Miracle-dz/UniFAR-FTUs huggingface dataset:
RNA-Seq combined with population-level analysis reveals important candidate genes related to seed size in flax (Linum usitatissimum L.)

Seed size is a key determinant of crop yields. Understanding the regulatory mechanisms of seed size is beneficial for improving flax seed yield. In this study, the development of large flax seeds lagged behind that of small seeds, and 1,751 protein-coding genes were differentially expressed in early seeds, torpedo-stage embryos, and endosperms of CIli2719 and Z11637 using RNA sequencing. Homologous alignment revealed that 129 differentially expressed genes (DEGs) in flax were homologous with 71 known seed size–related genes in Arabidopsis thaliana and rice (Oryza sativa L.). These DEGs controlled seed size through multiple processes and factors, among which phytohormone pathways and transcription factors were the most important. Moreover, 54 DEGs were found to be associated with seed size and weight in a DEG-based association study. Nucleotide diversity (π) analysis of seed size–related candidate DEGs by homologous alignment and association analysis showed that the π values decreased significantly during flax acclimation from oil to fiber flax, suggesting that some seed size–related candidate genes were selected in this acclimation process. These results provide important resources and genetic foundation for further research on seed size regulation and seed improvement in flax.
Lesions causing post-stroke spasticity localize to a common brain network

Objective The efficacy of clinical interventions for post-stroke spasticity (PSS) has been consistently unsatisfactory, probably because lesions causing PSS may occur at different locations in the brain, leaving the neuroanatomical substrates of spasticity unclear. Here, we investigated whether heterogeneous lesions causing PSS were localized to a common brain network and then identified the key nodes in this network. Methods We used 32 cases of PSS and the Human Connectome dataset (n = 1,000), using a lesion network mapping method to identify the brain regions that were associated with each lesion in patients with PSS. Functional connectivity maps of all lesions were overlaid to identify common connectivity. Furthermore, a split-half replication method was used to evaluate reproducibility. Then, the lesion network mapping results were compared with those of patients with post-stroke non-spastic motor dysfunction (n = 29) to assess the specificity. Next, both sensitive and specific regions associated with PSS were identified using conjunction analyses, and the correlation between these regions and PSS was further explored by correlation analysis. Results The lesions in all patients with PSS were located in different cortical and subcortical locations. However, at least 93% of these lesions (29/32) had functional connectivity with the bilateral putamen and globus pallidus. These connections were highly repeatable and specific, as compared to those in non-spastic patients. In addition, the functional connectivity between lesions and bilateral putamen and globus pallidus in patients with PSS was positively correlated with the degree of spasticity. Conclusion We identified that lesions causing PSS were localized to a common functional connectivity network defined by connectivity to the bilateral putamen and globus pallidus. This network may best cover the locations of lesions causing PSS. The putamen and globus pallidus may be potential key regions in PSS. Our findings complement previous neuroimaging studies on PSS, contributing to identifying patients with stroke at high risk for spasticity at an early stage, and may point to PSS-specific brain stimulation targets.
Genetic variants associated with circulating liver injury markers in Mexican Americans, a population at risk for non-alcoholic fatty liver disease

Objective: Mexican Americans are disproportionally affected by non-alcoholic fatty liver disease (NAFLD), liver fibrosis and hepatocellular carcinoma. Noninvasive means to identify those in this population at high risk for these diseases are urgently needed. Approach: The Cameron County Hispanic Cohort (CCHC) is a population-based cohort with high rates of obesity (51%), type 2 diabetes (28%) and NAFLD (49%). In a subgroup of 564 CCHC subjects, we evaluated 339 genetic variants previously reported to be associated with liver injury markers aspartate aminotransferase (AST) and alanine aminotransferase (ALT) in United Kingdom and Japanese cohorts. Results: Association was confirmed for 86 variants. Among them, 27 had higher effect allele frequency in the CCHC than in the United Kingdom and Japanese cohorts, and 16 had stronger associations with AST and ALT than rs738409 (PNPLA3). These included rs17710008 (MYCT1), rs2519093 (ABO), rs1801690 (APOH), rs10409243 (S1PR2), rs1800759 (LOC100507053) and rs2491441 (RGL1), which were also associated with steatosis and/or liver fibrosis measured by vibration-controlled transient elastography. Main contributors to advanced fibrosis risk were rs11240351 (CNTN2), rs1800759 (LOC100507053), rs738409 (PNPLA3) and rs1801690 (APOH), with advanced fibrosis detected in 37.5% of subjects with 3 of these 4 variants [AOR = 11.6 (95% CI) = 3.8–35.3]. AST- and ALT-associated variants implicated distinct pathways (ethanol and galactose degradation versus antigen presentation and B cell development). Finally, 8 variants, including rs62292950 (DNAJC13), were associated with gut microbiome changes. Conclusion: These genotype-phenotype findings may have utility in risk modeling and disease prevention in this high-risk population.
Pre-season body composition has minimal influence on in-season match availability, and match performance in female Australian Football League (AFLW) players

This study examined the relationship between pre-season body composition, in-season match performance, and match availability in female players competing in the Australian Football League Women's (AFLW) competition. With the outlawing of body composition assessments as part of pre-draft player evaluations in the AFLW, this study seeks to examine whether this is justified. Twenty-two (n = 22) players had body composition assessed with dual-energy x-ray absorptiometry at the beginning of the 2021 AFLW pre-season (whole-body and regional fat mass and lean soft-tissue mass [LSTM]). In-season match availability and match performance data (Coaches Score [CS], Champion Data Player Rank, average disposals, disposal and kicking efficiency) were collected throughout the 2021 competition. Pearson correlations were performed to assess if associations existed between body composition and in-season match performance and availability. A median split was performed to divide players into higher and lower performing groups for match performance variables. Two-sample independent t-tests were then used to assess differences between groups. No body composition characteristics could differentiate between in-season match availability groups (100% availability vs. <100% availability) or higher and lower performing groups for all match performance variables. Total leg LSTM asymmetry shared a moderate negative association with CS. Body composition may not be important for determining in-season match availability and performance in female AFLW players. Thus, the repercussions following the removal of pre-draft body composition assessments across the league may not be as significant as is currently perceived. Other physiological, biomechanical, or performance qualities are more variable and may mask the effect of body composition in these players. AFLW practitioners should prioritize the development of other important attributes, such as aerobic fitness, muscular strength and power, and technical skill.
Cytokine-primed umbilical cord mesenchymal stem cells enhanced therapeutic effects of extracellular vesicles on osteoarthritic chondrocytes

In recent years, extracellular vesicles (EVs) secreted by mesenchymal stem cells (MSCs) have emerged as a potential cell-free therapy against osteoarthritis (OA). Thus, we investigated the therapeutic effects of EVs released by cytokine-primed umbilical cord-derived MSCs (UCMSCs) on osteoarthritic chondrocyte physiology. Priming UCMSCs individually with transforming growth factor beta (TGFβ), interferon alpha (IFNα), or tumor necrosis factor alpha (TNFα) significantly reduced the sorting of miR-181b-3p but not miR-320a-3p; two negative regulators of chondrocyte regeneration, into EVs. However, the EV treatment did not show any significant effect on chondrocyte proliferation. Meanwhile, EVs from both non-priming and cytokine-primed UCMSCs induced migration at later time points of measurement. Moreover, TGFβ-primed UCMSCs secreted EVs that could upregulate the expression of chondrogenesis markers (COL2 and ACAN) and downregulate fibrotic markers (COL1 and RUNX2) in chondrocytes. Hence, priming UCMSCs with cytokines can deliver selective therapeutic effects of EV treatment in OA and chondrocyte-related disorders.
Ancestral sea gardens supported human settlements for at least 3,800 years on the Northwest Coast of North America

The relationships between clam gardens and human settlement throughout the millennia reflects the inseparable links among human demographics, marine management systems, and the social-ecological contexts in which they are embedded. However, it can be difficult to assign causation between the initiation and development of eco-cultural innovations like clam gardens and the proliferation of human societies due to the temporal uncertainties associated with both. Here, we bring together data on the shape of the local relative sea level curve, clam garden wall elevation as determined by GIS and drone imagery, radiocarbon dates of clam garden walls, and ecological and archaeological field observations, to assign proxy ages for the clam garden walls of different tidal heights in Kanish and Waiatt Bay on northern Quadra Island, British Columbia, Canada. These data, combined with our mapping and dating of settlement sites, demonstrate a temporal relationship between clam garden building effort and the densification of human settlements. In Kanish Bay, where we have high resolution data, clam gardens begin to be constructed in significant numbers at least 3,800 years ago; this corresponds to a time of increased establishment of large human settlements. The corresponding increase in settlements and clam gardens reflects both the need to increase sustainable food production and the larger number of people who could sustain the ecological and social foundations of the production system. The correlation between number and area of clam gardens and the number of new, large settlements continues until ∼2000 years ago. After this time, existing settlements increase in size, but no additional large settlements were established. New clam gardens continue to be built but in seemingly lower numbers. This shift in settlements and clam gardens suggest that a threshold in social-ecological carrying capacity may have been reached in this land- and seascape. In the last few centuries, there is a dramatic decline in the number of clam gardens and evidence of human settlement, corresponding to social and ecological changes associated with European colonization. Taken together, these data demonstrate the strong linkages among Indigenous peoples, their lands and seas, and resilient food systems over the millennia.
X‐ray spectra of a large sample of quasars with ASCA

The results from an X-ray spectral analysis of a large sample of quasars, observed with ASCA, are presented. The sample was selected to include all ASCA observations of quasars, with z>0.05 and MV 99 per cent confidence, confirming the well-known trend between Γ and Hβ FWHM in Seyfert 1s, but at higher luminosities. Other spectral complexities are observed from this sample. A soft X-ray excess, with blackbody temperatures in the range 100–300 eV, is seen in many low-z radio-quiet quasars. In most cases the temperatures are probably too hot to originate directly from the disc and could imply that some reprocessing is involved. Iron K-line emission features are also found in the RQQs, but often from partially ionized material. Indeed, in the highest-luminosity RQQs there is neither evidence for iron line emission nor the reflection component expected from disc reflection models. These observations can be explained by an increase in the quasar accretion rate with luminosity, leading to an increase in the ionization state of the surface layers of the disc. The occurrence of ionized or ‘warm’ absorbers is rare in this sample, with only five detections in low-z objects. However, excess neutral X-ray absorption is found towards several of the high-z, predominantly radio-loud, quasars. Although found to increase with quasar redshift, this ‘intrinsic’ absorption may be associated with radio-loud active galactic nuclei.
Life cycle impacts of concentrated solar power generation on land resources and soil carbon losses in the United States

Endpoint impacts related to the transformation of land—including that related to energy infrastructure—have yet to be fully quantified and understood in life cycle assessment (LCA). Concentrated solar power (CSP) which generates electricity by using mirrors to concentrate incoming shortwave radiation onto a receiver, may serve as an alternate source of reliable baseload power in the coming years. As of 2019 (baseline year of the study), the United States (U.S.) had 1.7 GW of installed capacity across a total of eight CSP sites. In this study, we (1) develop an empirical, spatially explicit methodology to categorize physical elements embodied in energy infrastructure using a LCA approach and manual image annotation, (2) use this categorization scheme to quantify land- and ecosystem service-related endpoint impacts, notably potential losses in soil carbon, owing to energy infrastructure development and as a function of electricity generated (i.e., megawatt-hour, MWh); and (3) validate and apply this method to CSP power plants within the U.S. In the Western U.S., CSP projects are sited in Arizona, California, and Nevada. Project infrastructure can be disaggregated into the following physical elements: mirrors (“heliostats”), generators, internal roads, external roads, substations, and water bodies. Of these elements, results reveal that mirrors are the most land intensive element of CSP infrastructure (>90%). Median land transformation and capacity-based land-use efficiency are 0.4 (range of 0.3–6.8) m2/MWh and 40 (range of 11–48) W/m2, respectively. Soil grading and other site preparation disturbances may result in the release of both organic and inorganic carbon—the latter representing the majority stocks in deeper caliche layers—thus leading to potentially significant losses of stored carbon. We estimate three scenarios of soil carbon loss into the atmosphere across 30 years, based on land transformation in m2 per megawatt-hour (m2/MWh) and carbon stock in kilograms of carbon per megawatt-hour (kg C/MWh). Results reveal that potential belowground CO2 released may range from 7 to 137% of total life cycle CO2 emissions. While this study takes a simplistic approach to estimating loss of carbon, the broad methodology provides a valuable baseline for improving comparative analyses of land-related endpoint impacts across energy technologies and other product systems.
Editorial: The human brain multiscale imaging challenge

COPYRIGHT © 2022 Costantini, Axer, Magnain and Hof. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms. Editorial: The human brain multiscale imaging challenge
Cryoablation and immune synergistic effect for lung cancer: A review

The preferred treatment for lung cancer is surgical resection, but a large number of patients are not suitable for surgical resection in clinic. CT-guided cryoablation and immunotherapy can play an important role in patients with advanced lung cancer who are ineligible for surgery. CT-guided cryoablation has been widely used in the clinical treatment of lung tumors due to its advantages of less trauma, fewer complications, significant efficacy and rapid recovery. Cryoablation can not only cause tumor necrosis and apoptosis, but also promote the release of tumor-derived autoantigens into the blood circulation, and stimulate the host immune system to produce a good anti-tumor immune effect against primary and metastatic tumors. Since the study of immune checkpoint inhibitors has proved that lung cancer can be an immunotherapeutic response disease, the relationship between cryoablation and immunotherapy of lung cancer has been paid more attention. Therefore, we reviewed the literature on cryoablation for lung cancer, as well as the research progress of cryoablation combined with immunotherapy.
Using probiotics to improve the utilization of chopped dried date palm leaves as a feed in diets of growing Farafra lambs

The study determined the ability of three probiotics to improve the nutritional value of date palm leaves in diets of growing lambs. Twenty male Farafra lambs (26 ± 0.33 kg) were randomly allocated to one of four treatments (n = 6) and fed: a control or basal diet (C; 70% concentrate + 30% date palm leaves without additives) and supplemented with Bacillofort containing 2 × 1011 CFU of Bacillus subtilis/g (BAC treatment), Lacotpro containing 1 × 1012 CFU of Lactobacillus acidophilus/g (LAC treatment) or ZAD containing 6 × 108 CFU of R. albus/g (ZAD treatment) at 4 g of all additives for 150 days. As a result of this study, LAC improved (P < 0.05) growth performance and feed efficiency compared to control. Additives increased (P = 0.001) concentrations of albumin, triiodothyronine, and thyroxine, hemoglobin concentration and red blood cells and decreased (P = 0.001) globulin and urea-N. Additives increased hot carcass (P = 0.040) while BAC increased Longissimus dorsi, meat and fat without affecting water holding capacity compared to other treatments. In the metabolism experiment, BAC increased the digestibility of crude protein, while BAC and ZAD increased the digestibility of dry matter, organic matter, and neutral detergent fiber. Additives did not affect nitrogen (N) intake and urinary N; however, decreased fecal N and increased N balance compared to the control. BAC and ZAD increased ruminal volatile fatty acids concentration compared to the control. Based on our results, Lacotpro could be used to improve growth performance and feed efficiency, while Bacillofort could be used to improve meat quality of in lambs.
Comparison between thoracic low-dose computed tomography and conventional-dose computed tomography in evaluating anemia: A preliminary study in a Chinese screening cohort

Purpose To investigate and evaluate the value of thoracic low dose computed tomography (LDCT) scan in the diagnosis of anemia. Materials and methods 661 patients who received thoracic computed tomography (CT) examination and underwent a peripheral blood examination were retrospectively included. 341 patients underwent conventional dose CT (CDCT), and 320 patients underwent LDCT. Regions of interest (ROI) were placed on the left ventricular cavity (LV), descending aorta (DAo), and interventricular septum (IVS). The corresponding CT attenuation was measured, and the CT attenuation difference between LV and IVS (IVS-LV) and between DAo and IVS (IVS-DAo) was calculated, respectively. One-way analysis of variance (ANOVA) and linear regression were performed to analyze the relationship between these indicators and Hb levels. The receiver operating characteristic (ROC) curve was used to evaluate prediction performance. Results Both attenuation on LDCT and CDCT showed significant differences between the healthy group and the anemic group (P < 0.05). In the LDCT group, the LV and DAo were more relevant with the hemoglobin (Hb) level (correlation coefficient 0.618 and 0.602) than other indicators, with AUCs of 0.815 (95% CI: 0.763–0.868) and 0.803 (95% CI: 0.747–0.859), respectively. The linear regression formulas for Hb level with the LV and DAo were 19.14 + 0.15 × HU [95% CI: (16.52, 21.75) + (0.12, 0.17) × HU] and 19.46 + 0.16 × HU [95% CI: (16.55, 22.36) + (0.13, 0.18) × HU], respectively. Youden’s index indicated that 37.5 HU and 38.5 HU were the best thresholds to diagnose anemia for LV and DAo, respectively. In the CDCT group, the LV and IVS-LV got obviously higher correlation coefficients (0.813 and 0.812), with AUCs of 0.831 (95% CI: 0.786–0.877) and 0.851 (95% CI: 0.808–0.894), respectively. The optimal thresholds for LV and IVS-LV were 40.5 HU and 9.5 HU, respectively. Conclusion In LDCT examinations, an approximation of Hb level and detecting of anemia can be conducted based on simple attenuation measurements.
The modulation of potassium channels by estrogens facilitates neuroprotection

Estrogens, the sex hormones, have the potential to govern multiple cellular functions, such as proliferation, apoptosis, differentiation, and homeostasis, and to exert numerous beneficial influences for the cardiovascular system, nervous system, and bones in genomic and/or non-genomic ways. Converging evidence indicates that estrogens serve a crucial role in counteracting neurodegeneration and ischemic injury; they are thereby being considered as a potent neuroprotectant for preventing neurological diseases such as Alzheimer’s disease and stroke. The underlying mechanism of neuroprotective effects conferred by estrogens is thought to be complex and multifactorial, and it remains obscure. It is well established that the K+ channels broadly expressed in a variety of neural subtypes determine the essential physiological features of neuronal excitability, and dysfunction of these channels is closely associated with diverse brain deficits, such as ataxia and epilepsy. A growing body of evidence supports a neuroprotective role of K+ channels in malfunctions of nervous tissues, with the channels even being a therapeutic target in clinical trials. As multitarget steroid hormones, estrogens also regulate the activity of distinct K+ channels to generate varying biological actions, and accumulated data delineate that some aspects of estrogen-mediated neuroprotection may arise from the impact on multiple K+ channels, including Kv, BK, KATP, and K2P channels. The response of these K+ channels after acute or chronic exposure to estrogens may oppose pathological abnormality in nervous cells, which serves to extend our understanding of these phenomena.