Alginate converting by MCF
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA509496 | ENA |
REPOSITORIES: ENA
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Project description:Multilayer murine follicles were grown in 3% alginate and follicles were isolated for transcriptomics analysis at day 0, 2, 4,5,6,and 8 after encapsulation. This data complements to the GSE42795, where follicles were grown in vitro in 0.5% alginate gels
2014-06-01 | GSE55969 | GEO
Project description:Here we characterize the impact of cell confinement on the pancreatic islet signature during the guided differentiation of alginate encapsulated human induced pluripotent stem cells.
2020-02-12 | PXD012704 | Pride
Project description:D1 multipotent mesenchymal stromal cells (D1‐MSCs,ATCC® CRL 12424TM) and genetically modified with the lentiviral vector pSIN‐EF2‐Epo‐Pur to express erythropoietin (EPO). D1‐MSCs genetically modified to release EPO were immobilized into 3D alginatepoly‐ L‐lysine‐alginate (APA) microcapsules. Since different formulations of alginate 1.5%, poly‐L‐lysine 0.05%, alginate 0.1% and washings were designed, two types of APA microcapsules were obtained: Biological microcapsules (made of Biological formulations) and Technological microcapsules (made of Technological formulations). The expression of the cells under different conditions of these two types of microcapsules have been analyzed. The present analysis proved that the mechanical properties of the matrix in which cells are enclosed influences drastically gene expression
2017-10-30 | E-MTAB-5786 | biostudies-arrayexpress
Project description:Multilayer murine follicles were grown in 3% alginate and follicles were isolated for transcriptomics analysis at day 0, 2, 4,5,6,and 8 after encapsulation. This data complements to the GSE42795, where follicles were grown in vitro in 0.5% alginate gels A total of 8 samples were analyzed, each of them repeted in triplicate
2014-06-01 | E-GEOD-55969 | biostudies-arrayexpress
Project description:This experiment compares the transcriptome profile of human spinal cord organoids generated from iPSCs in Matrigel, 1% alginate hydrogel, or 2% alginate hydrogel. Spinal cord organoids were generated from human iPSCs and then encapsulated in the respective hydrogels before further maturation. Organoids were harvested on days 30, 60, and 90 for each group. In addition to the differences between hydrogel groups, neuronal and glial markers at each time point were also assessed for the development of the organoids.
2022-12-26 | E-MTAB-12270 | biostudies-arrayexpress
Project description:Explore the role of these hydrogels in wound healing, this study assessed the effects of both, Dersani Hydrogel with Alginate (DHA) and Dersani Hydrogel (DH), in human skin keratinocytes and fibroblasts gene expression profiles in a wound healing context. Sodium alginate (SA) and culture medium were also included as controls.
2021-07-02 | GSE179187 | GEO
Project description:Pseudomonas aeruginosa is an opportunistic pathogen that can adapt to changing environments and can secrete an exopolysaccharide known as alginate as a protection response resulting in a colony morphology and phenotype referred to as mucoid. However how P. aeruginosa senses its environment and activates alginate overproduction is not fully understood. Previously, we showed that Pseudomonas isolation agar (PIA) supplemented with ammonium metavanadate (PIAAMV) induces P. aeruginosa to overproduce alginate. Vanadate is a phosphate mimic and causes protein misfolding by disruption of disulfide bonds. Here we used PIAAMV to characterize the pathways involved in inducible alginate production and tested the global effects of P. aeruginosa growth on PIAAMV by a mutant library screen, transcriptomics, and in a murine acute virulence model. The PA14 non-redundant mutant library was screened on PIAAMV to identify new genes that are required for the inducible alginate stress response. A functionally diverse set of genes encoding products involved in cell envelope biogenesis, peptidoglycan, uptake of phosphate and iron, phenazines biosynthesis, and other processes were identified as positive regulators of the mucoid phenotype on PIAAMV. Transcriptome analysis of P. aeruginosa growing in the presence of vanadate caused differential expression of genes involved in virulence, envelope biogenesis, and cell stress pathways. In this study, it was observed that growth on PIAAMV attenuates P. aeruginosa in a mouse pneumonia model. Induction of alginate overproduction occurs as a stress response to protect P. aeruginosa but it may be possible to modulate and inhibit these pathways based on the new genes identified in this study.
2013-07-15 | GSE48429 | GEO
Project description:The biocompatibility of immunoisolation devices is a major challenge for their use in cellular therapies. Utilisation of alginate for the encapsulation of pancreatic islets as a potential cellular therapy for type 1 diabetes has shown to be limited in terms of long-term graft survival, due to pericapsular fibrotic overgrowth. Fibrotic overgrowth is a complex process that involves several factors, including protein adsorption. This work investigates the protein adsorption profiles of plasma incubated alginate beads for the identification of key proteins that may play a role in the biocompatibility of this biomaterial.
2023-03-10 | PXD009135 | Pride
Project description:Human lung organoids (HLOs) are enabling the study of human lung development and disease by modelling native organ tissue structure, cellular composition, and cellular organization. In this report, we demonstrate that human lung organoids (HLOs) derived from human pluripotent stem cells (hPSCs) cultured in alginate, a fully defined non-animal product substrate, exhibit enhanced cellular differentiation compared to HLOs cultured in the commercially available Matrigel. More specifically, we observed an earlier onset and increase in the number of multi-ciliated cells, along with mucus producing MUC5AC+ goblet-like cells that were not observed in HLOs cultured in Matrigel. The epithelium in alginate-grown HLOs was organized in a pseudostratified epithelium with airway basal cells lining the basal lamina, but with the apical surface of cells on the exterior of the organoid. We further observed that HLOs cultured in Matrigel exhibited mesenchymal overgrowth that was not present in alginate cultures. The containment of the mesenchyme within HLOs in alginate enabled modeling of key features of Idiopathic Pulmonary Fibrosis (IPF) by treatment with TGFb. TGFβ treatment resulted in morphological changes including an increase in mesenchymal growth, increased expression of IPF markers, and decreased numbers of alveolar-like cells. This culture system provides a model to study the interaction of the mesenchyme with the epithelium during lung development and diseased states such as IPF.
2023-01-04 | GSE171331 | GEO
Project description:Pseudomonas aeruginosa is an opportunistic pathogen that can adapt to changing environments and can secrete an exopolysaccharide known as alginate as a protection response resulting in a colony morphology and phenotype referred to as mucoid. However how P. aeruginosa senses its environment and activates alginate overproduction is not fully understood. Previously, we showed that Pseudomonas isolation agar (PIA) supplemented with ammonium metavanadate (PIAAMV) induces P. aeruginosa to overproduce alginate. Vanadate is a phosphate mimic and causes protein misfolding by disruption of disulfide bonds. Here we used PIAAMV to characterize the pathways involved in inducible alginate production and tested the global effects of P. aeruginosa growth on PIAAMV by a mutant library screen, transcriptomics, and in a murine acute virulence model. The PA14 non-redundant mutant library was screened on PIAAMV to identify new genes that are required for the inducible alginate stress response. A functionally diverse set of genes encoding products involved in cell envelope biogenesis, peptidoglycan, uptake of phosphate and iron, phenazines biosynthesis, and other processes were identified as positive regulators of the mucoid phenotype on PIAAMV. Transcriptome analysis of P. aeruginosa growing in the presence of vanadate caused differential expression of genes involved in virulence, envelope biogenesis, and cell stress pathways. In this study, it was observed that growth on PIAAMV attenuates P. aeruginosa in a mouse pneumonia model. Induction of alginate overproduction occurs as a stress response to protect P. aeruginosa but it may be possible to modulate and inhibit these pathways based on the new genes identified in this study. Strain PAO1 was cultured on both PIA and PIAAMV for 18 hr. Three separate plates were used for each media. The cells from each plate were scraped into 4 ml of RNA Protect (Qiagen) and stored immediately at -80°C. Cells were treated with RNAprotect (Qiagen) and total RNA was extracted using an RNeasy mini purification kit (Qiagen) per the manufacturer’s instructions. RNA quality and the presence of residual DNA were checked on an Agilent Bioanalyzer 2100 electrophoretic system pre- and post-DNase treatment. Ten micrograms of total RNA was used for cDNA synthesis, fragmentation, and labeling according to the Affymetrix GeneChip P. aeruginosa genome array expression analysis protocol. RNA isolation, cDNA preparation, labeling and microarray analysis were performed as previously described in reference: Damron, F. H., J. P. Owings, Y. Okkotsu, J. J. Varga, J. R. Schurr, J. B. Goldberg, M. J. Schurr, and H. D. Yu. 2012. Analysis of the Pseudomonas aeruginosa Regulon Controlled by the Sensor Kinase KinB and Sigma Factor RpoN. J Bacteriol 194:1317-30.
2013-07-15 | E-GEOD-48429 | biostudies-arrayexpress