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Okabe, K.

Publications and source records attributed to Okabe, K..

4 recordsLinked to original sources

Membrane dynamics-mediated heat retention dictates economical intracellular energy flow

Intracellular thermometry has revealed temperature gradients within living cells, indicating the presence of localized energy flow. Moreover, increasing evidence suggests that cells can autonomously regulate heat production and use this heat to support cellular functions. Although heat is generally assumed to dissipate rapidly, recent studies suggest that slow, non-diffusive heat dissipation can generate high local temperatures, implying that heat may be retained within cells. However, such intracellular heat retention at the single-cell level has not been experimentally examined. Here, we measured the dissipation of metabolically generated heat using calorimetry and evaluated cellular heat balance. We further separated the dissipated heat into heat transfer and heat production components using an intracellular temperature imaging-based method. Through this approach, we found that perturbation of the cell membrane accelerated intracellular heat transfer rates and increased heat dissipation. These findings provide the first experimental evidence of intracellular heat retention, showing that heat generated by catabolic metabolism is not fully dissipated but is partly retained within cells by the cell membrane, which separates the intracellular space from the external environment. Furthermore, we identified the mechanism underlying this heat retention, demonstrating that membrane lipid dynamics are a key molecular determinant and that the motions of membrane lipids form an energetic barrier to heat dissipation. Together, our findings redefine metabolic heat, long regarded as mere waste, as a functional resource that supports efficient energy use, and they establish membrane-controlled heat retention as a fundamental principle of bioenergetic optimization in living systems.

biophysics↗

High-speed Intracellular Temperature Mapping Reveals the Existence of Non-Conductive Dissipation of Energy by Heating

Recently, intracellular thermometry has revealed temperature variations within cells. Although the biological significance of intracellular temperature change is recognized, the physical principles of intracellular temperature change remain a mystery. Here, we investigate intracellular heat transfer through intracellular temperature mapping using a fluorescent polymeric thermometer and high-speed fluorescence lifetime imaging microscopy. Through infrared laser irradiation-assisted heating, we track changes in temperature distribution to examine the mechanism of intracellular heat dissipation in comparison with heat conduction. Continuous heating induces the significantly slower relaxation of the average temperature of single cells compared with that of liposomes containing homogeneous aqueous solutions of comparable size; to the scale of seconds. We additionally elucidate that these phenomena are impacted by intracellular structures and molecules. Finally, we discover that this slow intracellular temperature relaxation originates from non-diffusive heat dissipation distinct from the conventional heat conduction model. Our results provide insights into the mechanisms of temperature variation in cells that are unresolved based on our current understanding, establishing a framework for understanding intracellular thermodynamics under non-equilibrium conditions.

biophysics↗

intra-single cell sequencing (iSCseq) spotlights transcriptomic and epigenetic heterogeneity inside multinucleated osteoclast

Single-cell RNA-seq (scRNA-seq) has clarified cellular heterogeneity within cell populations. However, scRNA-seq and spatial transcriptomics cannot capture the dynamic transcriptomic changes inside living cells. To decode subcellular gene expression, we developed intra-single cell sequencing (iSCseq), a novel approach that combines confocal imaging, repeatedly picking up cellular components inside living cells, and next-generation sequencing (intra single-cell RNA-seq; iSCseq). iSCseq illustrated the subcellular heterogeneity of gene expression. iSCseq revealed not only multiple differentiation stages embedded in the same cell, but also physical cytoskeletal connections, physiological activity of mitochondria, and intracellular calcium, as confirmed by transcriptomic evidence. Inclusive iSCseq with in vivo scRNA-seq datasets identified new osteoclast subsets in physiological and pathological bones. Network analysis with centrality provided insights into the connection between subcellular components, and clearly divided differentiation and fusion processes in multinucleation. The iSCseq approach has the potential to enhance cell biology at subcellular resolution and identify new therapeutic targets. Graphical abstract O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=200 SRC="FIGDIR/small/506360v4_ufig1.gif" ALT="Figure 1"> View larger version (73K): org.highwire.dtl.DTLVardef@115c1d8org.highwire.dtl.DTLVardef@1695ad2org.highwire.dtl.DTLVardef@1c9d257org.highwire.dtl.DTLVardef@1107ddb_HPS_FORMAT_FIGEXP M_FIG C_FIG In briefintra-single cell sequencing (iSCseq) enhances single-cell technology by combining live cell imaging, subcellular sampling from living cells and sequencing, offering deeper insights into cell functions and pathology at subcellular resolution through inclusive analysis with scRNA-seq and advanced centrality-focused network analysis. HighlightsO_LIintra-single cell sequencing (iSCseq) clarifies subcellular heterogeneity C_LIO_LIiSCseq connects morphological and physiological features with transcriptome C_LIO_LIInclusive iSCseq unveils osteoclast subsets in physiological and pathological bones C_LIO_LILinkage at subcellular resolution reveals key players in characteristic fusion C_LI

genomics↗

Quantification of the effect of site-specific histone acetylation on chromatin remodeling rate

Eukaryotic transcription is epigenetically regulated by chromatin structure and post-translational modifications (PTMs). For example, lysine acetylation in histone H4 is correlated with activation of RNA polymerase I-, II-, and III-driven transcription from chromatin templates, which requires prior chromatin remodeling. However, quantitative understanding of the contribution of particular PTM states to the sequential steps of eukaryotic transcription has been hampered partially because reconstitution of a chromatin template with designed PTMs is difficult. In this study, we reconstituted a di-nucleosome with site-specifically acetylated or unmodified histone H4, which contained two copies of the Xenopus somatic 5S rRNA gene with addition of a unique sequence detectable by hybridization-assisted fluorescence correlation spectroscopy. Using a Xenopus oocyte nuclear extract, we analyzed the time course of accumulation of nascent 5S rRNA-derived transcripts generated on chromatin templates in vitro. Our mathematically described kinetic model and fitting analysis revealed that tetra-acetylation of histone H4 at K5/K8/K12/K16 increases the rate of transcriptionally competent chromatin formation ~3-fold in comparison with the absence of acetylation. We provide a kinetic model for quantitative evaluation of the contribution of epigenetic modifications to chromatin transcription.

biophysics↗