bluuebunny/crossref_metadata_2025_split huggingface dataset:
JQ1 attenuates neuroinflammation by inhibiting the inflammasome-dependent canonical pyroptosis pathway in SAE
Authors: Zhong Xiaolin , Chen Zuyao , Wang Yajuan , Mao Mingli , Deng Yingcheng , Shi Mengmeng , Xu Yang , Chen Ling , Cao Wenyu 
Published: February 2022

Abstract
Sepsis-associated encephalopathy (SAE) manifests clinically in hyperneuroinflammation. Pyroptosis, which can induce an inflammatory cascade response, has been considered to be a causative factor of SAE. Evidence has shown that the bromo- and extraterminal (BET) proteins (including BRD2, BRD3, BRD4 and BRDT) inhibitor JQ1 can inhibit inflammation and suppress pyroptosis in various diseases. Therefore, we examined the effect of JQ1 on inflammasome-induced pyroptosis in the hippocampus in a mouse model of sepsis induced by lipopolysaccharide (LPS) injection. The results showed that JQ1 treatment alleviated sepsis-related symptoms, protected the blood–brain barrier (BBB), as indicated by upregulated expression of the tight junction proteins occludin and ZO-1, and remarkably rescued neuronal damage in SAE mice. Mechanistically, we demonstrated that JQ1 intervention inhibited the expression of BRD proteins and decreased the expression of inflammasomes by blocking nuclear factor kappa B (NFκB) signalling, attenuating the canonical pyroptosis (mediated by cleaved-Caspase1/11) pathway and the release of proinflammatory factors in the hippocampus of septic mice. Interestingly, we also found that JQ1 selectively suppressed the activation of hippocampal microglia in SAE mice. Thus, JQ1 protected the hippocampal BBB and neuronal damage through the attenuation of neuroinflammation by inhibiting the inflammasome-dependent canonical pyroptosis pathway induced by LPS injection in mice, and JQ1 may be a promising target for the prevention of SAE.
Hymenobacter Translucens sp. nov., Hymenobacter Pini sp. nov. Isolated From Soil
Authors: Bang Minji , Kim Myung-Kyum , Jung heeyoung 
Published: February 2022

Abstract
Two novel bacterial strains BT175T and BT728T, were isolated from soil collected in Republic of Korea. Both strains were Gram-stain-negative, rod-shaped, and had circular, convex, and pink-colored colonies. The 16S rRNA gene sequence similarity between the strains BT175T and BT728T was 93.6%, indicating that they represent a distinct species. 16S rRNA sequence analysis indicated that strains BT175T and BT728T belong to a distinct lineage within the genus Hymenobacter (family Hymenobacteraceae, order Cytophagales, class Cytophagia, phylum Bacteroidetes). Strain BT175T was closely related to Hymenobacter persicinus 1-3-3-3T (97.2%, 16S rRNA gene similarity), Hymenobacter knuensis 16F7C-2T (96.6%), and Hymenobacter daejeonensis PB105T (96.1%). Strain BT728T was closely related to Hymenobacter rigui KCTC 12533T (98.4%), Hymenobacter metallilatus 9PBR-2T (97.6%), and Hymenobacter perfusus LMG26000T (97.4%). Strain BT175T and BT728T were found to have the MK-7 as the major respiratory quinone. The DNA G + C content of strain BT175T was 61.6 mol% and BT728T was 59.6 mol%, respectively. Characterization based on polyphasic analysis indicated that strains BT175T and BT728T represent novel species of the genus Hymenobacter and the name Hymenobacter translucens sp. nov. and Hymenobacter pini sp. nov. are proposed. The type strain of Hymenobacter translucens is BT175T (= KCTC 72330T = NBRCxxxxxT) and Hymenobacter pini is BT728T (= KACC 22629T = NBRC xxxxxT).
Radiation shift from triple to quadruple frequency caused by the interaction of terahertz pulses with a nonlinear Kerr medium
Authors: Artser Ilya , Melnik Maksim , Ismagilov Azat , Guselnikov Mikhail , Tcypkin Anton , Kozlov Sergei 
Published: February 2022

Abstract
High-intensity optical radiation propagation in a transparent dielectric medium causes the phenomena of self-action of the pulse and the generation of radiation at triple frequencies due to the cubic nonlinearity of the medium. However, usually the quadratic nonlinear effects outshine the cubic ones in the anisotropic nonlinear crystals. In this work, we demonstrate that for certain experimental parameters the nonlinear effect of the third order can be stronger than one of the second order in MgO:LiNbO3 crystal for terahertz frequency range. We experimentally and theoretically show that it can lead to the significant modification of the classical phenomenon of radiation generation at triple frequencies in the case when the pulse represents only one complete oscillation of the optical field. In the experiment it was shown that the phenomenon of generation of radiation at triple frequencies with respect to the frequency of the maximum spectral density in a nonlinear medium of the pulse disappears, and it is replaced by the generation of radiation at quadruple frequencies. The analysis demonstrates that this effect is based on the asymmetry of the initial spectrum of such extremely short pulses in terms of the number of oscillations.
Neuroprotective and Hypoglycemic Effects of the Nanoemulsion and Nettle Aqueous Extract on Streptozotocin-Induced Diabetic Neuropathy in Rats: Molecular, Biochemical, and Histological Evidence
Authors: Javadi Sara , Motaghinejad Majid , Kazemi Negar Motakef , Seifalian Amelia 
Published: February 2022

Abstract
Background: Nanotechnology plays an important role in controlling diabetes. Aim of Study: In current study, antidiabetic properties of the O/W Nano emulsion of nettle extract and cumin essential oil were evaluated. Methods:Various doses of Nettle (Urtica dioica) aqueous extract, nettle Nano emulsion, and Cuminum cyminum L essence were used in Streptozocin-induced diabetes in rats. Randall-Selitto method and Tail Flic Test were used for sciatic nerve neuropathy. Sciatic histological changes and level of Insulin like growth factor (IGF), neural growth factor (NGF), Oxidative stress, inflammatory, and apoptosis as well as blood levels of Glucose, Insulin, and inflammatory parameters were evaluated. Results: Nettle Nano emulsion, aqueous extract, and Cuminum cyminum L essence caused decreases in serum levels of glucose and cytokines, and increased insulin level while improved histological changes and reduced sciatic levels of thiobarbituric acid, reduced glutathione (GSH), TNF-a, IL-1ß, IL-6 Bax, Bcl-2, Caspase-3, and Caspase-7, and increased the oxidized level of glutathione (GSSG) and activities of superoxide dismutase (SOD), catalase (CAT), glutathione peroxidase (GPx), and glutathione reductase (GR) and levels of IGF and NGF in the sciatic tissue of diabetic rats. Conclusion: Nettle Nano emulsion, aqueous extract, and Cuminum cyminum L essence can be a good candidates for diabetic subjects.
Pattern and Variation in Simple Sequence Repeat (SSR) at Different Genomic Regions and Its Implications to Maize Evolution and Breeding
Authors: Zhao Meiqi , Shu Guoping , Cao Gangqiang , Hu Yanhong , Wang Yibo 
Published: February 2022

Abstract
BackgroundRepeptive DNA sequences accounts for over 80% of maize genome. Simple sequence repeats (SSRs), while only take up about 0.03% among them, have been widely used in maize genetic research and breeding as highly informative codominant DNA markers. The genome-wide distribution and polymorphism of SSRs are not well studied due to the lack of high-quality genome DNA sequence data. ResultsIn this study, using data from high-quality De Novo-sequenced maize genomes of five representative maize inbreds, we reveal that SSRs are more densely present in telomeric region than centromeric region, and are more abundant in genic sequences than intergenic sequences. On genic sequences, tri- and hexa-nucleotide motifs are more abundant in CDS sequence and some mono- and dinucleotide motifs are more abundant in UTR sequences. Median length and chromosomal density of SSRs are both narrowly range-bound, with median length of 14-18bp and genome-wide average density of 3355.77 bp/Mbp. LTR-RTs of <0.4 Mya are found have higher SSR density（4498-4992 bp/Mbp). The genome-specific and motif-specific SSR polymorphism are studied and their potential breeding applications discussed.ConclusionsThe nearly constant median length of SSR sequences of different SSR motifs, the much higher SSR density in genic regions than intergenic regions, the narrowly range-bound SSR density at LTR-RTs of different evolutionary ages, and, the isokinetic evolution of SSRs and their LTR carriers, all these observations indicate that SSR length and density are under control of yet unknown evolutionary forces. The chromosome region-specific and motif-specific SSR polymorphisms we observed support the notion that SSR polymorphism is invaluable genome resource for developing highly informative genome and gene markers in maize genetic research and molecular breeding.
Susceptibility of invasive mosquitoes (Diptera: Culicidae) for infection with Japanese encephalitis virus, an emerging zoonosis
Authors: Hernandez-Triana Luis Miguel , Hernandez-Triana Luis Miguel , Folly Arran J. , Sewgobind Sanam , Lean Fabian Z. X. , Ackroyd Stuart , Nuñez Alejandro , Delancour Sarah , Drago Andrea , Visetin Patrizia , Mansfield Karen L. , Johnson Nicholas 
Published: February 2022

Abstract
Background: Japanese encephalitis virus (JEV) is the principal cause of mosquito-borne encephalitis in human populations within Asia. If introduced into new geographic areas, it could have implications for public and animal health. However, potential mosquito vectors for virus transmission have not been fully investigated. The Asian tiger mosquito, Aedes albopictus, has emerged into Europe and is now expanding its geographical range into more northerly latitudes. Culex quinquefasciatus, although absent from Europe, has been detected in Turkey, a country with territory in Europe, and could act as a vector for JEV in other regions. To assess the risk of these invasive species acting as vectors for JEV, we have investigated the vector competence of Ae. albopictus and Cx. quinquefasciatusMethods: Two colonised lines of Ae. albopictus (Italy and Spain), and a line of Cx. quinquefasciatus (Tanzania) were compared for susceptibility to infection by oral feeding with JEV strain SA-14, genotype III, at 106 PFU/ml and maintained at 25oC. Specimens were processed at 7 and 14 days post-infection (dpi). Rates of infection, dissemination and transmission were assessed through detection of viral RNA by real-time polymerase chain reaction (RT-PCR) in mosquito body, legs and saliva, respectively, at each time point. Where possible, infection and dissemination were confirmed by immunohistochemical (IHC) detection of the JEV envelope protein.Results: Aedes albopictus from Italy showed no susceptibility to infection with JEV strain SA-14. Conversely, Ae. albopictus colonised in Spain was susceptible and 100% of infected mosquitoes expressed viral RNA in saliva at 14 dpi. Culex quinquefasciatus was highly susceptible to infection as early as 7 dpi and 50% of infected mosquitoes expressed viral RNA in saliva at 14 dpi. Infection and dissemination were confirmed in Cx. quinquefasciatus by IHC detection of JEV envelope protein in both the mid-gut and salivary glands.Conclusions: Aedes albopictus from two different locations in Europe range from being fully susceptible to JEV and capable of transmission, through to being totally resistant. Culex quinquefasciatus, also appears highly susceptible, therefore both species could potentially act as competent vectors for JEV and facilitate the emergence of JEV into new regions.
WheatQTLdb V2.0: A Supplement to the Database for Wheat QTL
Authors: Singh Kalpana , Saini Dinesh Kumar , Saripalli Gautam , Batra Ritu , Gautam Tinku , Singh Rakhi , Pal Sunita , Kumar Manoj , Jan Irfat , Singh Sahadev , Kumar Anuj , Sharma Hemant , Chaudhary Jyoti , Kumar Kuldeep , Kumar Sourabh , Singh Vikas Kumar , Singh Vivudh Pratap , Kumar Deepak , Sharma Shiveta , Kumar Sachin , Kumar Rahul , Sharma Shailendra , Gaurav Shailendra Singh , Sharma Pradeep Kumar , Balyan Harindra Singh , Gupta Pushpendra Kumar 
Published: February 2022

Abstract
We recently developed a database for hexaploid wheat QTL (WheatQTLdb; www.wheatqtldb.net) that included 11,552 QTL affecting various traits of economic importance. However, that database did not include valuable QTL from other wheat species and/or progenitors of bread wheat. Therefore, an updated and wider version of wheat QTL database (WheatQTLdb V2.0) was developed in this study which now includes information on hexaploid wheat (Triticum aestivum) as well as seven other related species: T. durum, T. turgidum, T. dicoccoides, T. dicoccum, T. monococcum, T. boeoticum, and Aegilops tauschii. WheatQTLdb V2.0 includes a much improved list of QTL, so that V2.0 now has 27,518 main-effect QTL, 202 epistatic QTL, and 1,321 metaQTL. This newly released WheatQTLdb V2.0 will provide plant breeders and geneticists much more valuable options to search and choose the category-wise and trait-wise data for their research or breeding programmes.
Effect of Preoperative Body Mass Index on Surgical Textbook Outcomes Following Curative-intent Resection for Perihilar Cholangiocarcinoma
Authors: Liu Zhi-Peng , Zhong Shi-Yun , Chen Wei-Yue , Wang Zi-Ran , Pu Jia-Le , Liu Xing-Chao , Fan Hai-Ning , Pan Yu , Xie Dan , Cheng Jun-Jie , Yang Yi-Shi , Bai Jie , Jiang Yan , Zhang Yan-Qi , Dai Hai-Su , Chen Zhi-Yu 
Published: February 2022

Abstract
Background & Objects:
A comprehensive evaluation of the performance during the perioperative period is essential to provide good surgical care. To incorporate numerous characteristics into a single specified quality indicator, "Textbook outcomes (TO)" has been presented. The effect of the preoperative body mass index (BMI) on the occurrence of achieving/not achieving TO (non-TO) among patients having curative-intent resection for perihilar cholangiocarcinoma (pCCA) was studied.
Methods
This cohort study enrolled patients who underwent curative-intent resection for pCCA between 2014 and 2018 from a multicentre database. All cohort patients were classified into three groups according to the preoperative BMI: normal BMI (18.5 ~ 24.9 kg/m2), low BMI (≤ 18.4 kg/m2), and high BMI (≥ 25.0 kg/m2). The occurrences of non-TO among the above groups were compared. Univariable and multivariable logistic analyses were used to determine whether there was any significant effect of the preoperative BMI on non-TO.
Results
A total of 313 patients were enrolled in this study, and 212 (67.7%), 46 (14.7%), and 55 (17.6%) were in the normal-BMI, low-BMI, and high-BMI groups, respectively. In all patients, the occurrence of non-TO was 71.6%, and the occurrence of non-TO in both the high- and low-BMI groups was significantly higher than that in the normal-BMI group (85.5% and 82.6% vs. 65.6%, both P < 0.01). The multivariable logistic analyses indicated that both high BMI and low BMI were independently associated with a greater occurrence of non-TO (OR: 2.517, 95CI: 1.052–6.021, P = 0.038; OR: 3.379, 95CI: 1.423–8.022, P = 0.006).
Conclusions
More than two-thirds of the patients following curative-intent resection for pCCA did not achieve surgical TO. In addition, both preoperative high BMI and low BMI were independently associated with a higher risk of not achieving surgical TO following curative-intent resection for pCCA.
Clinical Laboratory Blood Biomarker-Based Nomograms for Prediction of Lymph Node Metastasis and Prognosis in Resectable Esophagogastric Junction Adenocarcinoma: A Retrospective Diagnostic Study
Authors: Liu Can-Tong , Hong Chao-Qun , Guo Hai-Peng , Huang Xu-Chun , Guo Hong , Huang Xin-Yi , Chu Ling-Yu , Lin Yi-Wei , Wei Lai-Feng , Peng Yu-Hui , Xu Yi-Wei 
Published: February 2022

Abstract
Background
Esophagogastric junction adenocarcinoma (EJA) lacks blood-based predictive biomarkers for lymph node status and prognosis. We aimed to build nomograms with the preoperative blood biomarkers to predict lymph node metastasis (LNM) and prognosis in resectable EJA.
Methods
In this study, EJA patients who underwent surgery were collected from the Cancer Hospital of Shantou University Medical College between January 2010 and December 2017. The patients were divided into training cohort (n = 465) and validation cohort (n = 289) chronologically. 52 candidate biomarkers for nomogram construction included sociodemographic data and preoperative clinical laboratory blood baseline data. Lasso regression was used to build LNM prediction nomogram (LNM nomogram). Univariate and multivariate Cox regression analysis was applied to select factors for overall survival prediction nomogram (OS nomogram).
Results
As a result, for predicting LNM, the LNM nomogram containing seven biomarkers showed good discrimination and calibration ability, with C-indexes of 0.684 and 0.630 in the training and validation cohorts, respectively. Moreover, the OS nomogram for survival prediction composed of 12 factors yielded C-indexes of 0.652 and 0.663 in the training and validation cohorts, respectively. Kaplan-Meier survival analysis showed patients with high OS nomogram scores had worse 5-year OS than those with low scores (training cohort: 59.6% vs. 26.2%; validation cohort: 58.6% vs. 38.6%; all p < 0.0001).
Conclusions
In conclusion, these two nomograms constructed based on the clinical laboratory blood biomarkers are potential prediction models for lymph node status and survival of resectable EJA.
Low genetic diversity of Plasmodium falciparum merozoite surface protein 1 and 2 and multiplicity of infections in western Ethiopia following effective malaria interventions
Authors: Tadele Geletta , K.Jatieh Fatou , Oboh Mary , Oriero Eniyou , Dugassa Sisay , Amambua-Ngwa Alfred , Golassa Lemu 
Published: February 2022

Abstract
Background: Genetic diversity of malaria parasites can inform the intensity of transmission and poses a major threat to malaria control and elimination interventions. Characterization of the genetic diversity would provide essential information about the ongoing control efforts. This study aimed to explore allelic polymorphism of merozoite surface protein 1 (msp1) and merozoite surface protein 2 (msp2) to determine the genetic diversity and multiplicity of P. falciparum infections circulating in high and low transmission sites in western Ethiopia. Method: Parasite genomic DNA was extracted from a total of 225 dried blood spot collected from confirmed uncomplicated P. falciparum malaria infected patients in western Ethiopia. Of these, (163) 72.4% and (62) 27.6 % of the samples were collected in high and low transmission areas, respectively. Polymorphic msp1 and msp2 genes were used to explore the genetic diversity and multiplicity of falciparum malaria infections. Msp1 genotyping was successful in 141/163 and 55/62 samples collected from high and low transmission areas, respectively. On the other hand, genotyping of msp2 was carried out among 85.3 % and 96.8 % of the samples collected in high and low transmission sites, respectively. P. falciparum msp1 and msp2 genes were amplified by nested PCR and the PCR products were analyzed by Qiaxcel software. A p-value of less or equal to 0.05 was considered significant.Result: High prevalence of falciparum malaria was identified in children less than 15 years as compared with those ≥ 15 years old (AOR= 2.438, P=0.005). The three allelic families of msp1 (K1, MAD20, and RO33) and the two allelic families of msp2 (FC27 and 3D7), were observed in samples collected in high and low transmission areas. However, MAD 20 and FC 27 alleles were the predominant allelic families in both settings. P. falciparum isolates circulating in western Ethiopia had low genetic diversity and mean MOI. No difference in mean MOI between high transmission site (mean MOI 1.104) compared with low transmission area (mean MOI 1.08) (p> 0.05). Expected Heterozygosity of msp1 gene was slightly higher in isolates collected from high transmission site (He= 0.17) than those isolates from low transmission (He= 0.12). However, the heterozygosity of msp2 gene was not different in both settings (Pfmsp2: 0.04 in high transmission; pfmsp2: 0.03 in low transmission).Conclusion: P. falciparum from clinical malaria cases in western Ethiopia have low genetic diversity and multiplicity of infection irrespective of the intensity of transmission at the site of sampling. These may be signalling the effectiveness of malaria control strategies in Ethiopia; although further studies are required to determine how specific intervention strategies and other parameters that drive the pattern.
Impact of Text Representation Techniques on Clustering Models
Authors: S Ashwini K , P Shantala C , Jan Tony 
Published: February 2022

Abstract
In today’s environment, an enormous amount of unstructured data is generated in an exponential manner. Understanding such complex unstructured data is imperative in the applications including analysis of social media data, image and video data, sensor data, medical data, and customer review data. Generally, clustering is a well-accepted model in classifying and analyzing such documents. An effective and efficient text clustering technique can significantly improve the task of document analysis and grouping with minimum human intervention. The main two factors in text clustering are the text representation model and the clustering algorithm. Firstly, unstructured data must be represented in a structured format for the analysis. Text representation models transform a large volume of text into vector representations by capturing the semantic information. In this paper, we are investigating the text document representation techniques, their limitations, and how text clustering is different from humans understanding of the text data. In this paper, we are aiming to focus on different text representation methods and clustering algorithms to demonstrate how the choice of representation techniques can impact on clustering results.