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Dynamic study of In vitro murine follicle maturation in 3% alginate gels

ABSTRACT: 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

ORGANISM(S): Mus musculus

PROVIDER: GSE55969 | GEO | 2014/06/01

SECONDARY ACCESSION(S): PRJNA241450

REPOSITORIES: GEO

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Dynamic study of In vitro murine follicle maturation in 3% alginate gels

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

Identification of adsorbing human plasma proteins on alginate gel beads

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

Transcriptional analysis of wild-type budding yeast microcolonies encapsulated in alginate particles

Project description:We analysed the transcriptomic signature associated to fast and slow growing microcolonies generated after the encapsulation of single cells belonging to a clonal wild-type population, in alginate microspheres. This allowed us to identify particular gene expression signatures associated to each subpopulation. In particular, we found that slow growing cells display an increased expression of respiratory genes even when growing in glucose rich media.

2017-02-10 | GSE72092 | GEO

Genome-wide studies of murine ovarian follicle maturation in vitro

Project description:A microarray study to compare gene expression during ovarian follicle development to better understand transcriptional changes during follicular growth. Multi-layered secondary follicles (150-180 µm in diameter) were mechanically isolated from ovaries of 16-day old CD-1 mice and individually encapsulated in 0.5% alginate. Follicles were culture for up to 8 days. Day 0 samples correspond to follicles that were isolated and immediately frozen.

2012-12-08 | GSE42795 | GEO

Transcriptomic Responses of Synechocystis sp. PCC 6803 Encapsulated in Silica Gel

Project description:Global gene expression of Synechocystis sp. PCC 6803 encapsulated in silica gel was examined by microarray analysis. Cultures were encapsulated in gels derived from aqueous precursors and gels derived from alkoxide precursors and incubated under constant light for 24 hours prior to RNA extraction. Cultures suspended in liquid media were also exposed to 500 mM salt stress and incubated under identical conditions, for comparison purposes. The expression of 414 genes was significantly altered by encapsulation in aqueous-derived gels (fold change >/= 1.5 and P-value < 0.01), the expression of 1143 genes were significantly altered by encapsulation in alkoxide derived gels, and only 243 genes were common to both encapsulation chemistries. Additional qRT-PCR analyses of four select genes; ggpS, cpcG2, slr5055, and sll5057, confirmed microarray results. These results illustrate that encapsulation stress is quite different than salt stress in terms of gene expression response. Furthermore, a number of hypothetical and unknown proteins associated with encapsulation and alcohol stress have been identified, with implications for improving encapsulation protocols and rationally engineering microorganisms for direct biofuel production. 16 samples; 4 biological replicates each of 4 treatments

2012-04-23 | E-GEOD-37482 | biostudies-arrayexpress

Genome-wide studies of murine ovarian follicle maturation in vitro

Project description:A microarray study to compare gene expression during ovarian follicle development to better understand transcriptional changes during follicular growth. Multi-layered secondary follicles (150-180 M-BM-5m in diameter) were mechanically isolated from ovaries of 16-day old CD-1 mice and individually encapsulated in 0.5% alginate. Follicles were culture for up to 8 days. Day 0 samples correspond to follicles that were isolated and immediately frozen. Samples were collected after 0, 2, 4, 5, 6 and 8 days in culture in triplicate and day 0 was collected 5 times.

2012-12-08 | E-GEOD-42795 | biostudies-arrayexpress

Transcriptomic Responses of Synechocystis sp. PCC 6803 Encapsulated in Silica Gel

2012-04-24 | GSE37482 | GEO

scRNA-seq of pluripotent stem cell derived human intestinal organoids grown in an alginate matrix

Project description:Here, we used single-cell RNA-sequencing (scRNA-seq) to profile pluripotent stem cell derived human intestinal organoids (HIOs) grown in an alginate matrix after 3, 7, and 14 days of in vitro growth. Samples were grown in minigut media supplemented with either ENR or EGF.

2022-02-01 | E-MTAB-11338 | biostudies-arrayexpress

Expression analysis of Sphingomonas. sp A1 AlgO-deficient mutant grown in 0.5% alginate medium or 0.5% yeast extract medium

Project description:Investigation of whole genome gene expression level changes in Sphingomonas. sp A1 AlgO-deficient mutant grown on alginate compared with that on yeast extract AlgO is a possble transcriptional factor described in J. Bacteriol. (2000) 182(14):3998-4004 by Momma K, Okamoto M, Mishima Y, Mori S, Hashimoto W, and Murata K. A two chip study using total RNA recovered from two cultures of Sphingomonas. sp A1 AlgO-deficient mutant grown in 0.5% alginate medium and 0.5% yeast extract medium. Each chip measures the expression level of genes from Sphingomonas. sp A1.

2014-01-28 | E-GEOD-54410 | biostudies-arrayexpress

Non-adhesive alginate promotes further differentiation and models fibrosis of human lung organoids in vitro.

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

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