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Yamashita, J.

Publications and source records attributed to Yamashita, J..

4 recordsLinked to original sources

Identification of genes supporting cold resistance of mammalian cells: lessons from a hibernator

Susceptibility of human cells to cold stress restricts the use of therapeutic hypothermia and long-term preservation of organs at low temperatures. In contrast, cells of mammalian hibernators possess remarkable cold resistance, but little is known about the molecular mechanisms underlying this phenomenon. In this study, we conducted a gain-of-function screening of genes that confer cold resistance to cold-vulnerable human cells using a cDNA library constructed from the Syrian hamster, a mammalian hibernator, and identified Gpx4 as a potent suppressor of cold-induced cell death. Additionally, genetic or pharmacological inhibition of Gpx4 in a hamster cell line under prolonged cold culture led to cell death, which resembles ferroptosis characterized by accumulation of lipid peroxide and ferrous iron dependency. Genetic disruption of other ferroptosis-suppressing pathways, namely biopterin synthesis and mitochondrial or plasma membrane CoQ reduction pathways, accelerated cold-induced cell death under Gpx4 dysfunction. Collectively, ferroptosis-suppressing pathways protect the cells of a mammalian hibernator from cold-induced cell death and the augmentation of these pathways renders cold resistance to cells of non-hibernators, including humans.

cell biology↗

eSPRESSO: a spatial self-organizing-map clustering method for single-cell transcriptomes of various tissue structures using graph-based networks

Animal cells are spatially organized as tissues and cellular gene expression data contain such information that governs body structure and morphogenesis during developmental process. Although several computational tissue reconstruction methods using transcriptomic data have been proposed, those methods are insufficient with regard to arranging cells in their correct positions in tissues or organs unless spatial information is explicitly provided. Here, we propose eSPRESSO, a powerful in silico three-dimensional (3D) tissue reconstruction method using stochastic self-organizing map (stochastic-SOM) clustering, together with optimization of gene set by Markov chain Monte Carlo (MCMC) framework, to estimate the spatial domain structure of cells in any topology of tissues or organs from only their transcriptome profiles. We confirmed the performance of eSPRESSO by mouse embryo, embryonic heart, adult cortical layers, and human pancreas organoid with high reproducibility (success rate = 72.5-100%), while discovering morphologically important spatial discriminator genes (SDGs). Furthermore, we applied eSPRESSO to analysis of human adult heart diseases by virtual gene knockouts, and revealed candidate mechanisms of deformation of heart structure. The eSPRESSO may provide novel methods to analyze the mechanisms of 3D structure formation and morphology-based disease mechanisms.

bioinformatics↗

CLEC-2 suppresses calcification in cultured osteoblasts

Podoplanin is the only counter-receptor of platelet CLEC-2 and is expressing on mature osteoblast, but there is no report on the role of podoplanin and CLEC-2 in calcification. This study aimed to investigate the role of podoplanin binding to CLEC-2 in the calcification of osteoblasts carrying homozygously deleted Pdpn alleles (Pdpn{Delta}/{Delta}) by heterozygously expressing collagen type I alpha 1 promoter (Col1a)-driven Cre recombinase. There were no macroscopic abnormalities in the bone and dentin of Col1a11-Cre;Pdpn{Delta}/{Delta} mice but the coccygeal bone medullary cavity was very narrow. In the quantitative analysis for alizarin red-stained products and alkaline phosphatase activities on the cultured calvarial osteoblasts, the amounts of calcified products and alkaline phosphatase activity of calvarial osteoblasts of both Pdpnfl/fl and Col1a11-Cre;Pdpn{Delta}/{Delta} mice were significantly higher in the calcification medium than in the -mem. Both the amounts of calcified products and alkaline phosphatase activity of calvarial osteoblasts from Pdpnfl/fl mice were significantly lower in the calcification medium with CLEC-2 than without CLEC-2 while there were no significant differences in the amounts of calcified products and alkaline phosphatase activities of calvarial osteoblasts from Col1a11-Cre;Pdpn{Delta}/{Delta} mice with CLEC-2. Platelet CLEC-2 may play a role in regulating the calcification via binding to podoplanin on mature osteoblasts expressing podoplanin in the medullary cavity of a part of the bone.

cell biology↗

Neuropeptide B mediates female sexual receptivity in medaka fish, acting in a female-specific but reversible manner

Male and female animals display innate sex-specific mating behaviors. Among vertebrates, teleosts are unique in that altering the adult sex steroid milieu can reverse sex-typical mating behaviors, suggesting sexual lability of their brains. In the teleost medaka, neuropeptide B (NPB) is expressed female-specifically in the brain nuclei implicated in mating behavior. Here, we demonstrate that NPB is a direct mediator of estrogen action on female mating behavior, acting in a female-specific but reversible manner. Analysis of regulatory mechanisms revealed that the female-specific expression of NPB is dependent on direct transcriptional activation by estrogen via an estrogen-responsive element and is reversed in response to changes in the adult sex steroid milieu. Behavioral studies of NPB knockouts revealed that female-specific NBP mediates female receptivity to male courtship. The female-specific NPB signaling identified herein is presumably a critical element of the neural circuitry underlying sexual dimorphism and lability of mating behaviors in teleosts.

neuroscience↗