Miracle-dz/UniFAR-FTUs huggingface dataset:
Involvement of extracellular vesicles in the progression, diagnosis, treatment, and prevention of whole-body ionizing radiation-induced immune dysfunction

Acute radiation syndrome (ARS) develops after exposure to high doses of ionizing radiation and features immune suppression and organ failure. Currently, there are no diagnostics to identify the occurrence or severity of exposure and there are limited treatments and preventative strategies to mitigate ARS. Extracellular vesicles (EVs) are mediators of intercellular communication that contribute to immune dysfunction across many diseases. We investigated if EV cargo can identify whole body irradiation (WBIR) exposure and if EVs promote ARS immune dysfunction. We hypothesized that beneficial EVs derived from mesenchymal stem cells (MSC-EVs) would blunt ARS immune dysfunction and might serve as prophylactic radioprotectants. Mice received WBIR (2 or 9 Gy) with assessment of EVs at 3 and 7 days after exposure. LC-MS/MS proteomic analysis of WBIR-EVs found dose-related changes as well as candidate proteins that were increased with both doses and timepoints (34 total) such as Thromboxane-A Synthase and lymphocyte cytosolic protein 2. Suprabasin and Sarcalumenin were increased only after 9 Gy suggesting these proteins may indicate high dose/lethal exposure. Analysis of EV miRNAs identified miR-376 and miR-136, which were increased up to 200- and 60-fold respectively by both doses of WBIR and select miRNAs such as miR-1839 and miR-664 were increased only with 9 Gy. WBIR-EVs (9 Gy) were biologically active and blunted immune responses to LPS in RAW264.7 macrophages, inhibiting canonical signaling pathways associated with wound healing and phagosome formation. When given 3 days after exposure, MSC-EVs slightly modified immune gene expression changes in the spleens of mice in response to WBIR and in a combined radiation plus burn injury exposure (RCI). MSC-EVs normalized the expression of certain key immune genes such as NFκBia and Cxcr4 (WBIR), Map4k1, Ccr9 and Cxcl12 (RCI) and lowered plasma TNFα cytokine levels after RCI. When given prophylactically (24 and 3 hours before exposure), MSC-EVs prolonged survival to the 9 Gy lethal exposure. Thus, EVs are important participants in ARS. EV cargo might be used to diagnose WBIR exposure, and MSC-EVs might serve as radioprotectants to blunt the impact of toxic radiation exposure.
Chaperone function in antigen presentation by MHC class I molecules—tapasin in the PLC and TAPBPR beyond

Peptide loading of MHC-I molecules plays a critical role in the T cell response to infections and tumors as well as to interactions with inhibitory receptors on natural killer (NK) cells. To facilitate and optimize peptide acquisition, vertebrates have evolved specialized chaperones to stabilize MHC-I molecules during their biosynthesis and to catalyze peptide exchange favoring high affinity or optimal peptides to permit transport to the cell surface where stable peptide/MHC-I (pMHC-I) complexes are displayed and are available for interaction with T cell receptors and any of a host of inhibitory and activating receptors. Although components of the endoplasmic reticulum (ER) resident peptide loading complex (PLC) were identified some 30 years ago, the detailed biophysical parameters that govern peptide selection, binding, and surface display have recently been understood better with advances in structural methods including X-ray crystallography, cryogenic electron microscopy (cryo-EM), and computational modeling. These approaches have provided refined mechanistic illustration of the molecular events involved in the folding of the MHC-I heavy chain, its coordinate glycosylation, assembly with its light chain, β2-microglobulin (β2m), its association with the PLC, and its binding of peptides. Our current view of this important cellular process as it relates to antigen presentation to CD8+ T cells is based on many different approaches: biochemical, genetic, structural, computational, cell biological, and immunological. In this review, taking advantage of recent X-ray and cryo-EM structural evidence and molecular dynamics simulations, examined in the context of past experiments, we attempt a dispassionate evaluation of the details of peptide loading in the MHC-I pathway. By critical evaluation of several decades of investigation, we outline aspects of the peptide loading process that are well-understood and indicate those that demand further detailed investigation. Further studies should contribute not only to basic understanding, but also to applications for immunization and therapy of tumors and infections.
Maternal plasma and salivary anelloviruses in pregnancy and preterm birth

Introduction Human anelloviruses, including torque teno virus (TTV) and torque teno mini virus (TTMV), are ubiquitous in the general population and have no known pathogenicity. We investigated the prevalence and viral load of TTV and TTMV in plasma and saliva over pregnancy, and assessed their association with spontaneous or medically indicated preterm birth. Methods This is a secondary analysis of the Measurement of Maternal Stress (MOMS) study, which recruited 744 individuals with singleton pregnancies from 4 US sites (Chicago, Pittsburgh, San Antonio, and rural Pennsylvania). Baseline outpatient visits took place in the second trimester (between 12′0 and 20′6/7 weeks’ gestation), and follow-up visits in the third trimester (between 32′0 and 35′6/7 weeks’ gestation). In a case-control study design, participants who delivered preterm (<37 weeks) resulting from spontaneous labor and/or preterm premature rupture of membranes (“sPTB”) were compared with participants experiencing medically indicated preterm birth (“iPTB”), or delivery at term (“controls”). Plasma and saliva samples obtained during the second and third trimesters were tested for the presence and quantity of TTV and TTMV using real-time PCR. Demographic data were obtained via self-report, and clinical data via medical record review by trained research personnel. Results TTV was detected in plasma from 81% (second trimester) and 77% (third trimester) of participants, and in saliva from 64 and 60%. Corresponding detection rates for TTMV were 59 and 41% in plasma, and 35 and 24% in saliva. TTV and TTMV concentrations were similar between matched plasma and saliva samples. TTV prevalence and concentrations were not significantly different between groups (sPTB, iPTB, and controls). However, plasma TTMV in the third trimester was associated with sPTB and earlier gestational age at delivery. The iPTB group was not different from either the sPTB or the control group. In saliva, concentrations of TTV and TTMV were similar among the three groups. Both TTV and TTMV were more prevalent with increasing parity and were more common in Black and Hispanic participants compared to non-Hispanic White participants. Conclusion Anellovirus presence (specifically, TTMV) in the third trimester may be associated with preterm birth. Whether this association is causative remains to be determined.
Investigating the retarding effect of CAC in alkali-activated cements

This paper discusses the design of hybrid alkali-activated binders at ambient temperature, specifically the development of mixes based on ground granulated blast-furnace slag (GGBFS) with calcium aluminate cement (CAC) as an additive, aiming to obtain high early strength binders with optimised Al incorporation, increased crosslinking and degree of polymerisation. The effects of 10 wt% CAC replacement of GGBFS, activated with sodium silicate with varying modulus (SiO2/Na2O molar ratio) or with sodium hydroxide, on fresh and hardened properties are investigated. The inclusion of CAC in GGBFS mixtures activated using sodium silicate results in an unexpected retardation of the polycondensation reactions required to form the main calcium aluminosilicate hydrate gel phase. This is due to incomplete dissolution of the GGBFS precursor, inhibited by the rapid formation of additional reaction products (especially cubic aluminate hydrates, C3AH6) resulting in lowered reaction kinetics, and thus delayed setting and hardening times. For sodium silicate activators, this retarding effect appears to be only slightly dependent on the activator solution modulus. When activating with 4 M NaOH, the retarding effect is reduced, along with the incorporation of CAC in the C-A-S-H gel, increasing the amount of reactive aluminium present in the binder to form a more compact gel product. Increasing the molarity of NaOH solutions results in a similar delay in reaction kinetics. The results suggest the existence of only a limited pH range in which the addition of CAC can promote the formation of a binding gel with enhanced mechanical properties, whilst other factors including the effect of sodium silicate inclusion in CAC systems are still unclear. The typical hydration products of CAC were not detected in this study.
Opening the black box of traumatic brain injury: a holistic approach combining human 3D neural tissue and an in vitro traumatic brain injury induction device

Traumatic brain injury (TBI) is caused by a wide range of physical events and can induce an even larger spectrum of short- to long-term pathophysiologies. Neuroscientists have relied on animal models to understand the relationship between mechanical damages and functional alterations of neural cells. These in vivo and animal-based in vitro models represent important approaches to mimic traumas on whole brains or organized brain structures but are not fully representative of pathologies occurring after traumas on human brain parenchyma. To overcome these limitations and to establish a more accurate and comprehensive model of human TBI, we engineered an in vitro platform to induce injuries via the controlled projection of a small drop of liquid onto a 3D neural tissue engineered from human iPS cells. With this platform, biological mechanisms involved in neural cellular injury are recorded through electrophysiology measurements, quantification of biomarkers released, and two imaging methods [confocal laser scanning microscope (CLSM) and optical projection tomography (OPT)]. The results showed drastic changes in tissue electrophysiological activities and significant releases of glial and neuronal biomarkers. Tissue imaging allowed us to reconstruct the injured area spatially in 3D after staining it with specific nuclear dyes and to determine TBI resulting in cell death. In future experiments, we seek to monitor the effects of TBI-induced injuries over a prolonged time and at a higher temporal resolution to better understand the subtleties of the biomarker release kinetics and the cell recovery phases.
The Measurement of Bubble-Size Distributions by Acoustical Backscatter

Abstract A multifrequency acoustical-backscatter technique is described for determining the size distribution of bubbles with radii between 8 and 130 µm. The method makes use of the resonance in the microbubbles and operates at six frequencies ranging from 28 to 400 kHz. It has the advantage that vertical profiles of the bubble-size distribution can be obtained for extended periods without need for in situ instrumentation. Algorithms have been developed for real-time calculation, including correction for wave orbital displacement, bubble attenuation of the transmitted pulse, and other effects.
Long-term development of performance, physiological, and training characteristics in a world-class female biathlete

Purpose The purpose of this study is to investigate the long-term development of performance, physiological, and training characteristics in a world-class female biathlete, with emphasis on differences between junior and senior athlete seasons. Methods The participant is a highly decorated female biathlete with 22 (10 gold) medals from international championships and 28 individual World Cup wins. Performance development (ages 17–33), physiological tests (ages 22–33), and day-to-day physical and shooting training (ages 17–33) were analyzed. Training data were systemized by endurance [low-intensity training (LIT), moderate-intensity training (MIT), and high-intensity training (HIT)], exercise mode, and strength training. Shooting training recorded for each session included the number of shots fired during rest, LIT, MIT, HIT, or competitions and time spent on dry fire training. Results The annual volume of physical training (409–792 h·season−1) and number of shots fired (1,163–17,328 shots·season−1) increased from the age of 17 to 28 followed by a subsequent reduction in physical training (range 657–763 h·season−1) and shots fired (13,275–15,355 shots·season−1) during the seasons of peak performance at ages 31–33. Maximal oxygen uptake in roller ski skating increased by 10% (62.9–69.2 ml·kg−1·min−1) from the age of 22 to 27. The physical training volume was 48% higher (694 ± 60 vs. 468 ± 23 h·season−1, P = .030), with 175% more shots fired (14,537 ± 1,109 vs. 5,295 ± 3,425 shots·season−1, P = .016) as a senior athlete than a junior athlete. In the physical training, these differences were mainly explained by higher volumes of LIT (602 ± 56 vs. 392 ± 22 h·season−1, P = .032) and MIT (34 ± 1 vs. 7 ± 2 h·season−1, P = .001) but less HIT (27 ± 1 vs. 42 ± 3 h·season−1, P = .006) as a senior than a junior. In line with this, shooting training as a senior included more shots fired both at rest (5,035 ± 321 vs. 1,197 ± 518 shots·season−1, P = .011) and during LIT (7,440 ± 619 vs. 2,663 ± 1,975 shots·season−1, P = .031), while a smaller insignificant difference was observed in the number of shots fired in connection with MIT, HIT, and competitions (2,061 ± 174 vs. 1,435 ± 893 shots·season−1, P = .149). Conclusions This study provides unique insights into the long-term development of physical and shooting training from junior to senior in a world-class female biathlete. The major differences in training characteristics between junior and senior athlete seasons were higher sport-specific volumes of LIT and MIT and less HIT. These differences were accompanied by more shooting training, particularly at rest, and in connection with LIT.
Experimental warming under field conditions alters starch multi-structure and flour and starch functionality of late-season indica-japonica hybrid rice in southern China

Introduction The effects of climate warming on starch multi-structure and flour and starch functionality of late-season indica-japonica hybrid rice (IJHR) in double-rice cropping systems are still unclear to date. Methods A 2 years field warming experiment was conducted by using free-air temperature increase facilities with an IJHR cultivar (Yongyou1538). The starch multi-structure and flour and starch functionality of IJHR were determined. Results Experimental warming (on average 2.1°C over the 2 years) reduced the amylose content and increased the amount of short amylopectin branch-chains (degree of polymerization 6–12), possibly due to decreased granule-bound starch synthase activity and increased starch-branch enzyme activity. Additionally, the protein content, starch granule diameter, relative crystallinity, and swelling power of IJHR were enhanced by experimental warming. The changes in rice components and starch multi-structure under warming conditions resulted in high peak viscosity, breakdown, pasting temperature, gelatinization temperatures and enthalpy and low setback of rice starch and high peak viscosity and pasting temperature and low setback of rice flour. Conclusion Our results indicated that climate warming might improve the pasting viscosities and enhance the thermal stability of late-season IJHR.
Left ventricular assist devices promote changes in the expression levels of platelet microRNAs

Introduction MicroRNAs (miRs) emerged as promising diagnostic and therapeutic biomarkers in cardiovascular diseases. The potential clinical utility of platelet miRs in the setting of left ventricular assist device (LVAD) support is unexplored. Methods We prospectively measured the expression levels of 12 platelet miRs involved in platelet activation, coagulation, and cardiovascular diseases in LVAD patients by quantitative real-time polymerase chain reaction. Data were longitudinally measured before LVAD implant and after 1, 6, and 12 months of LVAD support, and compared with those measured in healthy volunteers (controls). In silico analysis was also performed to identify pathways targeted by differentially expressed miRs. Results Data from 15 consecutive patients and 5 controls were analyzed. Pre-implant expression levels of platelet miR-126, miR-374b, miR-223, and miR-320a were significantly different in patients vs. controls. The expression levels of platelet miR-25, miR-144, miR-320, and miR-451a changed significantly over the course of LVAD support; in silico analysis revealed that these miRs are implicated in both cardiac- and coagulation-associated pathways. Furthermore, the patients who suffered from bleeding (n = 5, 33%) had significantly higher pre-implant expression levels of platelet miR-151a and miR-454 with respect to the patients who did not. The same miRs were also differentially expressed in bleeders following LVAD implantation early before the clinical manifestation of the events. Discussion This study provides a proof-of-concept evidence of significant modulation of platelet miRs expression driven by LVADs. The possible existence of a platelet miRs signature predictive of the development of bleeding events warrants further validation studies.
Status and factors associated with patient activation and its relationship with HIV clinic outcomes among Yi minority people living with HIV in Liangshan, China: a cross-sectional study

Introduction Patient activation is determined by an individual’s knowledge, skills and confidence in managing his/her health. It is vital for people living with HIV (PLWH) to enhance their self-management skills and health outcomes, especially those from low- and middle-income regions, since they are at higher risk of worse health outcomes. However, literature from those regions is limited, especially in China. Objectives This study aimed to explore the status and factors associated with patient activation among Yi minority PLWH in Liangshan, China and to determine whether patient activation is associated with HIV clinic outcomes. Methods This cross-sectional study included 403 Yi minority people living with HIV in Liangshan between September and October 2021. All participants completed an anonymous survey measuring sociodemographic characteristics, HIV-related information, patient activation and illness perception. Multivariate linear regression and multivariate binary logistic regression were used to explore factors associated with patient activation and the association between patient activation and HIV outcomes, respectively. Results The Patient Activation Measure (PAM) score was low (mean = 29.8, standard deviation = 4.1). Participants with negative illness perception, low income, and self-rated antiretroviral therapy (ART) effect based on self-perception were most likely to have a lower PAM score (β = −0.3, −0.2, −0.1, respectively; all p < 0.05); those with having disease knowledge learning experiences and an HIV-positive spouse were more likely to have a higher PAM score (β = 0.2, 0.2, respectively; both p < 0.001). A higher PAM score (AOR=1.08, 95% CI: 1.02, 1.14) was associated with viral suppression, mediated by gender (AOR=2.25, 95% CI: 1.38, 3.69). Conclusion Low patient activation level among Yi minority PLWH impacts HIV care. Our findings indicate patient activation is associated with viral suppression for minority PLWH in low- and middle-income settings, suggesting that tailored interventions enhancing patient activation may improve viral suppression.
Private management costs of Popillia japonica: a study of viticulture in Italy

The Japanese beetle (Popillia japonica) is classified as a high-priority pest in the European Union and is reported to have caused extensive damage to grapevine leaves in Italy. As there are few studies, which measure the beetle’s socio-economic impact, we conduct a first descriptive assessment of grapevine farmers’ perception of the beetle’s impact and assess the pest’s effect on private management costs using a partial budgeting approach. Our sample includes data from 65 producers and 118 vineyard plots. In terms of farmers’ perception, we find that farmers anticipate increased management costs and believe a further spread of the beetle will lead to at least moderate yield and quality damages for the majority of plots (58-91%). While farmers do not expect to stop grapevine cultivation for the majority of vineyard plots, affected farmers they believe it is likely to very likely for 29% of plots. We also find that affected farmers rate their vines’ resilience higher than unaffected farmers do. Using a partial budgeting approach, we find that a Japanese beetle infestation leads on average to a net income decrease of around €2727 per hectare. This decrease is due to an average increase in labor costs of around €1715. Additionally, an average yield reduction that results in a revenue loss of around €966 and additional control costs of around €47 per infested hectare, further contribute to the net income decrease. Even though the small number of observations does not allow us to make conclusions about the beetle’s impact on the Italian viticulture sector as a whole, our findings provide first insights and demonstrate the need for environmentally friendly and effective control products that can replace labor-intensive manual control measures, which are currently applied in Japanese beetle infested vineyards.
Geographical patterns and determinants in plant reproductive phenology duration

Biodiversity is and always has been an important issue in ecological research. Biodiversity can reflect niche partitioning among species at several spatial and temporal scales and is generally highest in the tropics. One theory to explain it is that low-latitude tropical ecosystems are dominated by species that are generally only distributed over a narrow area. This principle is known as Rapoport’s rule. One previously unconsidered extension of Rapoport’s rule may be reproductive phenology, where variation in flowering and fruiting length may reflect a temporal range. Herein, we collected reproductive phenology data for more than 20,000 species covering almost all angiosperm species in China. We used a random forest model to quantify the relative role of seven environmental factors on the duration of reproductive phenology. Our results showed that the duration of reproductive phenology decreased with latitude, although there was no obvious change across longitudes. Latitude explained more of the variation in the duration of flowering and fruiting phases in woody plants than in herbaceous plants. Mean annual temperature and the length of the growing season strongly influenced the phenology of herbaceous plants, and average winter temperature and temperature seasonality were important drivers of woody plant phenology. Our result suggests the flowering period of woody plants is sensitive to temperature seasonality, while it does not influence herbaceous plants. By extending Rapoport’s rule to consider the distribution of species in time as well as space, we have provided a novel insight into the mechanisms of maintaining high levels of diversity in low-latitude forests.