syedzayyan/paper_mill_benchmark huggingface dataset:
Targeted Delivery of Gene Silencing in Fungi Using Genetically Engineered Bacteria.

Exploiting rna interference (rnai) in disease control through non-transformative methods that overcome the hurdle of producing transgenic plants has attracted much attention over the last years.Here, we explored such a method and used non-pathogenic bacteria as a versatile system for delivering rnai to fungi.Specifically, the rnase iii-null mutant strain of escherichia coli ht115(de3) was transformed with two plasmid vectors that enabled the constitutive or iptg-inducible production of double-stranded rnas (ds rnas) against genes involved in aflatoxins production in aspergillus flavus(afl c) or virulence of botrytis cinerea(bc sas1).To facilitate the release of the ds rnas, the bacterial cells were further genetically engineered to undergo a bacteriophage endolysin r-mediated autolysis, following a freeze-thaw cycle.Exposure under in vitro conditions of a.Flavusor b.Cinereato living bacteria or their whole-cell autolysates induced silencing of afl cand bc sas1in a bacteria concentration-dependent manner, and instigated a reduction in aflatoxins production and mycelial growth, respectively.In planta applications of the living bacteria or their crude whole-cell autolysates produced similar results, thus creating a basis for translational research.These results demonstrate that bacteria can produce biologically active ds rna against target genes in fungi and that bacteria-mediated rnai can be used to control fungal pathogens.

Journal: Journal of fungi (Basel, Switzerland) (2021)
Publication types: Journal Article
Post-Harvest Operations to Generate High-Quality Medicinal Cannabis Products: A Systemic Review.

The traditional cannabisplant as a medicinal crop has been explored for many thousands of years.The cannabisindustry is rapidly growing; therefore, optimising drying methods and producing high-quality medical products have been a hot topic in recent years.We systemically analysed the current literature and drew a critical summary of the drying methods implemented thus far to preserve the quality of bioactive compounds from medicinal cannabis.Different drying techniques have been one of the focal points during the post-harvesting operations, as drying preserves these cannabisproducts with increased shelf life.We followed or even highlighted the most popular methods used.Drying methods have advanced from traditional hot air and oven drying methods to microwave-assisted hot air drying or freeze-drying.In this review, traditional and modern drying technologies are reviewed.Each technology will have different pros and cons of its own.Moreover, this review outlines the quality of the cannabisplant component harvested plays a major role in drying efficiency and preserving the chemical constituents.The emergence of medical cannabis,and cannabinoid research requires optimal post-harvesting processes for different cannabisstrains.We proposed the most suitable method for drying medicinal cannabisto produce consistent, reliable and potent medicinal cannabis.In addition, drying temperature, rate of drying, mode and storage conditions after drying influenced the cannabiscomponent retention and quality.

Journal: Molecules (Basel, Switzerland) (2022)
Publication types: Journal Article;Systematic Review
Effects of the Hubbard U correction on the electronic and magnetic properties of the tetragonal V2P2sheet.

A recent theoretical work predicted the orthorhombic phase of the v2p2sheet with the half-metallic electronic property using a linear combination of atomic orbitals (lcao) basis set based on density functional theory (dft).However, in the plane-wave dft method, the tetragonal (t) v2p2phase is the ground state structure.The total energy of the optimized tetragonal v2p2is 0.91 e v per cell lower than that of the orthorhombic phase.Herein, we investigated the effects of hubbard u correction onthe electronic, magnetic, and adsorption properties of the t-v2p2sheet.The t-v2p2sheet is found to be dynamically and mechanically stable.The t-v2p2sheet prefers an antiferromagnetic ground state with an indirect narrowed bandgap of 0.23 e v.The estimated electron mobility in the t-v2p2sheet at room temperature is approximately 24 times that of a hole.The t-v2p2sheet exhibits a sizable magnetic anisotropy (mae) of 69.63 μe v per v atom with in-plane magnetization.Mean-field approximation based on the 2d classical heisenberg model predicts a high néel temperature (tn) of the t-v2p2sheet up to 1263 k.The li atom adsorption on the t-v2p2sheet shows a transition from semiconductor to metal.Also the li-v2p2system has a residual integer magnetic moment of 1μb.Due to strong steric coulomb repulsion, the minimum diffusion energy barrier (ea) for the li-ion on the t-v2p2surface is high enough to make the li atom immobile.Our findings demonstrate the potential of the t-v2p2sheet for antiferromagnetic spintronics and sensing applications.

Journal: RSC advances (2021)
Publication types: Journal Article
Cyclin-Dependent Kinases (CDKs) and the Human Cytomegalovirus-Encoded CDK Ortholog pUL97 Represent Highly Attractive Targets for Synergistic Drug Combinations.

Human cytomegalovirus (hcmv) is a pathogenic human herpesvirus associated with serious, potentially life-threatening symptoms in the immunocompromised or immunonaïve host.The limitations encountered by antiviral therapy options currently available include a narrow panel of accessible targets, the induction of viral drug resistance as well as severe drug dosage-mediated side-effects.Improved drug-targeting strategies to resolve these issues are the focus of our investigations.In particular, pharmaceutical kinase inhibitors (pkis), either directed to host kinases or directed to the viral protein kinase p ul97, have been considered to overcome these restrictions.Recently, we reported the identification of a synergistic combination of two pkis directed to host cyclin-dependent kinase 7 (cdk7) and viral cdk ortholog p ul97.Here, we substantiate these findings with the following results: (i) true drug synergy was exhibited by various chemical classes of pki pairs directed to p ul97 and cdk7; (ii) no putative amplification of cytotoxicity by these drug combinations was observed; (iii) a reduction in drug dosage levels for synergistic combinations was defined on a quantitative basis and compared to monotreatments; (iv) the quantities of target proteins cdk7 and p ul97 expressed in hcmv-infected cells were assessed by confocal imaging, indicating a strong down-modulation of cdk7 levels as a result of synergistic drug treatment; (v) the functional importance of these target kinases, both binding to cyclin h, was illustrated by assessing hcmv replication under the viral genomic deletion of orf-ul97 or cellular cyclin knock-out; (vi) new combinations of hcmv-specific drug synergy were demonstrated for solely host-directed treatments using pkis against cdk2, cdk7, cdk8 and/or cdk9 and (vii) a triple pki combination provided further support for the synergy approach.With these combined findings, this study highlights the potential of therapeutic drug combinations of approved, developmental and preclinical pkis for expanding future options for anti-hcmv therapy.

Journal: International journal of molecular sciences (2022)
Publication types: Journal Article
Recent advances in Cu-Fenton systems for the treatment of industrial wastewaters: Role of Cu complexes and Cu composites.

Cu-based fenton systems have been recognized as a promising suite of technologies for the treatment of industrial wastewaters due to their high catalytic oxidation capacity.Rapid progress regarding cu fenton systems has been made not only in fundamental mechanistic aspects of these systems but also with regard to applications over the past decade.Based on available literature, this review synthesizes the recent advances regarding both the understanding and applications of cu-based fenton processes for industrial wastewater treatment.Cu-based catalysts that are essential to the effectiveness of use of cu fenton reactions for oxidation of target species are mainly classified into two types: (i) cu complexes with organic or inorganic ligands, and (ii) cu composites with inorganic materials.Performance of the cu-based catalysts for the removal of organic pollutants in industrial wastewaters are reviewed, with the key operating parameters illustrated.Furthermore, the roles of cu complexes and composites in both homogeneous and heterogeneous cu-fenton systems are critically examined with particular focus on the mechanisms involved.Perspectives and future efforts needed for cu-based fenton systems using cu complexes and composites for industrial wastewater treatment are presented.

Journal: Journal of hazardous materials (2020)
Publication types: Journal Article;Review;Research Support, Non-U.S. Gov't
Effect of the inoculation strategies of selectedMetschnikowia agavesandSaccharomyces cerevisiaeon the volatile profile of pineapple wine in mixed fermentation.

To investigate the effects of inoculation ratio, concentration, and sequence of selected metschnikowia agaves p3-3 and commercial saccharomyces cerevisiae d254 on the volatiles of pineapple wine in mixed fermentation, the growth and fermentation ability of two yeast strains were monitored, and the physicochemical characteristics (including reducing sugar, total acidity, volatile acidity, and ethanol content) and volatile profile of pineapple wines produced by different inoculation strategies were analysed using chemical method and headspace-solid phase microextraction with gas chromatography-mass spectrometry (hs-spme-gcms), respectively.Results indicate that although the proliferation of m.Agaves p3-3 was repressed by s.Cerevisiae d254, changes in inoculation methods influenced yeast-yeast interactions and modulated the physicochemical properties and volatile profile of pineapple wine.Inoculation sequence and concentration of two strains were more important to volatile profile of pineapple wine than inoculation ratio.Simultaneous inoculations with 1 × 107cfu/m lm.Agaves p3-3 and sequential inoculations increased the total acidity level, but their volatile acidity was lower than that with 5 × 106cfu/m lm.Agaves p3-3.Simultaneous inoculations with 5 × 106cfu/m lm.Agaves p3-3 retained more types of variety volatiles.However, the appropriate increase in the inoculation concentration of the cells and sequential inoculation increased the fermentative volatiles, especially ester levels.Supplementary information the online version of this article () contains supplementary material, which is available to authorized users.

Journal: Journal of food science and technology (2022)
Publication types: Journal Article
The First Additional Port During Single-Incision Laparoscopic Cholecystectomy.

And objectives single-incision laparoscopic cholecystectomy (silc) has become increasingly popular.Regarding the difficulties of silc in acute cholecystitis, additional port insertion is sometimes required.However, appropriate locations for additional port insertion have not been well studied.In the present study, the safety and effectiveness of the first additional port insertion in the epigastric region during silc was assessed.Methods additional port insertions were needed in 52 of 113 patients who underwent silc for acute cholecystitis.The first port was inserted in the epigastric region and the second (if required) was inserted in the right lateral subcostal area.A drainage catheter was positioned through the epigastric port.Results one additional port was inserted in 43 patients and two additional ports were inserted in 9 patients.Mean operation time was 45.0 minutes in the pure silc group and 83.3 minutes in additional port group.Mean hospital stay was 3.7 days in the pure silc group and 5.9 days in additional port group.There was no open conversion.Intra-operative (n = 5) and postoperative bile leakages (n = 2) were identified in six patients.Timing of operation after onset of symptoms was significantly greater in the group with bile duct injury than in those without bile duct injury in patients who required additional ports.Conclusions the first additional port in the epigastric area during silc for acute cholecystitis helps to complete the operation without open conversion.However, the procedure can be performed safely in selective patients with relatively short duration of symptoms.

Journal: JSLS : Journal of the Society of Laparoendoscopic Surgeons (2020)
Publication types: Journal Article
A cost of illness comparison for toxigenic Clostridioides difficile diagnosis algorithms in developing countries.

Availability of several commercial tests with different clostridioides difficile targets contributes to uncertainty and controversies around the optimal diagnostic algorithm.While numerous studies have estimated the financial impact of c.Difficile infection, models to guide testing strategies decisions in developing countries, where economic value significantly impacts clinical practice, are currently not available.Aim to determine the cost of illness of different c.Difficile infection (cdi) diagnostic strategies in developing countries.Methods cost-comparison analysis was performed to compare eleven different algorithms of cdi diagnosis.The basis of calculation was a hypothetical cohort of 1000 adult inpatients suspected of cdi.We analyzed turnaround time of test results (i.e., time from taking sample to results emission), test performance (i.e., sensitivity and specificity) and testing costs.Patients were divided in true positive, false positive, true negative and false negative in order to integrate test performance and economics effects.Additional medical costs were calculated: costs of hygiene, medication, length of stay and intensive care unit costs, based on a brazilian university hospital costs.Cdi prevalence was considered 22.64%.Findings from laboratory-assisted tests, simultaneous glutamate dehydrogenase (gdh) and toxin a/b rapid immunoassay arbitrated by nucleic acid amplification test (naat) presented the lowest cost of illness (450,038.70 usd), whereas standalone naat had the highest (523,709.55 usd).Empirical diagnosis only presented the highest overall cost (809,605.44 usd).Conclusion the two-step algorithm with simultaneous gdh and toxin a/b rapid immunoassay arbitrated by naat seems to be the best strategy for cdi diagnosis in developing countries.

Journal: Anaerobe (2021)
Publication types: Comparative Study;Journal Article
Longitudinal determinants of depression among World Trade Center Health Registry enrollees, 14-15 years after the 9/11 attacks.

Exposure to the september 11, 2001 (9/11) terrorist attacks has been found to be associated with posttraumatic stress disorder (ptsd) and comorbid ptsd and depression up to 10-11 years post-disaster.However, little is known about the longitudinal predictors of mental health conditions over time.Methods we examined longitudinal determinants of depression within strata of ptsd among 21,258 enrollees of the world trade center health registry who completed four questionnaires over 14 years of follow-up (wave 1 in 2003-04; wave 2 in 2005-06; wave 3 in 2011-12; and wave 4 in 2015-16).Ptsd status was measured using the ptsd checklist on all four waves and defined as a score of ≥ 44; depression was assessed using the 8-item patient health questionnaire at waves 3 and 4 and defined as a score of ≥ 10.Results across waves 3 and 4, 18.6% experienced depression, and it was more common among those who ever had ptsd (56.1%) compared with those who had not (5.6%).Across ptsd strata, predictors of depression included low income, unemployment, low social integration and support, post-9/11 traumatic life events, and chronic physical illness.These factors also decreased the likelihood of recovering from depression.Limitations depression symptoms were not measured at waves 1 and 2; data was self-reported.Conclusions these findings highlight the substantial burden of depression in a trauma-exposed population 14-15 years post-disaster, especially among those with ptsd.Similar life stressors predicted the course of depression among those with and without ptsd which may inform public health and clinical interventions.

Journal: Journal of affective disorders (2018)
Publication types: Journal Article;Research Support, Non-U.S. Gov't;Research Support, U.S. Gov't, P.H.S.
The Cycling Brain in the Workplace: Does Workload Modulate the Menstrual Cycle Effect on Cognition?

Recent decades have witnessed increased research efforts to clarify how the menstrual cycle influence females' cognitive and emotional functions.Despite noticeable progress, the research field faces the challenges of inconsistency and low generalizability of research findings.Females of reproductive ages are a heterogeneous population.Generalizing the results of female undergraduates to women in the workplace might be problematic.Furthermore, the critical cognitive processes for daily life and work deserve additional research efforts for improved ecological validity.Thus, this study investigates cognitive performance across the menstrual cycle using a sample of young nurses with similar duties.We developed a mini-computerized cognitive battery to assess four mental skills critical for nursing work: cognitive flexibility, divided attention, response inhibition, and working memory.Participants completed the cognitive battery at menses, late-follicular, and mid-luteal phases.In addition, they were classified into low- and high workload groups according to their subjective workload ratings.Our results demonstrate a general mid-luteal cognitive advantage.Besides, this study reveals preliminary evidence that workload modulates the menstrual cycle effect on cognition.Only females of low workload manifest the mid-luteal cognitive advantage on divided attention and response inhibition, implying that a suitable workload threshold might be necessary for regular neuro-steroid interactions.Thus, this study advocates the significance of research focusing on the cycling brain under workloads.

Journal: Frontiers in behavioral neuroscience (2022)
Publication types: Journal Article
High serum neurofilament levels among Chinese patients with aquaporin-4-IgG-seropositive neuromyelitis optica spectrum disorders.

Serum neurofilament light chain (s nf l) is a promising biomarker for neuromyelitis optica spectrum disorders (nmosd) and multiple sclerosis (ms), but there is limited validation data in specific ethnic and disease groups.Objective to investigate the levels of s nf l in a cohort of chinese patients with nmosd and compare s nf l levels in patients with different disease courses and treatments.Methods we analysed s nf l levels in 153 chinese patients with nmosd (n = 51) and ms (n = 102) using single-molecule array (simoa) technology.The s nf l levels were compared with those of 71 healthy controls from two centres in southern china.For each disease, we assessed correlations between s nf l and disease phases and treatments.Results higher levels of s nf l were found in the patients with nmosd [17.97 (10.55-27.94) pg/m l] and ms [15.83 (8.92-25.67) pg/m l] compared to healthy controls [10.09 (7.19-13.29) pg/m l, p < 0.001].No significant differences were found between the aqp4-ig g-positive nmosd group and ocb-positive ms group.Conclusions s nf l measured by simoa technology is a potential candidate blood biomarker for the diagnosis and disease monitoring of nmosd in chinese patients, warranting further prospective and multicentre studies.

Journal: Journal of clinical neuroscience : official journal of the Neurosurgical Society of Australasia (2021)
Publication types: Journal Article
TRAF3 promotes ROS production and pyroptosis by targeting ULK1 ubiquitination in macrophages.

Disrupted mitochondrial function and reactive oxygen species (ros) generation cause cellular damage and oxidative stress-induced macrophage inflammatory cell death.It remains unclear how mitochondrial dysfunction relates to inflammasome activation and pyroptotic cell death.In this study, we demonstrated that tumor necrosis factor receptor-associated factor 3 (traf3) regulates mitochondrial ros production and promotes tlr agonist lps plus nigericin (lps/ng)-induced inflammasome and pyroptosis in mouse primary macrophages and human monocyte thp-1 cells.Co-ip assays confirmed that traf3 forms a complex with traf2 and c iap1 and mediates ubiquitin and degradation of unc-51 like autophagy activating kinase 1 (ulk1).Moreover, knockdown of ulk1 in thp-1 cells significantly promoted lps/ng-induced inflammasome by activating caspase 1 and mature il-1β.Apoptosis inducing factor (aif) translocation from mitochondrial to nuclear was observed in ulk1-deficient thp-1 cells under lps/ng stimulation, which mediates lps/ng-induced cell death in ulk1 deficient macrophages.In conclusion, this study identified a novel role of traf3 in regulation of ulk1 ubiquitination and inflammasome signaling and provided molecular mechanisms by which ubiquitination of ulk1 controls mitochondrial ros production, inflammasome activity, and aif-dependent pyroptosis.

Journal: FASEB journal : official publication of the Federation of American Societies for Experimental Biology (2020)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
Effects of pH on free-living stages of a Nordic strain of the economically important freshwater fish parasite Ichthyophthirius multifiliis.

Ichthyophthirius multifiliis is a unicellular freshwater fish parasite and the causative agent of the globally distributed white spot disease.The fitness of the parasite depends on available hosts and abiotic factors such as temperature, salinity and p h.With climatic change these abiotic factors may be altered, thereby influencing the health of the parasite.In this study, the tolerance towards different p h values (2-11) was investigated on a nordic strain of the parasite by recording tomont survival, release of theronts, theront size and theront survival.Tomonts were able to survive and release theronts in p h 5-10, however the number of released theronts was significantly lower at high and low p h.Theronts produced at p h 8 and exposed to the different p h values survived at p h 4-10 for 1 h, which may be sufficient time for the parasite to locate and infect new hosts.The release of theronts was slower at p h 10, and the size of theronts developed at higher p h was significantly increased (up to 73.5 μm in length).In conclusion, our study showed that the free-living stages of i.Multifiliis were capable of surviving at a p h from 5 to10, and that high p h had an effect on the morphology and release of the parasites.

Journal: International journal for parasitology (2020)
Publication types: Journal Article