bluuebunny/crossref_metadata_2025_split huggingface dataset:
Integrated Analysis of the Transcriptome and Metabolomics Reveals an Essential Role for Auxin in Hypocotyl Elongation During End-of-Day Far-Red Treatment of Cucurbita Moschata
Authors: Liu Qi , Zhang Hanqing , Mei Yanhao , Li Qi , Bai Yahui , Yu Huibin , Xu Xiaodong , Ma Jianxiang , Wu Yongjun , Yang Zhenchao 
Published: December 2020

Abstract
BackgroundLong, robust hypocotyls are important for facilitating greenhouse transplant production. Use of far-red light at the end of the day (end-of-day far-red, EOD-FR) is known to affect hypocotyl elongation. Auxin is an important regulator of plant growth and development, but its role and mechanism in EOD-FR-mediated hypocotyl elongation remain unclear. Here we combined transcriptome sequencing and metabolite profiling of pumpkin hypocotyls with related physiological experiments to provide insight into the mechanisms by which auxin affects the response to EOD-FR. ResultsAfter EOD-FR treatment, the length of pumpkin Hypocotyl and the IAA level of plant Hypocotyl were significantly promoted. When NPA was applied, the Hypocotyl elongation mediated by EOD-FR and the increase of IAA content were counteracted.At the same time, through the observation of Hypocotyl sections, we found that hypocotyl cells expanded significantly after EOD-FR treatment.After EOD-FR treatment, 2801 DEGs, were identified in hypocotyl, of which 31 DEGs related to auxin synthesis, transport and signal transduction and 25 cell wall protein genes were identified.Through the detection of metabolic group, it was found that the levels of tryptophan and indole in plant increased after EOD-FR treatment.All these indicate that auxin plays an essential role in EOD-FR-mediated hypocotyl elongation.Conclusions﻿We identified a large number of differentially expressed genes related to auxin synthesis, transport, and downstream response. We speculate that auxin is essential for pumpkin hypocotyl elongation mediated by EOD-FR, and that the synthesis of free IAA may be performed by the tryptophan-dependent TAA-YUC pathway. This study improves our understanding of auxin’s role in EOD-FR-mediated hypocotyl elongation.
Sight of parasitoid wasps accelerates sexual behavior and
upregulates a micropeptide gene in Drosophila
Authors: Ebrahim Shimaa , Talross Gaëlle , Carlson John R. 
Published: December 2020

Abstract
Parasitoid wasps inflict widespread death upon the insect world. Hundreds of thousands of parasitoid wasp species kill a vast range of insect species, and many such wasps are used globally to control insect pests. Insects have evolved defensive responses to the threat of wasps, some cellular and some behavioral. However, the nature of these responses and the mechanisms that underlie them await further exploration. Here we find an unexpected response of adult Drosophila to the presence of certain parasitoid wasps: accelerated mating behavior. Flies exposed to certain wasp species begin mating more quickly. The effect is mediated via changes in the behavior of the female fly and depends on visual perception. The sight of wasps induces the dramatic upregulation in the fly nervous system of a gene that encodes a 41-amino acid micropeptide. Mutational analysis reveals that the gene is essential to the behavioral response of the fly. Our work provides a foundation in a genetic model system for further exploration of how the activation of visual circuits by the sight of a parasitoid wasp alters both sexual behavior and gene expression.
Infectivity of Adult and Pediatric COVID-19 Patients
Authors: Kapmaz Mahir , Dogan Ozlem , Akturk Hacer , Ozer Berna , Nurtop Elif , Vatansever Cansel , Ozcan Gulin , Celikyurt Aydın , Khalilova Fidan , Okan Ayse , Incir Said , Sackesen Cansın , Ergonul Onder , Can Fusun 
Published: December 2020

Abstract
We report infectivity of adult and pediatric COVID-19 patients in presence of viral shedding and anti-SARS-CoV-2 antibody response A total of 408 consequent samples from eleven adult and five pediatric patients with SARS-CoV-2 infection were included. The samples every second day from saliva, nasopharynx, feces, serum, urine, tear were studied by RT-PCR and viral culture. Anti-SARS-CoV-2 antibodies were measured. The median duration of RNA shedding in all specimens was 7(2-15) days in adults and 5(3-19) days in children. The median duration from onset of symptoms to admission was three days.The viral RNA was positive in 44.7 % of the nasopharynx and 37.6% of saliva samples up 16 days in adults and 19 days in chldren. The latest viral culture positivity was detected on day 8 of symptoms in nasopharynx. The viral RNA was found in 6.1% of feces, 4.4% ofserum, 4.3 % of tear, 2.9% of urine. The earliest seroconversion was the 7th day for adults and 8th day for children. Atthe 14th day, total antibody positivity was 78% in adults, and 80% in children. After seroconversion, the viral RNA was still detected in the nasopharynx and saliva of three patients, however, the infectious virus was not present. Earlier hospital admission could be associated with shorter SARS-CoV-2 RNA shedding. The infectivity of patient is very low after 8 days of symptoms. The risk of fecal-oral transmission is very low, and strict hand hygiene measures could be preventive. The positive antibody test result could be used as a discharge criterion.
The Effects of Pre-Pregnancy Body Mass Index and Gestational Weight Gain on the Risk of Preeclampsia at a Tertiary Referral Hospital, Northern Tanzania
Authors: Amagulu Nelago Tukondjeni , Mchome Bariki , Alloyce Julius Pius , Tobi Kingsly , Maro Eusebius 
Published: December 2020

Abstract
Background: Pre/eclampsia and other hypertensive disorders of pregnancy contributed to 18% of the maternal mortality reported in Northern Tanzanian. There is increasing prevalence of obesity in Tanzania which is related to excessive weight gain in pregnancy. Both high BMI and excessive gestation weight gain are identified to increase risk of PE and subtypes, however this is still inconclusive and little is known about the joint effect of pre-pregnancy BMI and GWG on risk of PE and its subtypes in Africa. We evaluated the independent and joint effects of pre-pregnancy BMI and GWG on the risk of pre-eclampsia and its subtypes among women who delivered at Kilimanjaro Christian Medical Center (KCMC) from October 2018 to May 2019, Northern Tanzania.Methods: We performed a retrospective birth cohort study from October 2018 to May 2019 at KCMC, Tanzania. Pre-pregnancy BMI was categorized using WHO categories into Underweight (˂ 18.5kg/m²), Normal weight (18.5-24.9kg/m²), Overweight (25-29.9kg/m²) and Obese (≥ 30kg/m²). Gestational Weight Gain (GWG) was categorized using the 2009 Institute of Medicine (IOM) guidelines into Inadequate, Adequate and Excessive weight gain in pregnancy. Multinomial logistic regression analysis was used to adjust for confounders using relative risk, 95% confidence interval for the risk ratios (RR) that did not cross 1 and p<0.05 were regarded statistically significant.Results: Among the 1309 women analysed, 5.3% were Underweight, 51.1% Normal weight, 26.9% Overweight and 16.7% were Obese. About 43.5% had excessive GWG. Women with PE were 9.5%. Both obesity and excessive GWG independently increased risk of PE with adjusted RR=2.42, 95%CI: 1.48-3.96 and RR=1.77, 95%CI: 1.16-2.69 when compared to normal BMI and adequate GWG respectively. Jointly, Obesity and Excessive GWG had the highest risk of PE (ARR=4.95, 95%CI: 2.21-11.10). The increased risk was similar for Mild PE (MPE), Severe PE or eclampsia (SP/E) and Late Onset PE (LOPE). No association was found for Early Onset PE (EOPE).Conclusion: Pre-pregnancy Obesity and Excessive GWG independently and jointly increases risk for PE and the risk varies by PE subtype.
Development of Multi-Concentration Ag:Cu Bimetallic Nanoparticles as a Promising Bactericidal for Antibiotic-Resistant Bacteria as Per Molecular Docking Exploration
Authors: Mureed S. , Naz S. , Haider A. , Raza A. , Ul-Hamid A. , Haider J. , ikram muhammad , Ghaffar R. , Irshad M. , Ghaffar A. , Saeed A. 
Published: December 2020

Abstract
The present study is concerned with the influence of various concentrations of Ag within Cu:Ag bimetallic nanoparticles developed for use as a promising anti-bacterial agent against antibiotic-resistant bacteria. Here, Cu:Ag bimetallic nanoparticles (NPs) with various concentration ratios (2.5, 5.0, 7.5, and 10 wt.%) of Ag in fixed amount of Cu labeled as 1:0.025, 1:0.050, 1:0.075, and 1:0.1 were synthesized using co-precipitation method with ammonium hydroxide and deionized water as solvent, polyvinyl pyrrolidone as a capping agent, and sodium borohydride and ascorbic acid as reducing agents. These formulated products were characterized through a variety of techniques. XRD confirmed phase purity and detected the presence of distinct fcc structures belonging to Cu and Ag phases. FTIR spectroscopy confirmed the presence of vibrational modes corresponding to various functional groups and recorded characteristic peak emanating from the bimetallic. UV-visible spectroscopy revealed reduction in band gap with increasing Ag content. SEM and HR-TEM micrographs demonstrated spherical morphology of Ag-doped Cu bimetallic with small and large scale agglomerations. The samples exhibited varying dimensions and interlayer spacings. Bactericidal action of synthesized Cu:Ag bimetallic NPs depicted statistically significant (P < 0.05) inhibition zones recorded for various concentrations of Ag dopant against Staphylococcus aureus (S. aureus), Escherichia coli (E. coli), and Acinetobacter baumannii (A. baumannii) ranging from (0.85 – 2.8 mm), (0.55 – 1.95 mm) and (0.65 – 1.85 mm), respectively. Broadly, Cu:Ag bimetallic NPs were found to be more potent against gram-positive compared with gram-negative. Molecular docking study of Ag-Cu bimetallic NPs was performed against β-lactamase which is a key enzyme of cell wall biosynthetic pathway from both S. aureus (Binding score: -4.981 kcal/mol) and A. bauminnii (Binding score: -4.013 kcal/mol). Similarly, binding interaction analysis against FabI belonging to fatty acid biosynthetic pathway from A. bauminnii (Binding score: -3.385 kcal/mol) and S. aureus (Binding score: -3.012 kcal/mol) along with FabH from E. coli (Binding score: -4.372 kcal/mol) was undertaken. These theoretical computations indicate Cu-Ag bimetallic NPs as possible inhibitor of selected enzymes. It is suggested that exploring in vitro inhibition potential of these materials may open new avenues for antibiotic discovery.
Exosomes from Adipose-Derived Mesenchymal Stem Cells Overexpressing Stanniocalcin-1 Promote Reendothelialization after Carotid Endarterium Mechanical Injury
Authors: Liu Kun , Shi Huihua , Peng Zhiyou , Wu Xiaoyu , Li Weimin , Lu Xinwu 
Published: December 2020

Abstract
Background and objective: Endothelial cell inflammation caused by mechanical injury of endovascular treatment remains the major obstacle to reendothelialization, which leads to arterial restenosis. We investigated the reendothelialization effect of exosomes from adipose-derived mesenchymal stem cells (ADSC) overexpressing Stanniocalcin-1 (STC-1).Methods: Primary ADSCs were extracted from the adipose tissue of the inguinal area of C57/BL mice. ADSCs were transfected with lentivirus vectors containing STC-1. Exosomes were purified from culture medium using the Exo-Quick kit and characterized by transmission electron microscopy, nanoparticle tracking analysis and western blot. PHK-26 as molecular probe was used to track the exosomes engulfed by mice arterial endothelial cells (MAEC). The role of STC-1-ADSC-Exosome (S-ADSC-Exo) in MAECs was verified through scratch test and tube forming experiment. Carotid endarterium mechanical injury was induced by insertion with a guidewire into the common carotid artery lumen. Exosomes were administered by tail vein injection. Content of Reactive oxygen species (ROS) was measured using commercial kits. Carotid arteries were harvested for histological examination, immunofluorescence staining, and Evan’s blue staining.Results: Transfection of STC-1 significantly enhanced STC-1 levels in ADSCs, their exosomes, and MAECs. Compared with the control group and the ADSC-Exo group, STC-1 enriched exosomes markedly enhanced STC-1 level, inhibited the expression of NLRP3, Caspase-1, and IL-1β in MAECs, exhibited good lateral migration capacity, and promoted angiogenesis. Exosome-pretreating groups exhibited lower levels of ROS than those of controls. In vivo administration of S-ADSC-Exo had reendothelialization effect on post-injury carotid endarterium as evidenced by thinner arterial wall, low-expressed NLRP3, and more living endothelial cells.Conclusions: The reendothelialization effect of exosomes from ADSCs on post-injury carotid endarterium can be enhanced by genetic modification to contain elevated STC-1.
Prediction of Ipsilateral Lateral Cervical Lymph Node Metastasis in Papillary Thyroid Carcinoma: A Combined Dual-energy CT and Thyroid Functional Indicators Study
Authors: Zou Ying , Zhang Huanlei , Li Wenfei , Guo Yu , Sun Fang , Shi Yan , Gong Yan , Lu Xiudi , Wang Wei , Xia Shuang 
Published: December 2020

Abstract
BackgroundThe prediction of ipsilateral lateral cervical lymph node metastasis (ipsi-LLNM) was crucial to the operation plan in patients with papillary thyroid carcinoma (PTC). This study aimed to investigate the risk factors for ipsi-LLNM using dual-energy computed tomography (DECT) and thyroid functional indicators in patients with PTC. MethodsThe medical records of 406 patients with a pathological diagnosis of PTC were retrospectively reviewed from Jan 2016 to Dec 2019. Demographic, clinical, pathological findings, and parameters from DECT were evaluated. Risk factors for ipsi-LLNM were explored by univariate and multivariate analyses. Receiver operating characteristic (ROC) curves were used to evaluate the cut-off value of each risk factor.ResultsTotally 406 patients with PTC were analyzed, including 128 with ipsi-LLNM and 278 without. There were statistical differences of parameters between the two groups (P < .0001), including serum Tg, Anti-Tg, Anti-TPO, the volume of the primary lesion, calcification, extrathyroidal extension (ETE), and iodine concentration (IC) in arterial and venous phases. Independent risk factors for ipsi-LLNM included serum Tg, Anti-Tg, ETE, and IC in arterial and venous phases (P < .05). Ipsi-LLNM was more likely to occur when the following conditions were met: with ETE, Tg > 100.01 ng/ml, Anti-Tg > 89.43 IU/ml, IC in arterial phase > 3.4 mg/ml and IC in venous phase > 3.1 mg/ml.ConclusionsApplication of DECT parameters and thyroid functional indicators can improve the diagnostic performance in the evaluation of ipsi-LLNM in patients with PTC.
Palestinian Patients With Cancer at the King Hussein Cancer Center
Authors: Mansour Razan , Amarin Justin Z. , Al-Hussaini Maysa , Mansour Asem 
Published: December 2020

Abstract
PURPOSE: The Palestinian Ministry of Health (MoH) routinely refers Palestinian patients with cancer to the King Hussein Cancer Center (KHCC), the largest cancer center in the Middle East. Our aim was to describe the characteristics of these patients.PATIENTS AND METHODS: We performed a retrospective chart review of all Palestinian patients with cancer who were treated at the KHCC during 2018 and 2019. We retrieved data from the Cancer Registry and described the demographic and clinical characteristics of the cohort.RESULTS: Out of 521 Palestinian patients, we excluded 41 patients who were misdiagnosed and included the remaining 480. Most patients were adults (n = 426, 88.8%). The most common cancer sites in men (n = 200) were the hematolymphoid system (n = 47, 23.5%), followed by the digestive system (n = 35, 17.5%), and lung and pleura (n = 23, 11.5%). In women (n = 226), the most common cancer sites were the breast (n = 104, 46.0%), followed by the digestive system (n = 34, 15.0%), and hematolymphoid system (n = 23, 10.2%). Children and adolescents accounted for 11.3% (n = 54) of the total cases. The hematolymphoid system was the most common cancer site (n = 27, 50%), followed by the brain (n = 8, 14.8%). More than a third of all patients presented with distant metastasis.CONCLUSION: The most common cancer sites in our cohort are generally similar to data from the Palestinian territories. Many patients presented with advanced-stage disease, which signals the need for awareness campaigns and screening programs. Cancer is misdiagnosed in many patients with benign tumors, which is a consequence of a shortage in specialists and limited diagnostic equipment.
WITHDRAWN: What Should Be the Determinant of Treatment for Juveniles with Flexible Flatfeet?
Authors: Zhai JunNa , Qiu YuSheng , Shao Lina 
Published: December 2020

Abstract
Background: It is still controversial that if juveniles with flexible flatfeet need to be treated. Some believed they did not need the treatment unless they felt pain after exercise. However, as living standards rise, the amount of exercise among teenagers is declining. The juveniles with flexible flatfeet don’t feel pain not because they don’t have symptoms, but because they rarely walk. This study recruited juveniles with flexible flatfoot to find out if there was other determinant of treatment. Methods: We recruited an experimental group with 20 severe flexible flatfeet and a control group with 20 severe flexible flatfeet. The contact area and load rate were measured separately. Then the subjects of experimental group were treated by exercise therapy for 8 weeks, and the plantar pressure data were measured again. The repeated measure was used to analyze the data. Results: The contact area and load rate of mid foot decreased significantly in experimental group after 8-week treatment. All the subjects of experimental group did not feel any uncomfortable during the treatment. While the two kinds of data in control group were not changed much between pre-after measurements. Conclusion: Exercise therapy could effectively improve the severe flexible flatfoot. If the juveniles with flexible flatfoot need the treatment should not depend on the symptoms only, but also on the severity. The juveniles with severe flexible flatfoot should be treated as soon as diagnosed.
Molecular and Functional Characterization of a Novel Plasmid-Borne blaNDM variant, blaAFM-1, in a Clinical Strain of Aeromonas Hydrophila
Authors: Lin Xi , Lu Junwan , Qian Changrui , Lin Hailong , Li Qiaoling , Zhang Xueya , Liu Hongmao , Sun Zhewei , Zhou Danying , Lu Wei , Zhu Mei , Zhang Hailin , Xu Teng , Li Kewei , Bao Qiyu , Lin Li 
Published: December 2020

Abstract
BackgroundAeromonas hydrophila is a zoonotic and human opportunistic pathogen. Increasing antibiotic resistance profiles have been discovered in both clinical and environmental A. hydrophila isolates in recent years. However, there are still very few in-depth studies regarding the role of plasmids in antibiotic resistance of A. hydrophila. Hence, we investigate the molecular characterization and functional characterization of a multidrug resistant plasmid which encoding a novel NDM variant, AFM-1, in clinical A. hydrophila SS332.MethodsThe minimum inhibitory concentrations (MICs) of 24 antibiotics for A. hydrophila SS332 were measured by the agar dilution method. The genome of A. hydrophila SS332 was sequenced with Pacific and Illumina platforms. Six plasmid-borne antimicrobial resistance genes were chosen for cloning, including blaAFM-1, blaOXA-1, msr(E), mph(E), aac(6')-Ib10, and aph(3')-Ia. Phylogenetic analysis, amino acid sequence alignment, and comparative genomic analysis were performed to elucidate the active site requirements and genetic context of blaAFM-1 gene.ResultsA. hydrophila SS332 showed high levels of resistance to 15 antibiotics, especially those with MIC levels up to or higher than 1024 μg/mL, including ampicillin, cefazolin, ceftriaxone, aztreonam, spectinomycin, roxithromycin. Six plasmid-borne resistance genes were verified to be functional in E. coli DH5α. The blaAFM-1 gene, a novel blaNDM variant, encodes a subclass B1 metallo-β-lactamase AFM-1 which shares 86% amino acid identity with NDM-1. AFM-1 showed resistance to penicillins, cephalosporins and carbapenems. Besides, blaAFM-1 gene was associated with three different novel ISCR19-like elements, designated ISCR19-1, ISCR19-2 and ∆ISCR19-3, which may be involved in the acquisition and mobilization of blaAFM-1 gene. Conclusions﻿Our investigation showed that plasmid-borne resistance genes played a major role in the resistance profiles of A. hydrophila SS332. A novel blaNDM variant, blaAFM-1, was verified to be functional and disseminated among different bacteria species mediated by novel ISCR19-like elements. The fact indicated that the risk of spread of novel resistance genes and novel ISCR elements.
Single-cell Sequencing-based Pre-implantation Genetic Testing-M (PGT-M) of the Heterozygous Mutations of PKD1 Gene
Authors: Li Na , Miao Cong Xiu , Bi HuiLing , Miao Hui , Li Dan , Li Min 
Published: December 2020

Abstract
Objectives: Polycystic kidney disease (PKD) is a common autosomal monogenic genetic disease. PKD1 mutation accounts for about 85% of ADPKD patients. Pre-implantation genetic testing-M (PGT-M for monogenic) is an important approach to prevent the transmission of genetic diseases from parents to the offspring. Design: In this study, We have identified the family linkage and mutation site in embryos with NGS-based SNP phasing and Sanger Sequencing.Methods: Multiple Annealing and Looping Based Amplification Cycles (MALBAC) method was employed to amplify the whole genome of trophoblast cells. Copy Number Variant (CNV), and single nucleotide polymorphism (SNP) were used to assess the embryo state. Results: In the eight embryos, Embryo 02 and Embryo 04 were removed from further analysis because of the Multiple chromosomes abnormal (2 of 8, 25%). Embryo 05, Embryo 06, Embryo 07, and Embryo 08 were judged as 46,XN,-15q(q23→qter,~31M,×1,mos*), 45,XN,-16(×1), 47,XN,+2(×3),-7p(pter→p14.3,~35M,×1,mos*), and 46,XN, +16(×3,mos*),-20p(pter→p11.23,~23M,×1,mos*),+22(×3,mos*), respectively (4 of 8, 50%). Meanwhile, Embryo 01 and Embryo 03 were judged as 46, XN (2 of 8, 25%). The results of SNP phasing and Sanger Sequencing suggested that Embryo 01 and Embryo 05 had none of PKD1 gene mutation. Limitations: Up to now, PGT-M is complicated and expensive. Meanwhile, PGT-M obtains the final diagnosis through invasive manipulation of embryos, which may bring adverse effects on offspringConclusion: NGS-based single-cell sequencing combined with CNV, Sanger Sequencing, and SNP phasing is a reliable testing system for PGT-M application. This work presented here would provide a detailed understanding of the NGS-based single-cell sequencing application in ADPKD.