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Biology subjects

Shioi, G.

Publications and source records attributed to Shioi, G..

3 recordsLinked to original sources

Elasto-Plastic Transition in Epithelial Folding

During morphogenesis, epithelial sheets undergo sequential folding to form three-dimensional organ structures. The resulting folds are irreversible, ensuring that morphogenesis progresses in one direction. However, the mechanism establishing the irreversibility of folding remains unclear. Here, we report a novel mechanical property of epithelia that is responsible for folding irreversibility. Using a newly developed mechanical indentation assay, we demonstrate that short-term or low-curvature folding induces an elastic, shape-restoring response. In contrast, combined long-term, high-curvature folding results in plastic, irreversible deformation. This elastic-to-plastic transition occurs in a switch-like manner, with critical thresholds for the folding curvature and duration. Specific cells at the fold initiate this transition, sensing the curvature and duration of folding on their apical side via mechanosensitive signaling pathways, including transient receptor potential canonical (TRPC) 3/6-mediated calcium influx and ligand-independent epidermal growth factor receptor activation. These pathways induce F-actin accumulation into a bracket-like structure across the fold, establishing the transition. The duration threshold is determined and tunable by the actin polymerization rate. These results demonstrate that cells control the irreversibility of epithelial folding by detecting folding characteristics and adaptively switching between elastic and plastic responses. This finding resolves a long-standing question about the directionality of morphogenesis.

developmental biology↗

Trans-scale live imaging of an E5.5 mouse embryo using incubator-type dual-axes light-sheet microscopy

We report our success in simultaneously tracking tissue formation and single-cell migration in a mouse embryo on embryonic day 5.5 for 12 h. The microscope, incubator, and observation protocols were comprehensively specialized and optimized to achieve this. The present system revealed new phenomena that had not previously been observed and promises to elucidate the mechanism of mouse embryonic development in the future.

developmental biology↗

Integrative analysis of transcription factor occupancy at enhancers and disease risk loci in noncoding genomic regions

Noncoding regions of the human genome possess enhancer activity and harbor risk loci for heritable diseases. Whereas the binding profiles of multiple transcription factors (TFs) have been investigated, integrative analysis with the large body of public data available so as to provide an overview of the function of such noncoding regions has remained a challenge. Here we have fully integrated public ChIP-seq and DNase-seq data (n ~ 70,000), including those for 743 human transcription factors (TFs) with 97 million binding sites, and have devised a data- mining platform --designated ChIP-Atlas--to identify significant TF-genome, TF-gene, and TF-TF interactions. Using this platform, we found that TFs enriched at macrophage or T-cell enhancers also accumulated around risk loci for autoimmune diseases, whereas those enriched at hepatocyte or macrophage enhancers were preferentially detected at loci associated with HDL-cholesterol levels. Of note, we identified \"hotspots\" around such risk loci that accumulated multiple TFs and are therefore candidates for causal variants. Integrative analysis of public chromatin-profiling data is thus able to identify TFs and tissues associated with heritable disorders.

genomics↗