bluuebunny/crossref_metadata_2025_split huggingface dataset:
Genome-wide analysis of the JAZ subfamily and functional verification of BnC8.JAZ1-1 in Brassica napus
Authors: Wang Ying , Li Na , Zhan Jiepeng , Wang Xinfa , Shi Jiaqin , Wang Hanzhong 
Published: April 2022

Abstract
Background
JAZ subfamily plays crucial roles in growth and development, stress, and hormone responses in various plant species. Despite its importance, the structural and functional analyses of the JAZ subfamily in Brassica napus are still limited.
Results
In relative to the 12 JAZ genes in Arabidopsis, there are 28, 31, and 56 JAZ orthologues in the genome of B. rapa, B. oleracea, and B. napus, respectively, in accordance with the proven triplication events during the evolution of Brassicaceae. The phylogenetic analysis showed that the 127 JAZ proteins from A. thaliana, B. rapa, B. oleracea, and B. napus could fall into 5 groups. The gene structure analysis of all 127 JAZs showed that these proteins have the common motifs of TIFY and Jas, indicating their conservation in Brassicaceae species. In addition, cis-element analysis showed that the main motif types are related to phytohormones, biotic and abiotic stresses. The qRT-PCR of the representative 11 JAZ genes in B. napus demonstrated that different groups of BnJAZ individuals have distinct patterns of expression in normal conditions or treatment with distinctive abiotic stresses and phytohormones. Specially, BnJAZ52 (BnC08.JAZ1-1) was significantly repressed by ABA, GA, IAA, PEG and NaCl treatments, while induced under MeJA, cold and waterlogging. Expression pattern analysis showed that BnC08.JAZ1-1 was expressed mainly in vascular bundle and young flower including petal, pistil, stamen and developing ovule, but not in stem, leaf and mature silique and seed. Subcellular localization showed that its protein was localized in the nucleus, in line with its orthologues in Arabidopsis. The further over-expression of BnC08.JAZ1-1 in Arabidopsis resulted in enhanced seed weight, likely through regulating the expression of the downstream response genes involved in the ubiquitin-proteasome pathway and phospholipid metabolism pathway.
Conclusions
The systematic identification, phylogenetic, syntenic, and expression analyses of the BnJAZs subfamily improve our understanding of their roles in responses to stress and phytohormone in B. napus. In addition, the preliminary functional validation of BnC08.JAZ1-1 in Arabidopsis demonstrated that this subfamily might also play a role in regulating seed weight.
Arsenic induced dissolution of neural architecture and signaling are restored through MMPs and AChE inactivation by tea flavonoids in rat, in-silico and in-vitro purified enzyme/theaflavin reaction.
Authors: Medda Nandita , Maiti Sayantani , Acharyya Nirmallya , Samanta Tanmoy , Banerjee Amrita , De Subrata , Ghosh Tamal , maiti smarajit 
Published: April 2022

Abstract
Chronic arsenic-exposure causes gastro-intestinal/nephrotoxic/neurodegenerative disorders with keratosis/melanosis and cancers. The reactive-oxygen-species (ROS) cause intrinsic-antioxidant (thiols/uric-acid) depletion eventuating cytoskeletal-extracellular-matrix and DNA damage. Therapeutic chelating-agents have multiple side-effects. The protective potential of tea-extract against arsenic neurotoxicity was studied. Influence of uric-acid in arsenic-toxicity was verified. Camellia sinensis (CS dry-leaves) 10mg/ml aqueous), uric-acid (UA) or allopurinol (Allo- urate-depletor) was supplemented to arsenic-intoxicated (0.6 ppm/100g bw/day/4-weeks) female albino-rats and cytotoxicity/biochemistry/histo-architecture/matrix-integrity and DNA-stability were evaluated in their cerebrum-cerebellum. In-vitro purified theaflavin-derivatives were tested on purified-AchE (acetyl-cholinesterase). Higher malondialdehyde, lactate-dehydrogenase and lower uric-acid levels were observed in the arsenic/Allo groups. Degenerations of cerebrum/cerebellum by higher matrix-metalloprotease (MMP2/9)/DNA-damages (comets) are observed. The CS-group restored the adverse-markers, protected tissues/DNA integrity which is supported in the UA-group and opposed in the Allo-group. Impairment of the neural-signaling, evident from the arsenic-exposed animal with unstable-movement/vertigo/tremor accompanied with higher AchE in the cerebellum is significantly restored/protected in the CS-group. This suggests that the neural integrity is maintained by the cellular intrinsic antioxidative-capacity, shown in catalase-SOD1 activities. In-vitro and in silico studies suggest that the theaflavin derivatives (pure, SIGMA) i.e theaflavin-digallate (TFDG) showed the strongest inhibition on purified (SIGMA) AchE (IC50 = 2.19 µg/ml) followed by TFMG (IC50 = 3.86 µg/ml). The4 CS is protective in arsenic-toxicity. Theaflavin-gallate is a strong AchE inhibitor which can be used in arsenic-induced neuro-muscular depletion. Beside antioxidant/anti-inflammatory/anti-carcinogenic role CS restores intrinsic-antioxidants.
Change in dissolved oxygen of water bodies is the major driver of alteration in intestinal bacterial community of the bottom-feeding fishCirrhinusmrigala
Authors: Basak Chandana , Mondal Nibendu , Chatterjee Sumit , Ghosh Wriddhiman , Chakraborty Ranadhir 
Published: April 2022

Abstract
Oxygen depletion, or hypoxia, a common consequence of eutrophication, has adverse effect on aquatic flora and fauna. Bacteria living within or around aquatic macroorganisms struggle to thrive in low dissolved oxygen (DO2) conditions. The goal of our study was to see how the bacterial population in the intestine of a bottom-feeding fish, Cirrhinus mrigala, changed when the DO2 level in the water decreased from 7 ± 0.5 ppm to 0.35 ± 0.05 ppm. The V3 regions of 16S rRNA genes derived out of metagenome extracted from the intestines of control and experimental fishes were sequenced and analysed. The findings revealed that during DO2 stress (0.35 ± 0.05ppm), the aerobic bacterial population in the gut (existing when fish lived in 7 ± 0.5ppm DO2) changed significantly, transforming the microbial community into a facultative and/or obligate anaerobic community with dominance of microaerophilic bacterial populations; density of Cetobacterium increased in intestinal samples, which is linked to the prevention of paradoxical anaerobism in fish tissues. The current research advances our understanding of the microbial ecology of intestinal bacterial flora under DO2 stress, as well as their interactions with changing environmental parameters within the host body.
Toxicological signature for thyroid endocrine disruption of dichlorooctylisothiazolinone in zebrafish larvae
Authors: Lee Sujin , Ji Kyunghee 
Published: April 2022

Abstract
Dichlorooctylisothiazolinone (DCOIT), which is one of the isothiazolinone preservatives, is applied to water-based adhesives in food packaging. This study investigated the effects of DCOIT on the embryonic growth and thyroid endocrine system using zebrafish. Organism-level (hatchability, survival, and growth), hormone-level (triiodothyronine (T3) and thyroxine (T4)), gene-level (genes associated with the hypothalamus-pituitary-thyroid axis), and microRNA-level (microRNAs related to thyroid endocrine disruption) endpoints were measured. Significant rise in embryonic coagulation, delayed hatching, and decreased larval length were observed in fish exposed to greater than 0.3 μg/L DCOIT. Lower contents of T3 and T4 were observed after exposure to DCOIT, which was accompanied by the upregulation of genes associated with the thyrotropin releasing hormone and thyroid stimulating hormone and the downregulation of genes associated with the thyroid hormone receptors and deiodination. Strong influence of DCOIT on dre-miR-193b and -499 may be a critical mechanism to inhibit transcription of trαa and trβ, which in turn may affect thyroid hormones and development of the organism. Our findings suggest that hypothyroidism induced by the exposure to DCOIT is potentially associated with genetic and microRNA-level changes, which eventually affects development.
Pan-cancer integrative analysis of whole-genome De novo somatic point mutations reveals 17 cancer types
Authors: Kazemi Amirreza , Hamidieh Kimia , Dashti Hamed , Ghareyazi Amin , Tahaei Maedeh Sadat , Rabiee Hamid R. , Alinejad-Rokny Hamid , Dehzangi Iman 
Published: April 2022

Abstract
Background: The advent of high throughput sequencing has enabled researchers to systematically evaluate the genetic variations in cancer, resulting in the identification of many cancer-associated genes. Although cancers in a same tissue are widely categorized in the same group, they demonstrate many differences among them with respect to their mutational profiles. Hence there is no “silver bullet” for treatment of a cancer type. This reveals the importance of developing a pipeline to accurately identify cancer-associated genes and re-classify cancer patients with similar mutational profiles. Classification of cancer patients with similar mutational profiles may help discover subtypes of cancer patients who might benefit from specific treatment types. Results: In this study, we propose a new machine learning pipeline to identify protein-coding genes which are mutated in significant portion of samples to identify cancer subtypes. We applied our pipeline to 12270 samples collected from the International Cancer Genome Consortium (ICGC) which covered 19 cancer types. Here we identified 17 different cancer subtypes. Comprehensive phenotypic and genotypic analysis indicates distinguishable properties, including unique cancer-related signaling pathways, in which, for most of them, targeted treatment options are currently available. Conclusions: This new subtyping approach offers a novel opportunity for cancer drug development based on the mutational profile of patients. We also comprehensive study the causes of mutations among samples in each subtype by mining the mutational signatures which provides important insight into their active molecular mechanisms. Some of the pathways that we identified in most subtypes, including the cell cycle and the Axon guidance pathways, are frequently observed in cancer disease. Interestingly, we also identified several mutated genes and different rate of mutation in multiple cancer subtypes. In addition, our study on “gene-motif” suggests the importance of considering both the context of the mutations and mutational processes in identifying cancer-associated genes. The source codes for our proposed clustering pipeline and analysis are publicly available at: https://github.com/bcb-sut/Pan-Cancer.
The Value of CMR Left Ventricular Strain Analysis in Evaluating ICM
Authors: Zhang Houning , Sheng Jiaxi , Li Guoce , Liu Fenghai , Bian Hao , Niu Xiqing , Kang Liqing 
Published: April 2022

Abstract
The purpose of this article is to investigate the value of cardiac magnetic resonance imaging (CMR) derived left ventricular strain parameters in evaluation of ischemic cardiomyopathy (ICM). Thirty-one ICM patients and nineteen non-cardiomyopathy (non-CM) patients who performed CMR examinations during the same period were selected for this retrospective study. The basic clinical data, CMR left ventricular function parameters, left ventricular strain parameters were compared among the left ventricular ejection fraction (LVEF) preserved ICM group, the LVEF impaired ICM group and the non-CM group. The differences of MyoGCS (-21.9 ± 1.9 vs -18.9 ± 2.7 P<0.001), MyoGLS (-20.8 ± 2.3 vs -17.0 ± 2.9 P<0.001) and EndoGLS (-22.2 ± 3.1 vs -17.6 ± 3.7 P<0.001) between LVEF preserved ICM group and non-CM group were statistically significant, while the differences of left heart function parameters between the two groups were not statistically significant (P > 0.05). The left ventricular strain analysis can be used to assess cardiac functional and morphological alterations in ICM patients prior to changes of left ventricular function parameters, which has high clinical significance.
Polymethylmethacrylate-augmented Cannulated Pedicle Screw Fixation for High-energy Vertebral Compression Fracture with Osteoporosis
Authors: Liu Yao-yao , Xiao Jun , Yin Xiang , Liu Ming-Yong , Wang Zhong , He Lei , Liu Peng , Dai Fei 
Published: April 2022

Abstract
Background
High-energy vertebral compression fractures (HVCFs) with osteoporosis puts forward higher requirement for the stability of pedicle screw internal fixation system. However, few studies have concentrated on the clinical outcomes of cannulated pedicle screw to augment fixation with polymethylmethacrylate (PMMA) under this condition. This study aims to investigate the mid-term efficacy of bone cement-injectable cannulated pedicle screw (CICPS) in HVCFs with osteoporosis.
Methods
Eighteen patients with HVCFs (T < -2.5) were underwent spinal fixation by CICPS from 2012 to 2017. The operation time, blood loss, and hospitalization time were recorded. Pain and functional recovery were evaluated by Visual Analog Scale VAS) and Oswestry Disability Index (ODI), respectively. X-ray films were taken to evaluate the loss of vertebral height, kyphosis angle, pedicle screw loosening, and bony fusion. Surgical related complications were also recorded.
Results
The average follow-up time was 18.5 ± 8.7 months (range, 6–54 months). VAS and ODI scores indicated significant improvements in postoperative pain and activity function (P < 0.05). Comparing the last follow-up with the postoperative imaging findings, the loss of vertebral height and kyphosis angle was 3.4 ± 1.2 mm and 7.8 ± 3.8°, respectively. The rate of bone graft fusion was 100% while no case was involved in screw loosening or extraction. 1 case of superficial infection, 2 cases of PMMA leakage, and 1 case of cerebrospinal fluid leakage were found.
Conclusions
CICPS fixation using PMMA augmentation may be suggested as a feasible surgical technique in osteoporotic patients with HVCFs.
Serum pro-oxidant/antioxidant balance in term versus preterm neonates
Authors: Boskabadi Hassan , Ghayour-Mobarhan Majid , Saeidinia Amin 
Published: April 2022

Abstract
Introduction: The oxidant/antioxidant status balance is a process that begins before birth and premature infants are particularly susceptible to oxidative stress. According to the mechanisms of oxidative stress and lack of study in this field, in this prospective study we aimed to compare the levels of serum pro-oxidant/antioxidant balance (PAB) in preterm versus term babies. Methods: This was a prospective cross sectional study that was performed in Ghaem hospital, a university tertiary hospital, Mashhad, Iran. The study population was included of all term and preterm neonates who were admitted to the hospital within birth time. Results: In our study, 324 neonates were included. One hundred ninety eight neonates were preterm (61.1%) and others were term (38.9%). There was significant difference between PAB level in term and preterm neonates. Serum PAB level was significantly lower in preterm neonates rather than term neonates (21.86± 21.01 versus 50.33± 31.69; P=0.001). There was also significant negative correlation between PAB levels and gestational age. Conclusion: According to previous investigations, we showed for the first time in our study that PAB is lower in preterm newborns rather than term ones.
Synthesis and characterization of activated carbon from red pumpkin skin for the removal of ionic dyes
Authors: Omari S. , Nedjhioui M. , Hamidi N. , Benkortbi O. 
Published: April 2022

Abstract
The aim of this study was to valorize agricultural waste in the form of red pumpkin skin to prepare activated carbon chemically activated by ZnCl2, used as a biosorbent for the removal of two types of dyes, namely methylene blue (MB) and Congo red (CR), present in industrial effluents. Physico-chemical tests were used to characterize the new biosorbent such as Fourier transform infrared spectrophotometry, scanning electron microscopy, pH at zero charge potential, X-ray diffraction and Brunauer Emmett Teller. The results obtained showed that the biosorbent owns an amorphous structure and a specific surface area of 36.51 m2/g. The adsorption of CR and MB onto the prepared activated carbon was performed in batch mode. The effect of several parameters such as contact time, initial concentration, dose of activated carbon, pH and temperature on dye removal was investigated. The adsorption of MB and CR on activated carbon is described by the Langmuir model and is governed by a pseudo-second-order kinetics model with a correlation coefficient of 0.999 for both dyes.
Target Therapy and Immunotherapy for Gastric Cancer - Recent Updates
Authors: Karikalan Barani , Chakravarthi Srikumar 
Published: April 2022

Abstract:
Gastric cancer, with more than 1 million cases all over the globe, is a leading contributor
to cancer mortality. In the recent past, the evolution of target therapies and the refining of the
already existing chemotherapy have widened the therapeutic choices for advanced gastric cancer to
increase survival. In addition, more studies have been conducted all over the globe to extensively
evaluate epigenomic and genomic heterogeneity of gastric cancer, leading to the recognition of new
sensitive and specific prognostic and predictive biomarkers and the development of new molecular
tumor classifications based on their molecular profiling. But, many clinical studies aimed at evaluating
the efficiency of certain new molecular targets gave negative results. Hence, it is vital to further
study the molecular features of subtypes of gastric carcinoma for the purpose of identifying new
tools for selecting responsive tumor subtypes for future trials. This review provides an overview of
recent developments of target therapy and immunotherapy in advanced gastric cancer.
A Review: Recent Analytical Applications on Anti-epileptic Agents
Authors: Kachave Ramanlal N. , Shelke Reshma N. , Mahale Manoj V. 
Published: April 2022

Abstract:Epilepsy is one of the chronic diseases seen in 1.0% of the world’s population. For the study of antiepileptic medications, a variety of approaches have been used extensively. These methods provide reliable, accurate and reproducible results. The available analytical methods for the determination of AEDs in API, biological fluids and pharmaceutical formulations are reviewed in this context. The drugs categorized under AEDs were studied for differentanalytical procedures, methods and systematically classified on the basis of their applications. The analytical instruments used for determination of AEDs include various chromatographic techniques such as High-performance liquid chromatography (HPLC), Ultra performance liquid chromatography (UPLC), Gas chromatography (GC) etc. and other techniques such as hyphenated, spectrophotometric, electrochemical analysis including UV, MS/MS, ECD, CLND, Fluorescence, colometric electrochemical detector (CED) are covered in this review. Supporting electrolyte, pH, panel, mobile phase, measuring or detection potential, sensitivity, and selectivity are all recorded as part of the analytical method formulation and validation process. This review is beneficial for various researchers for further study and advancement in research related to antiepileptic drugs.
Acute Lung Injury with Amphotericin Infusion in a Patient with Invasive
Mucormycosis
Authors: Tripathi Swapnil , Meena Durga Shankar , Kumar Deepak , Bohra Gopal Krishana 
Published: April 2022

Background:
Amphotericin B is a pivotal drug for the management of invasive fungal infections.
However, it has a significant toxicity profile with acute infusion reactions like fever, chills,
vomiting, anaphylaxis, and nephrotoxicity in patients with long-term use. Pulmonary reactions mimicking
acute pulmonary edema are unusual with amphotericin.

Case Description:
We report a case of a 51-year-old male diagnosed with rhinomaxillary mucormycosis,
who developed acute onset breathlessness, bilateral diffuse pulmonary infiltrates after amphotericin
infusion. The patient recovered spontaneously within a few hours after the cessation of amphotericin,
which was parallel with the normalization of Chest X-ray. Furthermore, the Naranjo adverse reaction
probability score was 9, which established a definite causal relation between drug use and adverse
event.

Conclusion::
Clinicians should be aware of acute lung injury in patients treated with amphotericin infusion.
In cases with no alternative available, a slow infusion of amphotericin with close monitoring is
required to prevent life-threatening pulmonary reactions.
Treatment and Management of Autosomal Recessive Cerebellar Ataxias: Current Advances and Future Perspectives
Authors: Dupré Nicolas , Salem Ikhlass H. , Beaudin Marie , Klein Christopher J. 
Published: April 2022

Abstract:The autosomal recessive cerebellar ataxias (ARCAs) compose a clinically and genetically heterogeneous group of neurodegenerative diseases characterized by prominent cerebellar ataxia, dysmetria, dysarthria, and nystagmus that are inherited in an autosomal recessive fashion. The diagnosis of ARCAs is challenging because of their low prevalence, poor medical recognition, and heterogeneous clinical presentation with many overlapping features between entities. There currently exist no disease-modifying therapies for most ARCAs, and treatment is mainly symptomatic, aimed at prolonging independence and maintaining the quality of life. As knowledge of the common pathogenic pathways underlying several ARCAs grows, so do these pathways to target with new drugs. Chelation or enzyme replacement therapies are available for some specific ataxias caused by amenable metabolic alterations. A large number of drug trials are ongoing and aim to identify new therapeutic approaches to expand the options in our repertoire. Improved protocols of motor rehabilitation and noninvasive cerebellar stimulation have been shown to delay disease progression and maintain quality of life. Furthermore, recent progress in gene and molecular targeting therapies is rapidly expanding and holds promise for repairing defective genes. Neurotransplantation of grafted stem cells, which is still at the experimental preclinical stage, has opened new therapeutic strategies aimed at delaying cell degeneration and facilitating compensatory functions. This article is an overview of the current management and treatment strategies with an emphasis on promising perspectives for patients with ARCAs.