilateral proprioception deficits were reported in stroke survivors. However, whether bilateral proprioception deficits exist in the ankle joint after stroke was unclear. Ankle proprioception is a significant predictor of balance dysfunction after stroke, and previous studies to date are lacking appropriate evaluation methods. Objectives We want to determine whether the active movement extent discrimination apparatus (AMEDA) is a reliable tool for assessing ankle proprioceptive acuity in stroke survivors and the presence of deficits in ankle proprioception on the affected and unaffected sides in patients after stroke. Methods Bilateral ankle proprioception was assessed in 20 stroke patients and 20 age-matched healthy controls using AMEDA. Test-retest reliability was assessed using the intraclass correlation coefficient (ICC). Results The ICC in the affected and unaffected sides was 0.713 and 0.74, respectively. Analysis of variance revealed significant deficits in ankle proprioception in subacute stroke survivors vs. healthy controls (F = 2.719, p = 0.045). However, there were no significant differences in proprioception acuity scores between the affected and unaffected sides in patients after stroke (F = 1.14, p = 0.331). Conclusions Stroke survivors had bilateral deficits in ankle proprioceptive acuity during active movements compared with age-matched healthy controls, underscoring the need to evaluate these deficits on both sides of the body and develop effective sensorimotor rehabilitation methods for this patient population. The AMEDA can reliably determine bilateral ankle proprioceptive acuity in stroke survivors.
High percentages of peripheral blood T-cell activation in childhood Hodgkin's lymphoma are associated with inferior outcome

The aims of this study were to investigate the activation of T lymphocytes in peripheral blood from children with Hodgkin's lymphoma (HL) and explore their roles for prognosis in HL. A cohort of 52 newly diagnosed children with HL during the past 10 years was enrolled for analysis in this study. Peripheral blood samples of the patients were acquired before treatment in our hospital, and T-cell subsets were detected by a four-color flow cytometer. CD4+ T cells and CD4+/CD8+ T-cell ratio decreased significantly in patients with HL vs. healthy controls. CD8+ T cells, CD3+CD4+HLA-DR+ T cells, and CD3+CD8+HLA-DR+ T cells increased markedly in patients with HL vs. healthy controls. Receiver-operating characteristic (ROC) curve analysis showed that CD3+CD4+HLA-DR+ T cells and CD3+CD8+HLA-DR+ T cells each distinguished the high-risk group from the low- and intermediate-risk group. The area under the ROC curve for predicting high-risk patients was 0.795 for CD3+CD4+HLA-DR+ T cell and 0.784 for CD3+CD8+HLA-DR+ T cell. A comparison of peripheral blood T-cell subsets that responded differently to therapy showed significantly higher percentages of CD3+CD4+HLA-DR+ T cells and CD3+CD8+HLA-DR+ T cells in patients who achieved complete remission compared to those who did not achieve complete remission. In addition, high percentages of both CD3+CD4+HLA-DR+ T cells and CD3+CD8+HLA-DR+ T cells were associated with inferior event-free survival. Peripheral immune status may be related to disease severity in HL. CD3+CD4+HLA-DR+ T cells and CD3+CD8+HLA-DR+ T cells may be a novel indicator for risk stratification of HL and may be an independent risk factor for inferior outcome in childhood HL.
Numerical simulation of low reynolds number 2-d rough blade compressor cascade

In this paper, a double-circular-arc cascade was used as the research object to study the effect of roughness on the compressor cascade under the conditions of different incoming attack angles. The Reynolds number of the cascade is 1.5 × 10 5 . The profile of the suction surface is changed to simulate the change in surface roughness. A uniformly distributed 238 control points were selected on the suction surface profile of the smooth blade. The 238 points are increased randomly along with the normal phase of the wall, and a smooth curve connects these points to obtain a rough suction surface profile. In this study, numerical simulation methods were used to calculate the cascade flow field under 5 kinds of attack angles and 6 kinds of suction surface roughness (including smooth surface). In this paper, k − ω SST and large eddy simulation were used for numerical simulation calculation with the model respectively. The calculation results show that the effect of roughness on the flow field of the cascade is different under different angles of attack. When 70 < k s + < 130 the rough suction surface can increase the lift coefficient of the compressor blade.
Low-Cost, Deep-Sea Imaging and Analysis Tools for Deep-Sea Exploration: A Collaborative Design Study

A minuscule fraction of the deep sea has been scientifically explored and characterized due to several constraints, including expense, inefficiency, exclusion, and the resulting inequitable access to tools and resources around the world. To meet the demand for understanding the largest biosphere on our planet, we must accelerate the pace and broaden the scope of exploration by adding low-cost, scalable tools to the traditional suite of research assets. Exploration strategies should increasingly employ collaborative, inclusive, and innovative research methods to promote inclusion, accessibility, and equity to ocean discovery globally. Here, we present an important step toward this new paradigm: a collaborative design study on technical capacity needs for equitable deep-sea exploration. The study focuses on opportunities and challenges related to low-cost, scalable tools for deep-sea data collection and artificial intelligence-driven data analysis. It was conducted in partnership with twenty marine professionals worldwide, covering a broad representation of geography, demographics, and domain knowledge within the ocean space. The results of the study include a set of technical requirements for low-cost deep-sea imaging and sensing systems and automated image and data analysis systems. As a result of the study, a camera system called Maka Niu was prototyped and is being field-tested by thirteen interviewees and an online AI-driven video analysis platform is in development. We also identified six categories of open design and implementation questions highlighting participant concerns and potential trade-offs that have not yet been addressed within the scope of the current projects but are identified as important considerations for future work. Finally, we offer recommendations for collaborative design projects related to the deep sea and outline our future work in this space.
Epidemiologic and clinical characteristics of human bocavirus infection in children hospitalized for acute respiratory tract infection in Qingdao, China

Persistent infection and prolonged shedding of human bocavirus 1 (HBoV1) in children have been reported, and the role of HBoV1 as a sole causative pathogen in acute respiratory infection (ARI) is yet to be established. While the reported prevalence of HBoV infection varies due to different detection methods and sampling criteria, determining the viral and bacterial etiology of HBoV infection using multiplex real-time PCR is yet to be reported. Herein, we aimed to further explore the pathogenicity of HBoV in patients with ARI by screening the viral and bacterial infections in children with ARI in Qingdao and comparing the epidemiological, clinical characteristics, and etiological results. Human bocavirus was identified in 28.1% of the samples, and further sequencing analysis of the detected HBoV confirmed 96.4% as HBoV1. The rate of HBoV as a single viral infection was 75%, and the rate of coinfection with bacteria was 66.1%, suggesting the need for continued monitoring of HBoV in children with ARIs. Clinical characterization suggested that HBoV infection may affect the function of organs, such as the liver, kidney, and heart, and the blood acid–base balance. Additionally, it is essential to promote awareness about the importance of disinfection and sterilization of the hospital environment and standardizing operations. The interactions between HBoV and other pathogens remain to be investigated in further detail in the future.