bluuebunny/crossref_metadata_2025_split huggingface dataset:
Validation of reference genes as an internal control for studying Avena sativa–Puccinia coronata interaction by RT-qPCR
Authors: Sowa Sylwia , Sozoniuk Magdalena , Toporowska Joanna , Kowalczyk Krzysztof , Paczos-Grzęda Edyta 
Published: August 2022

AbstractIn this study we evaluated eleven candidate reference genes in Avena sativa during compatible and incompatible interactions with two different pathotypes of Puccinia coronata f. sp. avenae in six time points post-inoculation. The identification of genes with high expression stability was performed by four algorithms (geNorm, NormFinder, BestKeeper and ΔCt method). The results obtained confirmed that the combination of two genes would be sufficient for reliable normalization of the expression data. In general, the most stable in the tested plant-pathogen system were HNR (heterogeneous nuclear ribonucleoprotein 27C) and EF1A (elongation factor 1-alpha). ARF (ADP-ribosylation factor) and EIF4A (eukaryotic initiation factor 4A-3) could also be considered as exhibiting high expression stability. CYP (cyclophilin) was shown by all assessment methods to be the worst candidate for normalization in this dataset. To date, this is the first report of reference genes selection in A. sativa–P. coronata interaction system. Identified reference genes enable reliable and comprehensive RT-qPCR analysis of oat gene expression in response to crown rust infection. Understanding the molecular mechanisms involved in the host–pathogen interactions may expand knowledge of durable resistance strategies beneficial to modern oat breeding.
Inflammatory cytokines directly disrupt the bovine intestinal epithelial barrier
Authors: Crawford Charles K. , Lopez Cervantes Veronica , Quilici Mary L. , Armién Aníbal G. , Questa María , Matloob Muhammad S. , Huynh Leon D. , Beltran Aeelin , Karchemskiy Sophie J. , Crakes Katti R. , Kol Amir 
Published: August 2022

AbstractThe small intestinal mucosa constitutes a physical barrier separating the gut lumen from sterile internal tissues. Junctional complexes between cells regulate transport across the barrier, preventing water loss and the entry of noxious molecules or pathogens. Inflammatory diseases in cattle disrupt this barrier; nonetheless, mechanisms of barrier disruption in cattle are poorly understood. We investigated the direct effects of three inflammatory cytokines, TNFα, IFNγ, and IL-18, on the bovine intestinal barrier utilizing intestinal organoids. Flux of fluorescein isothiocyanate (FITC)-labeled dextran was used to investigate barrier permeability. Immunocytochemistry and transmission electron microscopy were used to investigate junctional morphology, specifically tortuosity and length/width, respectively. Immunocytochemistry and flow cytometry was used to investigate cellular turnover via proliferation and apoptosis. Our study shows that 24-h cytokine treatment with TNFα or IFNγ significantly increased dextran permeability and tight junctional tortuosity, and reduced cellular proliferation. TNFα reduced the percentage of G2/M phase cells, and IFNγ treatment increased cell apoptotic rate. IL-18 did not directly induce significant changes to barrier permeability or cellular turnover. Our study concludes that the inflammatory cytokines, TNFα and IFNγ, directly induce intestinal epithelial barrier dysfunction and alter the tight junctional morphology and rate of cellular turnover in bovine intestinal epithelial cells.
Catalytic activity and mechanistic investigation of 1D 2-Picolinic acid based Cu(II) coordination polymer in the selective construction of 1,4-disubstituted triazoles
Authors: Aier Merangmenla , Gayen Firdaus Rahaman , Puzari Amrit 
Published: August 2022

AbstractThe catalytic activity of 1D 2-Picolinic acid based Cu (II) coordination polymer (CP1) in click reaction was evaluated to generate 1,4-disubstituted 1,2,3-triazoles selectively. The CP1 catalyst loading of 2 mol% was applied successfully in the reaction for primary azides with diverse functionalities of terminal alkynes in green solvent (EG/H2O). Moreover, the one-pot, multicomponent click reaction involving benzyl bromide, sodium azide, and phenylacetylene was also catalyzed by CP1. The findings show that 1D 2-Picolinic acid based Cu (II) coordination polymer catalytic systems are highly efficient for green click triazoles synthesis. DFT calculation supported the plausible mechanism involved in the CP1 catalyzed click reaction.
Modeling a 3-D multiscale blood-flow and heat-transfer framework for realistic vascular systems
Authors: Amare Rohan , Hodneland Erlend , Roberts Jeremy A. , Bahadori Amir A. , Eckels Steven 
Published: August 2022

AbstractModeling of biological domains and simulation of biophysical processes occurring in them can help inform medical procedures. However, when considering complex domains such as large regions of the human body, the complexities of blood vessel branching and variation of blood vessel dimensions present a major modeling challenge. Here, we present a Voxelized Multi-Physics Simulation (VoM-PhyS) framework to simulate coupled heat transfer and fluid flow using a multi-scale voxel mesh on a biological domain obtained. In this framework, flow in larger blood vessels is modeled using the Hagen–Poiseuille equation for a one-dimensional flow coupled with a three-dimensional two-compartment porous media model for capillary circulation in tissue. The Dirac distribution function is used as Sphere of Influence (SoI) parameter to couple the one-dimensional and three-dimensional flow. This blood flow system is coupled with a heat transfer solver to provide a complete thermo-physiological simulation. The framework is demonstrated on a frog tongue and further analysis is conducted to study the effect of convective heat exchange between blood vessels and tissue, and the effect of SoI on simulation results.
Validity and reliability of accelerations and orientations measured using wearable sensors during functional activities
Authors: Cudejko Tomasz , Button Kate , Al-Amri Mohammad 
Published: August 2022

AbstractWearable sensors may enable the assessment of movement in a real-world setting, but they are not yet a standard practice in the analysis of movement due to the unknown accuracy and reliability with respect to different functional activities. Here, we established the concurrent validity and test–retest reliability of accelerations and orientations measured using affordable novel sensors during squats, jumps, walking and stair ambulation. In this observational study, participants underwent three data collection sessions during one day. Accelerations and orientations from sacrum, thigh and shank were collected using these sensors and already validated gold-standard sensors as the criterion method. We assessed validity by comparing the similarity of signal waveforms with the Linear Fit Method and by comparing mean differences in range values with the Bland–Altman plots. Reliability was assessed by calculating interclass correlation coefficient and standard error of measurements of the range values. Concurrent validity was from fair to excellent in 91% of the cases for accelerations and in 84.4% for orientations. Test–retest reliability of accelerations was from fair to excellent in 97% of cases when the sensors were attached by a researcher, and in 84.4% of cases when the sensors were attached by participants. Test–retest reliability of orientations was from fair to excellent in 88.9% of cases when the sensors were attached by a researcher, and in 68.9% of cases when the sensors were attached by participants. In conclusion, the new affordable sensors provide accurate measures of accelerations and orientations during multiple functional activities in healthy adults. Reliability of the orientations may depend on the ability to replicate the same position of the sensor under test–retest conditions.
Unveiling new perspective of phylogeography, genetic diversity, and population dynamics of Southeast Asian and Pacific chickens
Authors: Godinez Cyrill John P. , Layos John King N. , Yamamoto Yoshio , Kunieda Tetsuo , Duangjinda Monchai , Liao Lawrence M. , Huang Xun-He , Nishibori Masahide 
Published: August 2022

AbstractThe complex geographic and temporal origins of chicken domestication have attracted wide interest in molecular phylogeny and phylogeographic studies as they continue to be debated up to this day. In particular, the population dynamics and lineage-specific divergence time estimates of chickens in Southeast Asia (SEA) and the Pacific region are not well studied. Here, we analyzed 519 complete mitochondrial DNA control region sequences and identified 133 haplotypes with 70 variable sites. We documented 82.7% geographically unique haplotypes distributed across major haplogroups except for haplogroup C, suggesting high polymorphism among studied individuals. Mainland SEA (MSEA) chickens have higher overall genetic diversity than island SEA (ISEA) chickens. Phylogenetic trees and median-joining network revealed evidence of a new divergent matrilineage (i.e., haplogroup V) as a sister-clade of haplogroup C. The maximum clade credibility tree estimated the earlier coalescence age of ancestral D-lineage (i.e., sub-haplogroup D2) of continental chickens (3.7 kya; 95% HPD 1985–4835 years) while island populations diverged later at 2.1 kya (95% HPD 1467–2815 years). This evidence of earlier coalescence age of haplogroup D ancestral matriline exemplified dispersal patterns to the ISEA, and thereafter the island clade diversified as a distinct group.
Simultaneously induced mutations in eIF4E genes by CRISPR/Cas9 enhance PVY resistance in tobacco
Authors: Le Ngoc Thu , Tran Huyen Thi , Bui Thao Phuong , Nguyen Giang Thu , Van Nguyen Doai , Ta Dong Thi , Trinh Duy Dinh , Molnar Attila , Pham Ngoc Bich , Chu Ha Hoang , Do Phat Tien 
Published: August 2022

AbstractTobacco is an important commercial crop and a rich source of alkaloids for pharmaceutical and agricultural applications. However, its yield can be reduced by up to 70% due to virus infections, especially by a potyvirus Potato virus Y (PVY). The replication of PVY relies on host factors, and eukaryotic translation initiation factor 4Es (eIF4Es) have already been identified as recessive resistance genes against potyviruses in many plant species. To investigate the molecular basis of PVY resistance in the widely cultivated allotetraploid tobacco variety K326, we developed a dual guide RNA CRISPR/Cas9 system for combinatorial gene editing of two clades, eIF4E1 (eIF4E1-S and eIF4E1-T) and eIF4E2 (eIF4E2-S and eIF4E2-T) in the eIF4E gene family comprising six members in tobacco. We screened for CRISPR/Cas9-induced mutations by heteroduplex analysis and Sanger sequencing, and monitored PVYO accumulation in virus challenged regenerated plants by DAS-ELISA both in T0 and T1 generations. We found that all T0 lines carrying targeted mutations in the eIF4E1-S gene displayed enhanced resistance to PVYO confirming previous reports. More importantly, our combinatorial approach revealed that eIF4E1-S is necessary but not sufficient for complete PVY resistance. Only the quadruple mutants harboring loss-of-function mutations in eIF4E1-S, eIF4E1-T, eIF4E2-S and eIF4E2-T showed heritable high-level resistance to PVYO in tobacco. Our work highlights the importance of understanding host factor redundancy in virus replication and provides a roadmap to generate virus resistance by combinatorial CRISPR/Cas9-mediated editing in non-model crop plants with complex genomes.
Platelet abnormalities in patients with Parkinson's disease undergoing preoperative evaluation for deep brain stimulation
Authors: Chou Sheng-Che , Tai Chun-Hwei , Tseng Sheng-Hong 
Published: August 2022

AbstractNormal hemostatic function is important for reduction of the risk of intracranial hemorrhage during stereotactic neurosurgery including deep brain stimulation (DBS) surgery. This study investigates the hemostatic function in patients with Parkinson’s disease (PD) undergoing preoperative evaluation for DBS, with emphasis on the number and function of platelets. In 107 PD patients, only one had abnormal activated partial prothrombin time and normal prothrombin time. Among the other 106 patients, six (5.7%) had only thrombocytopenia, seven (6.6%) only prolonged bleeding time (BT), and 14 (13.2%) only prolonged closure time (CT) of platelet function analyzer 100 (PFA-100). Totally, 34 of the 106 patients (32.1%) had at least one of three kinds of platelet abnormalities. No factor was found to be associated with the occurrence of platelet abnormalities except that abnormal platelet group and prolonged BT subgroup had more patients using selegiline and lower UPDRS-III motor subscore with medication off than normal platelet group (p < 0.05). The use of selegiline was significantly correlated with prolonged BT (p = 0.0041) and platelet abnormality (p = 0.0197). Therefore, it is important to have detailed evaluation of the hemostatic function for PD patients undergoing preoperative evaluation for DBS, especially the platelet number and function.
Adsorption behavior of rhamnolipid modified magnetic Co/Al layered double hydroxide for the removal of cationic and anionic dyes
Authors: Kheradmand Asiyeh , Negarestani Mehrdad , Kazemi Sima , Shayesteh Hadi , Javanshir Shahrzad , Ghiasinejad Hossein 
Published: August 2022

AbstractIn the present research, magnetic rhamnolipid-Co/Al layered double hydroxide (MR-LDH) was synthesized to uptake methylene blue (MB) and reactive orange 16 (RO16) from aqueous solution. The main parameters, including pH, adsorbent dosage, contact time, and initial analyte concentration, were optimized to achieve the best adsorption efficiency. Accordingly, the elimination of MB on MR-LDH is improved in the basic medium due to the electrostatic interactions between the negative charge of MR-LDH and the positive charge of MB dye. In contrast, the acidic medium (pH = 3) was favored for RO16 adsorption because of hydrogen bonding between the protonated form of azo dye and protonated hydroxyl groups at the surface of MR-LDH. The calculated maximum adsorption capacities for MB and RO16 were 54.01 and 53.04 mg/g at 313 K, respectively. The Langmuir model, which assumes monolayer adsorption on the adsorbent surface, provides the best explanation for the adsorption of both dyes (R2 = 0.9991 for MB and R2 = 0.9969 for RO16). Moreover, the pseudo-second-order kinetic model best described the adsorption process for MB (R2 = 0.9970) and RO16 (R2 = 0.9941). The proposed adsorbent maintains stable adsorption performance for four consecutive cycles. After each adsorption process, MR-LDH is easily separated by an external magnet. The findings show that MR-LDH was found to be an excellent adsorbent for the removal of both cationic and anionic organic dyes from aqueous solutions.
The health digital twin to tackle cardiovascular disease—a review of an emerging interdisciplinary field
Authors: Coorey Genevieve , Figtree Gemma A. , Fletcher David F. , Snelson Victoria J. , Vernon Stephen Thomas , Winlaw David , Grieve Stuart M. , McEwan Alistair , Yang Jean Yee Hwa , Qian Pierre , O’Brien Kieran , Orchard Jessica , Kim Jinman , Patel Sanjay , Redfern Julie 
Published: August 2022

AbstractPotential benefits of precision medicine in cardiovascular disease (CVD) include more accurate phenotyping of individual patients with the same condition or presentation, using multiple clinical, imaging, molecular and other variables to guide diagnosis and treatment. An approach to realising this potential is the digital twin concept, whereby a virtual representation of a patient is constructed and receives real-time updates of a range of data variables in order to predict disease and optimise treatment selection for the real-life patient. We explored the term digital twin, its defining concepts, the challenges as an emerging field, and potentially important applications in CVD. A mapping review was undertaken using a systematic search of peer-reviewed literature. Industry-based participants and patent applications were identified through web-based sources. Searches of Compendex, EMBASE, Medline, ProQuest and Scopus databases yielded 88 papers related to cardiovascular conditions (28%, n = 25), non-cardiovascular conditions (41%, n = 36), and general aspects of the health digital twin (31%, n = 27). Fifteen companies with a commercial interest in health digital twin or simulation modelling had products focused on CVD. The patent search identified 18 applications from 11 applicants, of which 73% were companies and 27% were universities. Three applicants had cardiac-related inventions. For CVD, digital twin research within industry and academia is recent, interdisciplinary, and established globally. Overall, the applications were numerical simulation models, although precursor models exist for the real-time cyber-physical system characteristic of a true digital twin. Implementation challenges include ethical constraints and clinical barriers to the adoption of decision tools derived from artificial intelligence systems.
Fuzzy piecewise coordinated control and stability analysis of the photovoltaic‐storage direct current microgrid
Authors: Gu Jipeng , Xie Luyao , Yang Xiaodong , Zhang Youbing , Wang Licheng , Wang Qianru , Zhang Weijie , Wang Binjie 
Published: August 2022

AbstractIn order to ensure the safe and reliable operation of photovoltaic‐storage DC microgrid in islanded mode, this paper proposes a piecewise coordinated control strategy based on fuzzy logic to independently judge the working mode of microgrid. Firstly, according to the operation characteristics of microgrid, the device‐level control of each unit (photovoltaic, energy storage and load) is designed successively. Then, according to the requirement of supply and demand balance of microgrid, fuzzy logic is introduced to realize the independent division of threshold nodes on the basis of piecewise control, so as to ensure the fast switching of working mode and stable operation of the system in various complex environments, that is system‐level control. And the method of impedance analysis is used to analyze the stability of microgrid under different working modes. Finally, the effectiveness and feasibility of the proposed coordination control strategy are verified by MATLAB/Simulink simulation results.
Preparation of 4-Arylthiazol-2(3H)-ones and the Three-Component Synthesis of Multidentate 5,5′-Methylenebis[4-arylthiazol-2(3H)-one] Ligands
Authors: Döndaş H. Ali , Ortuño Juan F. , Poyraz Samet , Belabbes Asmaa , Kavas Özge , Belveren Samet , Altuğ Cevher , Retamosa María de Gracia , Foubelo Francisco , Pask Christopher M. , Sansano José M. 
Published: August 2022

AbstractThe synthesis of 4-arylthiazol-2(3H)-ones is reported employing a novel and mild methodology using benign solvents. In a second objective, the multicomponent preparation of 5,5′-methylenebis[4-arylthiazol-2(3H)-ones] is described following the same strategy. The analysis of the mechanism is also studied and confirmed using chemical tests.
Synthetic versus Biological Patches for CDH: A Comparison of Recurrence Rates and Adverse Events, Systematic Review, and Meta-Analysis
Authors: Kamal Tasnim Rowshan , Tyraskis Athanasios , Ghattaura Harmit , Fitchie Angus , Lakhoo Kokila 
Published: August 2022

Abstract
Objective Our systematic review aims to compare recurrence rates and complications of biological versus synthetic patches for the repair of congenital diaphragmatic herniae.
Methods Studies from January 1, 1980 to April 25, 2020, with patients under the age of 16 years and with a minimum 6-month follow-up, were included from MEDLINE, Embase, and Cochrane databases. Funnel plots for recurrence rates were constructed for biological and synthetic patches. Subgroup analysis was performed for recurrence rate at the 1-year time-point and data were gathered on individual adverse events from relevant studies.
Results A total of 47 studies with 986 patients (226 biological, 760 synthetic) were included. Funnel plot analysis determined overall recurrence rates of 16.7% for synthetic and 30.3% for biological patches. Subgroup analysis of 493 and 146 patients with synthetic and biological patches, respectively, showed recurrence rates of 9.9 and 26%, respectively.The most commonly used patch types—PTFE (polytetrafluoroethylene) and SIS (small intestinal submucosa)—had 11.5 and 33.3% recurrence, respectively. Adhesive bowel obstruction rates ranged from 4 to 29% in studies that systematically reported it for synthetic, and 7 to 35% for biological patches. Gastroesophageal reflux rates ranged from 25 to 48% in studies that systematically reported it for synthetic, and 21 to 42% for biological patches. Pectus deformity rates were reported as high as 80% for synthetic patches.
Conclusion Biological patches appear to have higher recurrence rates than synthetic patches, while skeletal deformities are associated more commonly with synthetic patches. Results of biological patches are mainly using SIS and this may overestimate complications of current superior biological patches.
Intratumoral and Peritumoral Brain Abscess Concomitant with Glioblastoma: Report of Two Cases with Review of Literature
Authors: Shaikh Salman , Othman Hassan , Marriyam Iqra , Nagaraju Santhosh , Kovacevic Gorana , Dardis Ronan 
Published: August 2022

AbstractIntracranial abscess coexistent with a high grade glioma, without prior surgical intervention, is an unusual occurrence. This paper presents two such cases with Nocardia farcinica abscess surrounding the glioblastoma in an immunocompromised individual and Enterococcus faecium abscess within the glioblastoma in an immunocompetent patient. Adjuvant therapy was tapered as per each patient's clinical response. Till date, only eight cases of coexistent high-grade glioma and brain abscess have been reported in literature. This report stands distinct in highlighting the need to radiologically evaluate each foci of a multicentric cranial lesion on its own merit.
Comparative Outcome Analysis of Endoscopic Third Ventriculostomy and Ventriculoperitoneal Shunt Surgery in Pediatric Hydrocephalus: An Experience of a Tertiary Care Center
Authors: Prajapati Hanuman Prasad , Ansari Mohd Ahmad , Jaiswal Manish 
Published: August 2022

Abstract
Background Endoscopic third ventriculostomy (ETV) and ventriculoperitoneal shunt surgery (VPS) are used for the surgical management of pediatric hydrocephalus. There is controversy regarding the safety and efficacy of these procedures according to age, etiologies, and type of hydrocephalus.
Objective The purpose of this study was to compare the outcomes and complications of ETV and VPS in pediatric hydrocephalus and to evaluate the better procedure.
Material and Methods We retrospectively analyzed the pediatric hydrocephalus cases that were operated by ETV and VPS at our department from June 2016 to June 2019. Data were analyzed with respect to the etiology of hydrocephalus, age, and gender of the patients. We compared the outcomes (success and failure) depending on age at surgery, etiology, and type of hydrocephalus, complications at 12 months of follow-up. Fisher's exact test and chi-square test were applied to test the significance of difference.
Results There were 195 pediatric hydrocephalus cases, which were operated by ETV (n = 43; 22.05%) and VPS (n = 152; 77.95%). The mean age of the cases was 53.63 ± 60.24 (ranged 0.5–204 months) in the ETV group and 53.44 ± 54.10 (ranged 0.3–210 months) in the VPS group. The male-to-female ratio was 1.41:1 in the ETV group and 1.21: 1 in the VPS group. Overall, ETV had successful outcomes in 30(69.77%) cases and VPS in 102(67.11%) cases at 12 months of follow-up. The complication rates were found in 7 (16.28%) cases in the ETV group and 38 (25.0%) cases in the VPS group. At initial 0.5 months of follow-up, ETV required revisions in 6 (13.95%) cases and VPS in 15 (9.87%) cases.
Conclusion Although the success and failure of both the procedure vary according to the age at surgery, etiology and type of hydrocephalus, and complications, and failure rates on follow-up, there were no statistically significant differences between the two surgical groups in respect to these variables.