Biology subjects

Nguyen, T.-N.

Publications and source records attributed to Nguyen, T.-N..

3 recordsLinked to original sources

bioRxiv2026

Nocturnin drives mitochondrial NADP(H)/NAD(H) rhythms to regulate steroid rhythm amplitude and time metabolism

Circadian rhythms are conserved biological timekeeping mechanisms crucial for the temporal compartmentalization of metabolic processes. However, the molecular pathways by which circadian rhythms are regulated within metabolism are not fully understood. Nocturnin (NOCT) is a highly rhythmic, clock-controlled NADP(H) phosphatase that has been implicated in numerous metabolic phenotypes. While it is known that NOCT significantly impacts the cellular NADP(H) and NAD(H) pools in vitro, NOCTs impact on their concentrations and rhythmicity in vivo has not yet been established. In fact, the rhythmicity of NADH, NADP+, and NADPH have yet to be quantified in mammalian nucleated cells. Here, we determined both the whole cell and mitochondrial NAD(H) and NADP(H) rhythms in wild-type and Noct-/-mouse livers. Unexpectedly, we found a robust rhythm in the mitochondrial NADP(H)/NAD(H) ratio that is antiphase to the respective whole cell rhythm. While loss of NOCT increases the amplitude of the whole cell NADP(H)/NAD(H) rhythm, the mitochondrial rhythm is completely damped in Noct-/-mice. The constitutively higher relative NADP(H) within Noct-/-mitochondria drives steroidogenesis, leading to an increased amplitude of plasma corticosterone. Both the acute increase in plasma corticosterone and the disruption of mitochondrial cofactor rhythms caused by loss of NOCT lead to widespread changes in hepatic metabolism. Collectively, we found that NOCTs control of mitochondrial NADP(H)/NAD(H) rhythms is a novel regulator of steroid amplitude and downstream metabolic rhythms.

physiology↗

bioRxiv2025

TRPV4 Promotes Histamine Receptor Signaling in Lymphatic Endothelial Cells

BackgroundThe control of lymphatic permeability and flow is essential for homeostatic regulation of tissue fluid balance and immune responses. Histamine has been identified as an important signaling mediator involved in the regulation of lymphatic function. Histamine is released from activated perilymphatic mast cells and may also be produced by lymphatic endothelial cells (LECs) in response to flow-induced shear stress. The non-selective cation channel Transient Receptor Potential Vanilloid 4 (TRPV4) is an important mediator of signaling by GPCRs, including histamine receptors. TRPV4 is activated in response to shear stress and is functionally expressed by LECs. We hypothesized that histamine receptors and TRPV4 interact in LECs, leading to activation of distinct downstream signaling pathways. This study examined the mechanistic link between TRPV4 activity and histaminergic signaling in LECs. Principle ResultsHistaminergic Ca2+ signaling was examined in primary human LECs. Responses to histamine were mainly driven by the H1R histamine receptor, with some contribution by the H4R subtype, as determined using selective antagonists. H4R signaling in response to 4-methylhistamine was effectively prevented by either removal of extracellular Ca2+ or block of TRPV4 activity, consistent with TRPV4-dependence. Conversely, activation of H4R resulted in marked sensitization of subsequent responses to the selective TRPV4 agonist GSK1016790A. This interaction was mediated through a PLA2-dependent mechanism. TRPV4 activity was required for histamine receptor-evoked translocation of the Ca2+-dependent transcription factor NFATc1 and for cytoskeletal remodeling. By contrast, the release of cytokines in response to activation of either histamine receptors or TRPV4 were largely independent processes. ConclusionsThis study identifies TRPV4 as an important mediator of histaminergic signaling in LECs. The findings provide further support for the involvement of TRPV4 in defining the nature and magnitude of endothelial signaling downstream of GPCRs. HighlightsO_LIHistamine receptors are functionally expressed by primary human LECs C_LIO_LITRPV4 is an important driver of H4R-evoked Ca2+ signaling in LECs C_LIO_LIHistamine receptor activation sensitizes TRPV4 signaling in LECs C_LIO_LITRPV4 promotes histamine-evoked NFATc1 translocation to the nucleus of LECs C_LIO_LIHistamine and TRPV4 evoked cytokine release from LECs involve distinct mechanisms C_LI Graphical abstract O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=115 SRC="FIGDIR/small/690563v1_ufig1.gif" ALT="Figure 1"> View larger version (32K): org.highwire.dtl.DTLVardef@409b49org.highwire.dtl.DTLVardef@192f58dorg.highwire.dtl.DTLVardef@136fdd0org.highwire.dtl.DTLVardef@15175c6_HPS_FORMAT_FIGEXP M_FIG O_FLOATNOGraphical abstract.C_FLOATNO Histamine exerts its effects on lymphatic endothelial cells through interaction with the H1R and H4R receptor subtypes. H1R activation promotes Ca2+ release from intracellular stores. Activation of the H4R leads to elevated intracellular Ca2+ through crosstalk with the non-selective cation channel TRPV4. Interaction between H4R and TRPV4 is mediated through a PLA2-dependent mechanism. TRPV4 enhances histamine-evoked NFATc1 activation and translocation and cytoskeletal remodeling. In contrast, histamine receptor- and TRPV4-mediated cytokine release appear to involve mechanistically independent processes. C_FIG

pharmacology and toxicology↗

bioRxiv2024

epiTCR-KDA: Knowledge Distillation model on Dihedral Angles for TCR-peptide prediction

MotivationAntigen recognition by T-cell receptors (TCRs) triggers cascades of immune responses. Successful predictions of the TCR and antigen (as peptide) bindings therefore signify the advancements in immunotherapy. However, most of current TCR-peptide interaction predictors fail to predict unseen data. This limitation may be derived from the conventional usage of TCR and/or peptide sequences as input, which may not adequately reflect their structural characteristics. Therefore, incorporating the TCR and peptide structural information into the prediction model to improve the generalizability is necessary. ResultsWe presented epiTCR-KDA as a new predictor of TCR-peptide binding that utilises structural information, specifically the dihedral angles between the residues of both the peptide and the TCR. This structural descriptor was integrated into a model constructed using knowledge distillation to enhance its generalizability. The epiTCR-KDA demonstrated competitive prediction performance, with an AUC of 0.99 for seen data and AUC of 0.86 for unseen data. Across multiple public datasets, epiTCR-KDA consistently outperformed other predictors, such as epiTCR, NetTCR, BERTrand, TEIM-Seq, TEINet, and ImRex, maintaining a median AUC of 0.9 (ranging from 0.82 to 0.91). Further analysis of epiTCR-KDA performance indicated that the cosine similarity of the dihedral angle vectors between the unseen testing data and training data is crucial for its stable performance. In conclusion, our epiTCR-KDA model, with its capacity to predict for unseen data, has brought us one step closer toward the development of a highly effective pipeline for affordable antigen-based immunotherapy. Availability and implementationepiTCR-KDA is available on GitHub (https://github.com/ddiem-ri-4D/epiTCR-KDA)

bioinformatics↗