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Integrin-activating Yersinia protein Invasin sustains long-term expansion of primary epithelial cells as 2D organoid sheets [RNA-Seq]

ABSTRACT: Integrin-activating Yersinia protein Invasin sustains long-term expansion of primary epithelial cells as 2D organoid sheets [RNA-Seq]

PROVIDER: PRJNA1150076 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR30310309.fastq.gz	Fastqsanger.gz
	SRR30310310.fastq.gz	Fastqsanger.gz
	SRR30310311.fastq.gz	Fastqsanger.gz
	SRR30310312.fastq.gz	Fastqsanger.gz

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Integrin-activating Yersinia protein Invasin sustains long-term expansion of primary epithelial cells as 2D organoid sheets [scRNA-Seq]

Project description:Integrin-activating Yersinia protein Invasin sustains long-term expansion of primary epithelial cells as 2D organoid sheets [scRNA-Seq]

| PRJNA1150084 | ENA

Integrin-activating Yersinia protein Invasin sustains long-term expansion of primary epithelial cells as 2D organoid sheets [scRNA-Seq]

Project description:Matrigel®/BME®, a solubilized basement membrane-like preparation, is especially rich in the Extra-Cellular Matrix (ECM) protein laminin-111. This hydrogel supports the formation and long-term growth of epithelial 3D organoids from adult stem cells (ASC)1,2. Laminin111 activates integrin β1 complexes, thus preventing anoikis and driving epithelial polarization. Here, we address if a bacterial integrin-activating protein can mimic Matrigel/BME. Enteropathogenic Yersinia bacteria invade human gut epithelial cells using their outer membrane protein Invasin. This protein binds and activates a diversity of integrin β1 complexes, including the laminin111-specific α6β1 receptor. A recombinant 25 kDa C-terminal integrin-binding fragment of Invasin allowed adhesion of gut epithelial cells, when coated on culture plates. Upon addition of organoid growth factor medium, the epithelial cells grew out in 2D and could be expanded and passaged long-term. Polarization, junction formation and generation of various intestinal cell types (i.e. enterocytes, goblet cells, Paneth cells, and enteroendocrine cells) was stable over time. Sustained expansion of multiple other human-, mouse-, and even snake epithelia was accomplished under comparable conditions. The 2D culturing format holds advantages over the 3D ‘in gel’ format in terms of imaging, accessibility of basal and apical domains and automation for high throughput screening approaches. Invasin represents a fully defined, affordable, versatile, and animal-free complement to Matrigel/BME.

2024-11-29 | GSE275239 | GEO

Integrin-activating Yersinia protein Invasin sustains long-term expansion of primary epithelial cells as 2D organoid sheets [RNA-Seq]

2024-11-29 | GSE275236 | GEO

Effect of Integrin-aBb2 on transcription in 2d or 3d.

Project description:M21 or M21L cells were grown either in 2d (on plastic) or in a 3d-collagen model. 2x2 design, in triplicate

2012-07-10 | E-GEOD-34219 | biostudies-arrayexpress

Integrin beta 3 regulates cellular senescence by activating the TGFβ pathway

Project description:Cellular senescence is an important in vivo mechanism that prevents the propagation of damaged cells. However, the precise mechanism(s) regulating senescence are not well characterized. Here, we find that ITGB3 (integrin beta 3 or β3) is epigenetically regulated by the Polycomb protein CBX7. β3 expression accelerates the onset of senescence in human primary fibroblasts, by activating the TGFβ pathway in a cell autonomous and non-cell autonomous manner. β3 levels are dynamically increased during oncogeneinduced senescence (OIS) through CBX7 epigenetic regulation. DNA-damage and therapy-induced senescence (TIS) also induce β3 expression. In fact, downregulation of β3 levels override OIS and TIS, independently of its ligand-binding activity. Moreover, cilengitide, a αvβ3 antagonist, has the ability to block the SASP without affecting proliferation. Finally, we show an increase in β3 levels during aging in mice and humans. Altogether, our data show that integrin β3 subunit is a marker and regulator of senescence.

2017-03-09 | PXD005717 | Pride

ANME-2d

Project description:ANME-2d Metagenome

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Project description:Fungal planet description sheets - Dec 2020

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Gene expression profiles of 2D- and 3D-cultured fallopian tube secretory epithelial cells

Project description:Background. Fallopian tube secretory epithelial cells (FTSECs) have been implicated as a cell-of-origin for high-grade serous epithelial ovarian cancer. However, there are relatively few in vitro models of this tissue type available for use in studies of FTSEC biology and malignant transformation. In vitro three-dimensional (3D) cell culture models aim to recreate the architecture and geometry of tissues in vivo and restore the complex network of cell-cell/cell-matrix interactions that occur throughout the surface of the cell membrane. Results. We have established and characterized 3D spheroid culture models of primary FTSECs. FTSEC spheroids contain central cores of hyaline matrix surrounded by mono- or multi-layer epithelial sheets. We found that 3D culturing alters the molecular characteristics of FTSECs compared to 2D cultures of the same cells. Gene expression profiling identified more than a thousand differentially expressed genes between 3D and 2D cultures of the same FTSEC lines. Pathways significantly under-represented in 3D FTSEC cultures were associated with cell cycle progression and DNA replication. This was also reflected in the reduced proliferative indices observed in 3D spheroids stained for the proliferation marker MIB1. Comparisons with gene expression profiles of fresh fallopian tube tissues revealed that 2D FTSEC cultures clustered with follicular phase tubal epithelium, whereas 3D FTSEC cultures clustered with luteal phase samples. Conclusions. This 3D model of fallopian tube secretory epithelial cells will advance our ability to study the underlying biology and etiology of fallopian tube tissues and the pathogenesis of high-grade serous epithelial ovarian cancer. 3 primary FTSEC lines were plated in 2D, or in 3D on polyHEMA coated plates

2013-09-27 | E-GEOD-51220 | biostudies-arrayexpress

Murine forestomach epithelial sheets: Controls vs. Sox2 overexpression mutants

Project description:Transcriptional profiling of adult forestomach epithelium comparing K5-CreER controsl with K5-CreER;Rosa26Sox2/Sox2 mutants. Two doses of tamoxifen were given and four weeks later the epithelal sheets were harvested for RNA extraction. Goal was to determine the effects of Sox2 overexpression on epithelial phenotypic changes.

2012-05-09 | GSE37857 | GEO

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