3D cell culture model: From ground experiment to microgravity study

Ma, Chiyuan; Duan, Xianglong; Lei, Xiaohua

doi:10.3389/fbioe.2023.1136583

Cited by 6 publications

(2 citation statements)

References 113 publications

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“…It’s worth highlighting the significant absence of prior results obtained in such comparable conditions. This void is particularly striking given the contemporary surge of interest in space biology and the concurrent application of organoids in space-related extreme conditions 23–25 . Earlier deployments of biological experiments in parabolic flight have yielded some first insights into the immediate effects on cellular adhesion but only within a 2D cellular monolayer 26–28 .…”

Section: Resultsmentioning

confidence: 99%

“…It's worth highlighting the significant absence of prior results obtained in such comparable conditions. This void is particularly striking given the contemporary surge of interest in space biology and the concurrent application of organoids in space-related extreme conditions [23][24][25] .…”

Section: / Cell-to-neighbourhood 3d Topology Descriptors To Identify ...mentioning

confidence: 99%

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Digitalized organoids: integrated pipeline for 3D high-speed analysis of organoid structures using multilevel segmentation and cellular topology

Ong,

Karatas,

Grenci

et al. 2023

Preprint

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Analysing the tissue morphogenesis and function is crucial for unravelling the underlying mechanisms of tissue development and disease. Organoids, 3Din vitromodels that mimic the architecture and function of human tissues, offer a unique opportunity to study effects of external perturbators that are difficult to replicatein vivo. However, large-scale screening procedures for studying the effects of different ‘stress’ on cellular morphology and topology of these 3D tissue-like system face significant challenges, including limitations in high-resolution 3D imaging, and accessible 3D analysis platforms. These limitations impede the scale and throughput necessary to accurately quantify the effects of mechanical and chemical cues. Here, we present a novel, fine-tuned pipeline for screening morphology and topology modifications in 3D cell culture using multilevel segmentations and cellular topology, based on confocal microscopy and validated across different image qualities. Our pipeline incorporates advanced image analysis algorithms and artificial intelligence (AI) for multiscale 3D segmentation, enabling quantification of morphology changes at both the nuclear and cytoplasmic levels, as well as at the organoid scale. Additionally, we investigate cell relative position and employ neighbouring topology analysis to identify tissue patterning and their correlations with organoid microniches. Eventually, we have organized all the extracted features, 3D segmented masks and raw images into a single database to allow statistical and data mining approaches to facilitate data analysis, in a biologist-friendly way. We validate our approach through proof-of-concept experiments, including well-characterized conditions and poorly explored mechanical stressors such as microgravity, showcasing the versatility of our pipeline. By providing a powerful tool for discovery-like assays in screening 3D organoid models, our pipeline has wide-ranging interests from biomedical applications in development and aging-related pathologies to tissue engineering and regenerative medicine.

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