Miracle-dz/UniFAR-FTUs huggingface dataset:
Omega-3 fatty acids composition and lipid content from liver and muscle tissues of Katsuwonus pelamis in the Chabahar Port in the south west of Iran

Omega-3 fatty acids are polyunsaturated fatty acids that are essential nutrients for health. New studies are identifying potential benefits for a wide range of conditions including cancer, inflammatory bowel disease, and other autoimmune diseases such as lupus and rheumatoid arthritis. In this investigation, the liver and muscle tissues of Katsuwonus pelamis from the Iranian Port of Chabahar in March 2013 were separately extracted for their lipid content especially omega-3 fatty acids composition using the method of Blight and Dyer. The compounds were determined by Gas Chromatography-Mass Spectrometry (GCMS). The components detected in the liver and muscle tissues, include saturated fatty acids Palmitic acid and Stearic acid, monounsaturated fatty acid Oleic acid, polyunsaturated fatty acids Docosahexaenoic acid (DHA) and Eicosapentaenoic acid (EPA), two methyl esters of fatty acids including Octadecanoic acid, methyl ester and Hexadecanoic acid, methyl ester. The results showed that docosahexaenoic and eicosapentaenoic acids were the dominant Omega-3 polyunsaturated fatty acids in the species.
Intra-Operative and Immediate Post-Operative Complications of Cataract Surgery in an Eye Camp

Purpose: To analyze the intra-operative and immediate post-operative complications in patients after cataractsurgery in an eye camp.Study Design: Descriptive cross-sectional study.Place and Duration of Study: The study was conducted in a village of Nawabshah, Sindh, Pakistan from 7th to9th of February 2020.Material and Methods: Fifteen hundred patients were screened for visual disabilities of which 150 were selectedfor the study. They had a visual acuity of less than 6/9 in one or both eyes and had a cataract. The selectedpatients were operated using either phacoemulsification, extracapsular cataract extraction ECCE), intracapsularcataract extraction (ICCE) or small incision cataract surgery (SICS). The immediate intra-operative as well aspost-operative complications on day 1 after surgery were observed.Results: One hundred and fifty patients were operated. Age ranged from 14 years to 90 years, males were58.7% and females were 41.3%. The most common procedure performed was phacoemulsification 51.3%,followed by ECCE 30.0%, then SICS 18.0% and ICCE 0.7%. The most common intra-operative complication wasposterior capsule rent and the most common post-operative complication was striate keratopathy which was seenin 14.0% individuals. There was a significant association found for post-operative complications with gender withfemales having more post-operative complications as compared to males (P-value = 0.001 < 0.001). Conclusion: Camp surgeries when performed with strict sterilization and in experienced hands can play animportant role in treating cataract, which is the commonest cause of preventable blindness in developingcountries
Modulation of the prefrontal blood oxygenation response to intermittent theta-burst stimulation in depression: A sham-controlled study with functional near-infrared spectroscopy

Abstract Objective To better understand the neural mechanisms behind the effect of intermittent theta-burst stimulation (iTBS), we investigated how the prefrontal blood oxygenation response measured by changes in oxygenated haemoglobin (oxy-Hb) was modulated during a sham-controlled iTBS treatment course, and whether this was related to depressive symptom change. Methods In this randomised, double-blind study, patients with ongoing treatment-resistant depression received either active (n = 18) or sham (n = 21) iTBS over the dorsomedial prefrontal cortex for ten to fifteen days with two sessions daily. Event-related functional near-infrared spectroscopy (fNIRS) was measured during each iTBS train, and resting-state oxy-Hb was compared before and after each iTBS session at the first, fifth, and last treatment day. Results Patients receiving active iTBS had an increase of the event-related oxy-Hb response compared to the sham group on the fifth (bilateral prefrontal cortices p < .001) and last (left prefrontal p = .007, right prefrontal p = .025) treatment day. Resting-state analysis showed suppressed oxy-Hb change in active iTBS compared to sham iTBS on the last treatment day (p = .024). Oxy-Hb change was unrelated to depressive symptom change (p = .474). Conclusions This study describes a modulation of the blood oxygenation response over the prefrontal cortex that was built up during the course of active iTBS treatment in depression.
Impact of bone marrow involvement on outcome in relapsed and refractory transplant eligible diffuse large B-cell lymphoma and transformed indolent lymphoma

In front-line treatment of diffuse large B-cell lymphoma (DLBCL), prior studies suggest that concordant but not discordant involvement of the bone marrow (BM) portends a poor prognosis. The prognostic impact of bone marrow infiltration (BMI) in recurrent or refractory DLBCL (r/rDLBCL) and transformed indolent lymphoma (r/rTRIL) patients is less clear. Thus, we examined the prognostic significance of the infiltration of bone marrow (BMI) by concordant, large B-cells (conBMI) and discordant, small B-cells (disBMI) in this patient group. We performed a single center retrospective analysis of the prognostic impact of BMI diagnosed before start of second-line treatment as well as multiple clinicopathologic variables in 82 patients with r/rDLBCL or r/rTRIL intended to treat with autologous SCT. Twenty-five of 82 patients (30.5%) had BMI. Out of these, 19 (76%) had conBMI and 6 (24%) had disBMI. In patients with conBMI but not disBMI, uni- and multivariate analysis revealed inferior progression free survival (PFS) and overall survival (OS) compared to patients without BMI (median PFS, 9.2 vs 17.45 months, log rank: p = 0.049; Hazard Ratio, 2.34 (Confidence Interval, 1.24–4.44), p = 0.009; median OS 14.72 vs 28.91 months, log rank: p = 0.017; Hazard Ratio, 2.76 (Confidence Interval, 1.43–5.31), p = 0.002). ConBMI was strongly associated with nonGCB subtype as classified by the Hans algorithm (82.4% vs 17.6%, p = 0.01). ConBMI comprised an independent predictor of poor prognosis in primary and secondary r/rDLBCL. Incorporating conBMI in the pretherapeutic risk assessment for r/rDLBCL and r/rTRIL patients may be useful for prognostication, for stratification in clinical trials, and to assess new therapies for this high-risk patient subset that might not benefit from SCT in second-line treatment.
Human NK Cell Cytoskeletal Dynamics and Cytotoxicity Are Regulated by LIM Kinase

Key Points Dexamethasone impairs NK cell cytotoxicity by suppressing LIMK F-actin regulation. Lipoxin A4 induces LIMK to promote lytic granule trafficking and NK cell killing. NK cells provide immune surveillance and host protection against viruses and tumors through their cytotoxic effector function. Cytoskeletal rearrangement is necessary for NK cell lytic granule trafficking and immune synapse formation to trigger apoptosis of targeted cells. LIM kinase (LIMK) regulates F-actin remodeling by phosphorylating cofilin to inhibit actin severing and depolymerization. In this study, in human NK cells, the glucocorticoid dexamethasone downregulated LIMK expression, F-actin accumulation at the immune synapse, lytic granule trafficking, and cytotoxicity. In contrast, the specialized proresolving mediator lipoxin A4 promoted NK cell LIMK expression, lytic granule polarization to the immune synapse and cytotoxicity. Using a LIMK inhibitor, we show that LIMK activity is necessary for NK cell cytotoxicity, including lipoxin A4’s proresolving actions. Together, our findings identify LIMK as an important control mechanism for NK cell cytoskeletal rearrangement that is differentially regulated by glucocorticoids and specialized proresolving mediators to influence NK cell cytotoxicity.
Five nicotinic acetylcholine receptor subunits from the Morotoge shrimp, Pandalopsis japonica: cloning, tissue distribution, and functional expression in Xenopus oocytes

The nicotinic acetylcholine receptor (nAChR) is a member of the ligand-gated ion channel (LGIC) family and is composed of five subunits arranged around a central pore. Expressed sequence tag screening and traditional cloning strategies revealed five full-length cDNAs encoding nAChR subunit homologs (Pajα3, Pajα10, Pajα11, Pajα12, and Pajβ1) in the Morotoge shrimp, Pandalopsis japonica. The nAChR subunits exhibited common structural characteristics, including a signal peptide sequence, a large N-terminal extracellular domain with conserved motifs for ligand binding (loops A–F), and a transmembrane (TM) domain with four hydrophobic TM motifs (TM1–TM4). Based on the conserved GEK motifs located just before TM2, all five nAChR subunits from P. japonica appear to be cation-selective ion channels. Among the five subunits, Pajα3 and Pajβ1 clustered together with insect core groups, whereas Pajα10, Pajα11, and Pajα12 were classified as a divergent group. Three distinct transcripts were identified in Pajα3, presumably due to alternative splicing between TM3 and TM4, which may be involved in channel formation with other subunits. All five nAChR subunits were expressed predominantly in neuronal tissues, including the brain, sinus gland/X-organ complex, thoracic ganglia, and abdominal ganglia, with no significant differences in subunit expression levels among the neuronal tissues. The five shrimp nAChR subunits could not be functionally expressed in Xenopus oocytes, but coexpression of Pajβ1 and rat α4 subunit (Rα4) formed functional channels responding to acetylcholine. Functional expression of vertebrate α subunit (Rα4) with invertebrate β1 subunit (Pajβ1) will expand our knowledge regarding the structural characteristics and molecular gating mechanism of invertebrate nAChRs.
An enhanced microstamping technique for controlled deposition of proteins

It has been demonstrated that protein adsorbed onto poly-dimethyl-siloxane (PDMS) stamps is transferred to substrates in the process of microstamping, and it has been assumed that this amount is sufficient for supporting cellular growth on activated glass substrates. Currently, there exists no characterization of the microstamping process and no method to control the amount of protein deposited onto substrate surfaces. In this report, we demonstrate a new technique to vary the protein loaded onto the stamp and hence the amount transferred onto substrates. Using fluorescence, we characterized this new microstamping process with regard to the amount of time needed for complete transfer of protein and the variation of protein transfer with pressure and stamp age. Furthermore, we compared growth of cells on protein film (poly-D-lysine, 70 to 150 kDa) transferred with this new process and that of the traditional process and concluded: 1) a minimum of 7 /spl mu/g of PDL/cm/sup 2/ (20 minute loading time) is necessary for bare minimum growth of neurons and 2) good cellular growth can be obtained with 10-12 /spl mu/g of PDL/cm/sup 2/ (60 minute loading time).
Homing to Lymph Nodes Orai1 Function Is Essential for T Cell

In T lymphocytes, Ca 2+ release–activated Ca 2+ (CRAC) channels composed of Orai1 subunits trigger Ag-induced gene expression and cell proliferation through the NFAT pathway. We evaluated the requirement of CRAC channel function for lymphocyte homing using expression of a dominant-negative Orai1-E106A mutant to suppress Ca 2+ signaling. To investigate homing and motility of human lymphocytes in immunocompromised mouse hosts, we transferred human lymphocytes either acutely or after stable engraftment after a second transfer from the same blood donor. Human and mouse lymphocyte homing was assessed, and cells were tracked within lymph nodes (LNs) by two-photon microscopy. Our results demonstrate that human T and B lymphocytes home into and migrate within the LNs of immunocompromised NOD.SCID mice similar to murine lymphocytes. Human T and B cells colocalized in atrophied or reconstituted mouse LNs, where T cells migrated in a random walk at velocities of 9–13 m m/min and B cells at 6 m m/min. Expression of Orai1-E106A inhibited CRAC channel function in human and mouse T cells, and prevented homing from high endothelial venules into murine LNs. Ca 2+ signals induced by CCL21 were also inhibited in T cells expressing Orai1-E106A. With CRAC channels inhibited, the high-afﬁnity form of LFA-1 failed to become active, and T cells failed to migrate across endothelial cells in a transwell model. These results establish a requirement for CRAC channel– mediated Ca 2+ inﬂux for T cell homing to LNs mediated by high-afﬁnity integrin activation and chemokine-induced transendothelial migration.
Highly Sensitive Electrochemiluminescence Biosensor for Pyrophosphatase Detection Based on Click Chemistry Triggered Hybridization Chain Reaction in Homogeneous Solution.

The abnormal expression of pyrophosphatase (PPase) is closely related to many diseases and malignant tumors, so the detection for PPase is of great significance in clinical diagnosis, disease monitoring and other biomedical aspects. In this study, a sensitive and specific electrochemiluminescence (ECL) biosensor combined highly specific Cu+ catalyzed azide-alkyne cycloaddition (CuAAC) with high efficiency of hybridization chain reaction (HCR) for the purpose of detecting pyrophosphatase has been designed. Highly efficient hybridization chain reaction amplification processed in homogeneous solution and the amplification products were connected to the electrode surface in one step, which solved the problem of low DNA amplification efficiency on the electrode surface because of the steric hindrance. Ru(phen)32+ was embedded into the dsDNA and act as ECL probes, the enhanced ECL intensity of the system had a linear relationship with the logarithm of PPase concentration in the range of 0.025 - 50 mU with a detection limit of 8 μU. The method was proved to be of good specificity, repeatability and stability that could be used for screening and quantitatively determinating pyrophosphatase inhibitor sodium fluoride. The practicability of this method in clinical application has been proved through the detection of serum from the clinical arthritis patients. Moreover, the method can be used to monitor PPase activity of arthritis patients before and after administration, so as to provide reference for the effect of drug treatment.
Modified BBO-Based Multivariate Time-Series Prediction System With Feature Subset Selection and Model Parameter Optimization

Multivariate time-series prediction is a challenging research topic in the field of time-series analysis and modeling, and is continually under research. The echo state network (ESN), a type of efficient recurrent neural network, has been widely used in time-series prediction, but when using ESN, two crucial problems have to be confronted: 1) how to select the optimal subset of input features and 2) how to set the suitable parameters of the model. To solve this problem, the modified biogeography-based optimization ESN (MBBO-ESN) system is proposed for system modeling and multivariate time-series prediction, which can simultaneously achieve feature subset selection and model parameter optimization. The proposed MBBO algorithm is an improved evolutionary algorithm based on biogeography-based optimization (BBO), which utilizes an $S$ -type population migration rate model, a covariance matrix migration strategy, and a Lévy distribution mutation strategy to enhance the rotation invariance and exploration ability. Furthermore, the MBBO algorithm cannot only optimize the key parameters of the ESN model but also uses a hybrid-metric feature selection method to remove the redundancies and distinguish the importance of the input features. Compared with the traditional methods, the proposed MBBO-ESN system can discover the relationship between the input features and the model parameters automatically and make the prediction more accurate. The experimental results on the benchmark and real-world datasets demonstrate that MBBO outperforms the other traditional evolutionary algorithms, and the MBBO-ESN system is more competitive in multivariate time-series prediction than other classic machine-learning models.
Weed community and corn yield variability in diverse management systems

Abstract The effects of crop rotation and management system on annual variability in weed communities and crop yields were assessed in a 4-yr study in Michigan. Variability of the weed community and corn yields were assessed using the coefficient of variation (CV) and a multivariate dissimilarity index (Bray-Curtis) that accounted for changes in both weed species abundance and composition. The treatments included two rotations: continuous corn and a corn–corn–soybean–wheat rotation, and two management systems: conventional (CONV) and organic-based (ORG). Weed biomass was significantly higher in the ORG system; however, there was no effect of crop rotation on weed biomass or number of weed species in a treatment (species richness). Annual variability in weed community composition and structure was affected by both crop rotation and management system and was highest in the ORG rotation. In contrast to the weed community, variability in corn yield was highest in the least-diverse cropping system (CONV monoculture), despite that system having a more constant weed community. Corn yield in the ORG rotation was not significantly different from that in the CONV monoculture. Results of this study suggest that management aimed at increasing cropping system diversity may have additional effects on weed communities and crop yields beyond those commonly reported, and these may have important implications for the development of more efficient and sustainable weed and crop management practices. Nomenclature: Corn, Zea mays L. ; soybean, Glycine max (L.) Merr. ; wheat, Triticum aestivum L.
Xanthine Oxidase Inhibition and Anti-LDL Oxidation by Prenylated Isoflavones from Flemingia philippinensis Root

Xanthine oxidase is a frontier enzyme to produce oxidants, which leads to inflammation in the blood. Prenylated isoflavones from Flemingia philippinensis were found to display potent inhibition against xanthine oxidase (XO). All isolates (1–9) inhibited XO enzyme with IC50 ranging 7.8~36.4 μM. The most active isoflavones (2–5, IC50 = 7.8~14.8 μM) have the structural feature of a catechol motif in B-ring. Inhibitory behaviors were disclosed as a mixed type I mode of inhibition with KI < KIS. Binding affinities to XO enzyme were evaluated. Fluorescence quenching effects agreed with inhibitory potencies (IC50s). The compounds (2–5) also showed potent anti-LDL oxidation effects in the thiobarbituric acid-reactive substances (TBARS) assay, the lag time of conjugated diene formation, relative electrophoretic mobility (REM), and fragmentation of apoB-100 on copper-mediated LDL oxidation. The compound 4 protected LDL oxidation with 0.7 μM in TBARS assay, which was 40-fold more active than genistein (IC50 = 30.4 μM).
Changes in growth, pigment content and antioxidants in the root and leaf tissues of wheat plants under the influence of exogenous salicylic acid

The effect of various concentrations of salicylic acid (SA) on the growth, pigment content and the activity of antioxidants was investigated in the laboratory grown wheat plants. The root and shoot growth was affected at higher concentration of SA in early days of growth. The activities of catalase (CAT), ascorbate peroxidase (APX) and guaicol-specific peroxidase (POX) declined with the application of SA (50, 500 and 1000 µM), the decrease being more pronounced with the increase in SA concentrations both in the root and leaf tissues. On the other hand superoxide dismutase (SOD) activity increased with the application of SA. At low concentrations, SA has no effect on the activities of these enzymes in vitro. Salicylic acid at higher concentrations (5- and 10 mM) though inhibited CAT activity, the activities of APX and POX remain unchanged. High concentration of SA increased the level of H2O2 and malondialdehyde both in root and leaf tissues. Thus, SA though has been reported to be a signal molecule for inducing various physiological and morphological attributes in plants, this study indicated the negative effect of the compound on growth and the activity of major enzymatic antioxidants.
An adipokine feedback regulating diurnal food intake rhythms in mice

Endogenous circadian clocks have evolved to anticipate 24 hr rhythms in environmental demands. Recent studies suggest that circadian rhythm disruption is a major risk factor for the development of metabolic disorders in humans. Conversely, alterations in energy state can disrupt circadian rhythms of behavior and physiology, creating a vicious circle of metabolic dysfunction. How peripheral energy state affects diurnal food intake, however, is still poorly understood. We here show that the adipokine adiponectin (ADIPOQ) regulates diurnal feeding rhythms through clocks in energy regulatory centers of the mediobasal hypothalamus (MBH). Adipoq-deficient mice show increased rest phase food intake associated with disrupted transcript rhythms of clock and appetite-regulating genes in the MBH. ADIPOQ regulates MBH clocks via AdipoR1-mediated upregulation of the core clock gene Bmal1. BMAL1, in turn, controls expression of orexigenic neuropeptide expression in the MBH. Together, these data reveal a systemic metabolic circuit to regulate central circadian clocks and energy intake.
LRRK2 activation controls the repair of damaged endomembranes in macrophages

Cells respond to endolysosome damage by either repairing the damage or targeting damaged endolysosomes for degradation via lysophagy. However, the signals regulating the decision for repair or lysophagy are poorly characterised. Here, we show that the Parkinson's disease (PD)‐related kinase LRRK2 is activated in macrophages by pathogen‐ or sterile‐induced endomembrane damage. LRRK2 recruits the Rab GTPase Rab8A to damaged endolysosomes as well as the ESCRT‐III component CHMP4B, thereby favouring ESCRT‐mediated repair. Conversely, in the absence of LRRK2 and Rab8A, damaged endolysosomes are targeted to lysophagy. These observations are recapitulated in macrophages from PD patients where pathogenic LRRK2 gain‐of‐function mutations result in the accumulation of endolysosomes which are positive for the membrane damage marker Galectin‐3. Altogether, this work indicates that LRRK2 regulates endolysosomal homeostasis by controlling the balance between membrane repair and organelle replacement, uncovering an unexpected function for LRRK2, and providing a new link between membrane damage and PD.