Biology subjects

Ohtsuka, T.

Publications and source records attributed to Ohtsuka, T..

4 recordsLinked to original sources

bioRxiv2025

Organo-metal coprecipitation contributes to stable organic carbon fraction in mangrove soil

Prediction of the impact of anthropogenic disturbances and global change on organic carbon (OC) pools in mangrove soils requires a detailed understanding of the mechanisms underlying OC stabilization. Using density fractionation to physically separate OC fractions with varying degrees of mineral association and protection, this study aimed to assess distributions of these fractions and the geochemical factors influencing the most dominant and refractory mineral-associated, high-density fraction (HF) in mangrove soil. We conducted forest-wide soil sampling in the Gaburumata mangrove forest on Ishigaki Island, Japan, along three transects (upstream, midstream, downstream) and at five depths (until 100 cm). The OC in HF (OCHF) was the oldest (median {Delta}14C value of -13.81{per thousand}) and contributed most significantly to total soil OC (43%-63%) and nitrogen (64%-85%). Among the extractable metals analyzed (aluminum [Al], iron [Fe], calcium [Ca], and magnesium [Mg]) with different crystallinity, only organically complexed Al and Fe showed strong positive correlations with OCHF. Together with high OCHF:Fe ratios that surpassed the maximum sorptive capacity of Fe oxides, these results indicate that co-precipitation of OC and Fe was the dominant mode of organo-mineral associations. The low clay content reduced the importance of Ca and Mg on OCHF, as these divalent cations typically facilitate OC stabilization through cation bridging between negatively charged clay surfaces and organic matter. Furthermore, the {Delta}14C-OC relationship suggested efficient incorporation of mangrove-derived modern C into HF, in addition to the pre-existing old C. Thus, mangrove expansion is likely to enhance stable soil OC pools in addition to increasing plant biomass and litter. Overall, this study proposes a biogeochemical mechanism for how stable mangrove OC is newly formed, as well as maintained, with ramifications for global mangrove expansion and plantation efforts.

ecology↗

bioRxiv2024

Multi-omic profiling of intraductal papillary neoplasms of the pancreas reveals distinct expression patterns and potential markers of progression

In order to advance our understanding of precancers in the pancreas, 69 pancreatic intraductal papillary neoplasms (IPNs), including 64 intraductal papillary mucinous neoplasms (IPMNs) and 5 intraductal oncocytic papillary neoplasms (IOPNs), 32 pancreatic cyst fluid samples, 104 invasive pancreatic ductal adenocarcinomas (PDACs), 43 normal adjacent tissues (NATs), and 76 macro-dissected normal pancreatic ducts (NDs) were analyzed by mass spectrometry. A total of 10,246 proteins and 22,284 glycopeptides were identified in all tissue samples, and 756 proteins with more than 1.5-fold increase in abundance in IPMNs relative to NDs were identified, 45% of which were also identified in cyst fluids. The over-expression of selected proteins was validated by immunolabeling. Proteins and glycoproteins overexpressed in IPMNs included those involved in glycan biosynthesis and the immune system. In addition, multiomics clustering identified two subtypes of IPMNs. This study provides a foundation for understanding tumor progression and targets for earlier detection and therapies. SignificanceThis multilevel characterization of intraductal papillary neoplasms of the pancreas provides a foundation for understanding the changes in protein and glycoprotein expression during the progression from normal duct to intraductal papillary neoplasm, and to invasive pancreatic carcinoma, providing a foundation for informed approaches to earlier detection and treatment.

cancer biology↗

bioRxiv2024

Lipogenic Lung Fibroblast-derived Extracellular Vesicles Mitigate Cigarette Smoke-Induced Chronic Obstructive Pulmonary Disease Pathologies through LAT1-mediated Alveolar Type II Cell Restoration

Emerging research has revealed specific cellular aberrations in Chronic Obstructive Pulmonary Disease (COPD), with a particular focus on alveolar type 2 (AT2) cells, which play a pivotal role in the restoration of damaged lung tissue and promotion of normal cellular differentiation. Lipofibroblasts (LipoFBs), which are stromal fibroblasts that house lipid droplets, have been identified in close proximity to AT2 cells and have been demonstrated to support AT2 function. In this study, we present a comprehensive investigation into the therapeutic potential of extracellular vesicles (EVs) derived from LipoFBs (LipoFB-EVs) in COPD treatment. They effectively mitigate key COPD pathologies such as cellular senescence and inflammatory responses in lung epithelial cells. This is achieved by reducing reactive oxygen species (ROS) levels and modulating DNA damage response pathways. Moreover, LipoFB-EVs demonstrate antifibrotic properties by inhibiting TGF-{beta}-induced myofibroblast differentiation, surpassing conventional antifibrotic drugs. They also aid in restoring impaired AT2 stem cells, which are crucial for lung homeostasis, by enhancing their viability, colony-forming ability, and proliferation. Furthermore, we identify the presence of L-type amino acid transporter 1 (LAT1) within LipoFB-EVs, which mediates amino acid uptake, particularly leucine transport, and contributes to the restoration of AT2 cell dysfunction. Importantly, the administration of LipoFB-EVs in murine models of COPD resulted in significant improvements in airway inflammation, remodeling, obstruction, cellular senescence, and alveolar emphysema induced by both short- and long-term CS exposure. Overall, our findings highlight the therapeutic potential of LipoFB-EVs as a novel regenerative therapy for COPD, offering promising avenues for future clinical interventions.

molecular biology↗

bioRxiv2022

Synapse type-specific molecular nanoconfigurations of the presynaptic active zone in the hippocampus identified by systematic nanoscopy

Neurotransmitters are released by exocytosis from synaptic vesicles at the active zone in the presynaptic terminal. The scaffold of the active zone consists of only a few evolutionarily conserved proteins, including RIM, CAST/ELKS, and RIM-BP, and tethers Munc13 and Ca2+ channels. The molecular principles that enable these proteins to mediate synaptic diversity have remained unclear. Here, we identified synapse type-specific molecular nanoconfigurations in the active zone by systematic quantification of active zone proteins using nanoscopy at two types of excitatory synapses and two types of inhibitory synapses in the rat hippocampal CA3 region. Quantitative analysis revealed that Munc13 content was particularly varied among the various synapse types and that the physical proximity of Ca2+ channels to the active zone scaffolds correlated with the efficacy of neurotransmitter release. We propose that the active zone is a flexible supramolecular assembly that can tune its composition and spatial configuration to adjust neurotransmitter release.

neuroscience↗