scholarly journals Senecavirus A- and Non-Infected Cells at Early Stage of Infection: Comparative Metabolomic Profiles

2022 ◽  
Vol 11 ◽  
Author(s):  
Fuxiao Liu ◽  
Bo Ni ◽  
Rong Wei
Keyword(s):  
Cell Line ◽  
Early Stage ◽  
Cell Monolayer ◽  
Cellular Metabolism ◽  
Post Inoculation ◽  
Data Set ◽  
Kegg Pathways ◽  
Resultant Data ◽  
Natural Hosts ◽  
Liquid Chromatography Tandem Mass

Senecavirus A (SVA), classified into the genus Senecavirus in the family Picornaviridae, causes an infectious disease in pigs. This virus can efficiently replicate in some non-pig-derived cells, such as the BHK cell line and its derivative (BSR-T7/5 cell line). We had recovered a wild-type SVA from its cDNA clone previously, and then uncovered the proteomic profile of SVA-infected BSR-T7/5 cells at 12 h post inoculation (hpi). In order to explore the cellular metabolomics further, the SVA-inoculated BSR-T7/5 cell monolayer was collected at 12 hpi for assay via liquid chromatography-tandem mass spectrometry (LC-MS/MS). The resultant data set was comprehensively analyzed using bioinformatics tools. A total of 451 metabolites were identified using in-house and public databases. Out of these metabolites, sixty-one showed significantly differential values (p value < 0.05). The Kyoto Encyclopedia of Genes and Genomes (KEGG) database was used to analyze metabolic pathways of the significantly differential metabolites. There were eighty-one identified KEGG pathways, out of which twenty-seven showed their p values < 0.05. The pyrimidine metabolism revealed the minimum p value and the maximum number of significantly differential metabolites, implying the pyrimidine played a key role in cellular metabolism after SVA infection. SVA replication must rely on the cellular metabolism. The present study on metabolomics would shed light on impacts of SVA-induced multiple interactions among metabolites on cells or even on natural hosts.

Growth of infectious salmon anaemia virus in CHSE-214 cells and evidence for phenotypic differences between virus strains

Microbiology ◽  
2000 ◽  
Vol 81 (1) ◽  
pp. 143-150 ◽  
Author(s):  
Frederick S. B. Kibenge ◽  
Japhet R. Lyaku ◽  
Don Rainnie ◽  
K. Larry Hammell
Keyword(s):  
Cell Line ◽  
Cell Monolayer ◽  
Viral Proteins ◽  
Post Inoculation ◽  
Infectious Salmon Anaemia Virus ◽  
Rt Pcr ◽  
Phenotypic Differences ◽  
Coomassie Blue ◽  
Molecular Masses ◽  
Infectious Salmon Anaemia

Infectious salmon anaemia virus (ISAV) is a new orthomyxovirus-like virus. Thirteen isolates of ISAV (11 from Canada, one from Norway and one from Scotland) were studied for their replication in the CHSE-214 cell line compared with that in the SHK-1 cell line. All isolates replicated in SHK-1 cells, producing CPE between 3 and 12 days post-inoculation (p.i.). Six Canadian isolates also replicated in CHSE-214 cells, with production of CPE between 4 and 17 days p.i. Analysis of a one-step growth curve of ISAV in CHSE-214 cells showed that progeny virions remained predominantly cell-associated, accounting for the focalized nature of the CPE in the cell monolayer. One isolate (HKS 36) replicated in CHSE-214 cells, as shown by positive RT–PCR results of blind passages, but was non-cytopathic. All of the isolates were analysed for genetic heterogeneity by RT–PCR and RFLP with EcoRI and XhoI in a fraction of genome segment 2. The Canadian isolates showed a different RFLP profile to those of isolates Glesvaer/2/90 from Norway and 390/98 from Scotland. Structural proteins of four isolates, ‘Back Bay 98’, RPC/NB-877, RPC/NB-049 and Glesvaer/2/90, were examined further by SDS–PAGE. All viruses showed four major polypeptides, designated here as VP1–VP4, in Coomassie blue-stained gels. In isolates Glesvaer/2/90 and RPC/NB-877, these viral proteins had estimated molecular masses of 74, 53, 46 and 26·5 kDa, respectively. Viral proteins in isolates ‘Back Bay 98’ and RPC/NB-049 were of similar sizes, except that VP3 was 43 kDa. Taken together, these results show that there are phenotypic differences among strains of ISAV.

scholarly journals Comparative Proteomic Profiling: Cellular Metabolisms Are Mainly Affected in Senecavirus A-Inoculated Cells at an Early Stage of Infection

Viruses ◽  
2021 ◽  
Vol 13 (6) ◽  
pp. 1036
Author(s):  
Fuxiao Liu ◽  
Bo Ni ◽  
Rong Wei
Keyword(s):  
Protein Interactions ◽  
Early Stage ◽  
Vital Role ◽  
Protein Profiling ◽  
Post Inoculation ◽  
Tandem Mass ◽  
Proteomic Profiling ◽  
Protein Protein Interactions ◽  
Liquid Chromatography Tandem Mass

Senecavirus A (SVA), also known as Seneca Valley virus, belongs to the genus Senecavirus in the family Picornaviridae. SVA can cause vesicular disease and epidemic transient neonatal losses in pigs. This virus efficiently propagates in some non-pig-derived cells, like the baby hamster kidney (BHK) cell line and its derivate (BSR-T7/5). Conventionally, a few proteins or only one protein is selected for exploiting a given mechanism concerning cellular regulation after SVA infection in vitro. Proteomics plays a vital role in the analysis of protein profiling, protein-protein interactions, and protein-directed metabolisms, among others. Tandem mass tag-labeled liquid chromatography-tandem mass spectrometry combined with the parallel reaction monitoring technique is increasingly used for proteomic research. In this study, this combined method was used to uncover separately proteomic profiles of SVA- and non-infected BSR-T7/5 cells. Furthermore, both proteomic profiles were compared with each other. The proteomic profiling showed that a total of 361 differentially expressed proteins were identified, out of which, 305 and 56 were upregulated and downregulated in SVA-infected cells at 12 h post-inoculation, respectively. GO (Gene Ontology) and KEGG (Kyoto Encyclopedia of Genes and Genomes) enrichment analyses showed that cellular metabolisms were affected mainly in SVA-inoculated cells at an early stage of infection. Therefore, an integrated metabolic atlas remains to be explored via metabolomic methods.

Identification of Coronary Artery Disease using Artificial Neural Network and Case Based Reasoning

2020 ◽  
Vol 13 ◽  
Author(s):  
Varun Sapra ◽  
M.L Saini ◽  
Luxmi Verma
Keyword(s):  
Neural Network ◽  
Coronary Artery Disease ◽  
Coronary Artery ◽  
Early Stage ◽  
Second Phase ◽  
Case Based Reasoning ◽  
Data Set ◽  
Artery Disease ◽  
Severity Of The Disease ◽  
Case Based

Background: Cardiovascular diseases are increasing at an alarming rate with very high rate of mortality. Coronary artery disease is one of the type of cardiovascular disease, which is not easily diagnosed in its early stage. Prevention of Coronary Artery Disease is possible only if it is diagnosed, at early stage and proper medication is done. Objective: An effective diagnosis model is important not only for the early diagnosis but also to check the severity of the disease. Method: In this paper, a hybrid approach is followed, with the integration of deep learning (multi-layer perceptron) with Case based reasoning to design analytical framework. This paper suggests two phases of the study, one in which the patient is diagnosed for Coronary artery disease and in second phase, if the patient is suffering from the disease then employing Case based reasoning to diagnose the severity of the disease. In the first phase, multilayer perceptron is implemented on reduced dataset and with time-based learning for stochastic gradient descent respectively. Results: The classification accuracy is increase by 4.18 % with reduced data set using deep neural network with time based learning. In second phase, if the patient is diagnosed as positive for Coronary artery disease, then it triggers the Case based reasoning system to retrieve from the case base, the most similar case to predict the severity for that patient. The CBR model achieved 97.3% accuracy. Conclusion: The model can be very useful for medical practitioners as a supporting decision system and thus can save the patients from unnecessary medical expenses on costly tests and can improve the quality and effectiveness of medical treatment.

scholarly journals SuperWASP variable stars: classifying light curves using citizen science

2021 ◽  
Vol 502 (1) ◽  
pp. 1299-1311
Author(s):  
Heidi B Thiemann ◽  
Andrew J Norton ◽  
Hugh J Dickinson ◽  
Adam McMaster ◽  
Ulrich C Kolb
Keyword(s):  
Variable Stars ◽  
Eclipsing Binaries ◽  
Light Curves ◽  
Data Set ◽  
Resultant Data ◽  
Sky Survey ◽  
Short Period ◽  
Contact Binaries ◽  
Analysis Of Results

ABSTRACT We present the first analysis of results from the SuperWASP variable stars Zooniverse project, which is aiming to classify 1.6 million phase-folded light curves of candidate stellar variables observed by the SuperWASP all sky survey with periods detected in the SuperWASP periodicity catalogue. The resultant data set currently contains >1 million classifications corresponding to >500 000 object–period combinations, provided by citizen–scientist volunteers. Volunteer-classified light curves have ∼89 per cent accuracy for detached and semidetached eclipsing binaries, but only ∼9 per cent accuracy for rotationally modulated variables, based on known objects. We demonstrate that this Zooniverse project will be valuable for both population studies of individual variable types and the identification of stellar variables for follow-up. We present preliminary findings on various unique and extreme variables in this analysis, including long-period contact binaries and binaries near the short-period cut-off, and we identify 301 previously unknown binaries and pulsators. We are now in the process of developing a web portal to enable other researchers to access the outputs of the SuperWASP variable stars project.

scholarly journals Probing the Intracellular Bio-Nano Interface in Different Cell Lines with Gold Nanostars

Nanomaterials ◽  
2021 ◽  
Vol 11 (5) ◽  
pp. 1183
Author(s):  
Cecilia Spedalieri ◽  
Gergo Péter Szekeres ◽  
Stephan Werner ◽  
Peter Guttmann ◽  
Janina Kneipp
Keyword(s):  
Cell Line ◽  
Cell Lines ◽  
Early Stage ◽  
Protein Corona ◽  
Fibroblast Cell ◽  
Ultrastructural Level ◽  
Epithelial Cell Line ◽  
Animal Cells ◽  
Gold Nanostars

Gold nanostars are a versatile plasmonic nanomaterial with many applications in bioanalysis. Their interactions with animal cells of three different cell lines are studied here at the molecular and ultrastructural level at an early stage of endolysosomal processing. Using the gold nanostars themselves as substrate for surface-enhanced Raman scattering, their protein corona and the molecules in the endolysosomal environment were characterized. Localization, morphology, and size of the nanostar aggregates in the endolysosomal compartment of the cells were probed by cryo soft-X-ray nanotomography. The processing of the nanostars by macrophages of cell line J774 differed greatly from that in the fibroblast cell line 3T3 and in the epithelial cell line HCT-116, and the structure and composition of the biomolecular corona was found to resemble that of spherical gold nanoparticles in the same cells. Data obtained with gold nanostars of varied morphology indicate that the biomolecular interactions at the surface in vivo are influenced by the spike length, with increased interaction with hydrophobic groups of proteins and lipids for longer spike lengths, and independent of the cell line. The results will support optimized nanostar synthesis and delivery for sensing, imaging, and theranostics.

scholarly journals Toxicity Induced by Cytokines, Glucose, and Lipids Increase Apoptosis and Hamper Insulin Secretion in the 1.1E7 Beta Cell-Line

2021 ◽  
Vol 22 (5) ◽  
pp. 2559
Author(s):  
Antonia Diaz-Ganete ◽  
Aranzazu Quiroga-de-Castro ◽  
Rosa M. Mateos ◽  
Francisco Medina ◽  
Carmen Segundo ◽  
...  
Keyword(s):  
Insulin Secretion ◽  
Cell Line ◽  
High Glucose ◽  
Secretory Pathway ◽  
Early Stage ◽  
Hybrid Cell ◽  
Basic Research ◽  
Stress Markers ◽  
Beta Cell Line ◽  
Starting Point

Basic research on types 1 and 2 diabetes mellitus require early stage studies using beta cells or cell lines, ideally of human origin and with preserved insulin secretion in response to glucose. The 1.1E7 cells are a hybrid cell line resulting from the electrofusion of dispersed human islets and PANC-1 cells, capable of secreting insulin in response to glucose, but their survival and function under toxic conditions remains untested. This characterization is the purpose of the present study. We treated these cells with a cytokine mix, high glucose, palmitate, and the latter two combined. Under these conditions, we measured cell viability and apoptosis (MTT, Caspase Glo and TUNEL assays, as well as caspase-8 and -9 levels by Western blotting), endoplasmic reticulum stress markers (EIF2AK3, HSPA4, EIF2a, and HSPA5) by real-time PCR, and insulin secretion with a glucose challenge. All of these stimuli (i) induce apoptosis and ER stress markers expression, (ii) reduce mRNA amounts of 2–5 components of genes involved in the insulin secretory pathway, and (iii) abrogate the insulin release capability of 1.1E7 cells in response to glucose. The most pronounced effects were observed with cytokines and with palmitate and high glucose combined. This characterization may well serve as the starting point for those choosing this cell line for future basic research on certain aspects of diabetes.

Racial disparities in stage-specific gastric cancer: analysis of results from the Surveillance Epidemiology and End Results (SEER) program database

2017 ◽  
Vol 65 (6) ◽  
pp. 991-998 ◽  
Author(s):  
Gang Zhang ◽  
Xing Zhao ◽  
Jie Li ◽  
Yu Yuan ◽  
Ming Wen ◽  
...  
Keyword(s):  
Gastric Cancer ◽  
Radiation Treatment ◽  
Early Stage ◽  
Ethnic Disparities ◽  
Incidence Rates ◽  
Pacific Islanders ◽  
Seer Program ◽  
Second Primary ◽  
Data Set ◽  
End Results

The incidence of gastric cancer is declining in western countries but continues to represent a serious health problem worldwide, especially in Asia and among Asian Americans. This study aimed to investigate ethnic disparities in stage-specific gastric cancer, including differences in incidence, treatment and survival. The cohort study was analyzed using the data set of patients with gastric cancer registered in the Surveillance, Epidemiology, and End Results (SEER) program from 2004 to 2013. Among 54,165 patients with gastric cancer, 38,308 were whites (70.7%), 7546 were blacks (13.9%), 494 were American Indian/Alaskan Natives (0.9%) and 7817 were Asians/Pacific Islanders (14.4%). Variables were patient demographics, disease characteristics, surgery/radiation treatment, overall survival (OS) and cause specific survival (CSS). Asians/Pacific Islanders demonstrated the highest incidence rates for gastric cancer compared with other groups and had the greatest decline in incidence during the study period (13.03 to 9.28 per 100,000/year), as well as the highest percentage of patients with American Joint Committee on Cancer (AJCC) early stage gastric cancer. There were significant differences between groups in treatment across stages I–IV (all p<0.001); Asians/Pacific Islanders had the highest rate of surgery plus radiation (45.1%). Significant differences were found in OS and CSS between groups (p<0.001); OS was highest among Asians/Pacific Islanders. Multivariate analysis revealed that age, race, grade, stage, location, and second primary cancer were valid prognostic factors for survival. Marked ethnic disparities exist in age-adjusted incidence of primary gastric cancer, with significant differences between races in age, gender, histological type, grade, AJCC stage, location, second cancer, treatment and survival.

Computer-assisted Diagnosis for Early Stage Pleural Mesothelioma

2007 ◽  
Vol 46 (03) ◽  
pp. 324-331 ◽  
Author(s):  
P. Jäger ◽  
S. Vogel ◽  
A. Knepper ◽  
T. Kraus ◽  
T. Aach ◽  
...  
Keyword(s):  
Early Stage ◽  
Computation Time ◽  
Hounsfield Unit ◽  
Computer Assisted ◽  
Clinical Test ◽  
Pleural Mesothelioma ◽  
Data Sets ◽  
Data Set ◽  
Average Computation Time ◽  
Ct Data

Summary Objectives: Pleural thickenings as biomarker of exposure to asbestos may evolve into malignant pleural mesothelioma. Foritsearly stage, pleurectomy with perioperative treatment can reduce morbidity and mortality. The diagnosis is based on a visual investigation of CT images, which is a time-consuming and subjective procedure. Our aim is to develop an automatic image processing approach to detect and quantitatively assess pleural thickenings. Methods: We first segment the lung areas, and identify the pleural contours. A convexity model is then used together with a Hounsfield unit threshold to detect pleural thickenings. The assessment of the detected pleural thickenings is based on a spline-based model of the healthy pleura. Results: Tests were carried out on 14 data sets from three patients. In all cases, pleural contours were reliably identified, and pleural thickenings detected. PC-based Computation times were 85 min for a data set of 716 slices, 35 min for 401 slices, and 4 min for 75 slices, resulting in an average computation time of about 5.2 s per slice. Visualizations of pleurae and detected thickeningswere provided. Conclusion: Results obtained so far indicate that our approach is able to assist physicians in the tedious task of finding and quantifying pleural thickenings in CT data. In the next step, our system will undergo an evaluation in a clinical test setting using routine CT data to quantifyits performance.

scholarly journals Establishment of a Human Nonluteinized Granulosa Cell Line that Transitions from the Gonadotropin-Independent to the Gonadotropin-Dependent Status

Endocrinology ◽  
2012 ◽  
Vol 153 (6) ◽  
pp. 2851-2860 ◽  
Author(s):  
Bayasula ◽  
Akira Iwase ◽  
Tohru Kiyono ◽  
Sachiko Takikawa ◽  
Maki Goto ◽  
...  
Keyword(s):  
Cell Line ◽  
Granulosa Cell ◽  
Granulosa Cells ◽  
Early Stage ◽  
Regulatory Protein ◽  
Cell Types ◽  
Mrna Levels ◽  
Steroidogenic Cell ◽  
Morphogenetic Protein ◽  
Steroidogenic Acute Regulatory

The ovary is a complex endocrine organ responsible for steroidogenesis and folliculogenesis. Follicles consist of oocytes and two primary steroidogenic cell types, the granulosa cells, and the theca cells. Immortalized human granulosa cells are essential for researching the mechanism of steroidogenesis and folliculogenesis. We obtained granulosa cells from a 35-yr-old female and immortalized them by lentivirus-mediated transfer of several genes so as to establish a human nonluteinized granulosa cell line (HGrC1). We subsequently characterized HGrC1 and investigated its steroidogenic performance. HGrC1 expressed enzymes related to steroidogenesis, such as steroidogenic acute regulatory protein, CYP11A, aromatase, and gonadotropin receptors. Stimulation with FSH increased the mRNA levels of aromatase, which consequently induced the aromatization of androstenedione to estradiol. Activin A increased the mRNA levels of the FSH receptor, which were synergistically up-regulated with FSH stimulation. HGrC1 also expressed a series of ligands and receptors belonging to the TGF-β superfamily. A Western blot analysis showed that bone morphogenetic protein (BMP)-4, BMP-6, and BMP-7 phosphorylated small mother against decapentaplegic (Smad)1/5/8, whereas growth differentiation factor-9 phosphorylated Smad2/3. BMP-15 and anti-Müllerian hormone phosphorylated Smad1/5/8 while also weakly phosphorylating Smad2/3. These results indicate that HGrC1 may possess the characteristics of granulosa cells belonging to follicles in the early stage. HGrC1 might also be capable of displaying the growth transition from a gonadotropin-independent status to gonadotropin-dependent one.

HGF regulates tight junctions in new nontumorigenic gastric epithelial cell line

2001 ◽  
Vol 280 (5) ◽  
pp. G910-G921 ◽  
Author(s):  
Frederic Hollande ◽  
Emmanuelle M. Blanc ◽  
Jean Pierre Bali ◽  
Robert H. Whitehead ◽  
Andre Pelegrin ◽  
...  
Keyword(s):  
Cell Differentiation ◽  
Epithelial Cell ◽  
Tight Junction ◽  
Cell Line ◽  
Cell Monolayer ◽  
Gastric Epithelial Cell ◽  
Epithelial Cell Line ◽  
Dependent Manner ◽  
Membrane Expression ◽  
Epithelial Cell Differentiation

The regulation of intercellular adhesion by hepatocyte growth factor (HGF) was examined on a novel nontumorigenic gastric epithelial cell line (IMGE-5) derived from H-2Kb-tsA58 transgenic mice. IMGE-5 cells constitutively expressed cytokeratin 18 and HGF receptors. Under permissive conditions (33°C + interferon-γ), IMGE-5 cells proliferated rapidly but did not display membrane expression of adherens and tight junction proteins. Under nonpermissive conditions, their proliferation was decreased and they displayed a strong, localized membrane expression of E-cadherin/β-catenin and occludin/ZO-1. HGF treatment largely prevented the targeting of ZO-1 to the tight junction and induced a significant decrease of the transepithelial resistance measured across a confluent IMGE-5 cell monolayer. HGF rapidly increased the tyrosine phosphorylation of ZO-1 and decreased its association with occludin in a phosphatidylinositol 3-kinase (PI 3-kinase)-dependent manner. PI 3-kinase was also involved in HGF-induced migration of IMGE-5 cells. Our results demonstrate that 1) HGF prevents the appearance of ZO-1 in the membrane during epithelial cell differentiation; 2) HGF causes partial relocalization of ZO-1 to the cytoplasm and nucleus and concomitantly stimulates cell dissociation and migration; and 3) IMGE-5 cells offer a useful model for the study of gastric epithelial cell differentiation.

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