Biology subjects

Paulson, D.

Publications and source records attributed to Paulson, D..

3 recordsLinked to original sources

bioRxiv2026

Ift43 Controls the Ciliary Levels of Gli2 and Gli3

Intraflagellar transport (IFT) drives the bidirectional movement of trains composed of IFT-A, IFT-B, and BBSome complexes that build and maintain cilia while supporting their signaling functions. Over evolution, IFT became integral to Hedgehog signaling by directing the dynamic movements of receptors and Gli transcription factors that fine-tune pathway output. The IFT-A complex contains six subunits, but the smallest, Ift43, remains poorly characterized and is absent from many ciliated species, suggesting specialized roles in signaling rather than core ciliogenesis. Here we show that loss of Ift43 in mice causes mid-gestation lethality with severe craniofacial defects, exencephaly, abdominal wall defects with exposed viscera, edema, and limb patterning defects. At the cellular level, Ift43 deficiency reduces both the number and length of cilia and blocks induction of Gli1 following pathway activation by the agonist SAG. Although Smoothened relocalizes to cilia normally, Ift43 mutants abnormally accumulate Gli2 and Gli3 at ciliary tips before stimulation and continue to generate repressor forms after activation. Conversely, Ift43 overexpression increases basal Gli2 cleavage, revealing an unanticipated role for Ift43 in regulating Gli processing. Together, these findings identify Ift43 as a key IFT-A component that links ciliary assembly to Hedgehog signal transduction and helps set the balance between Gli activator and repressor forms.

cell biology↗

bioRxiv2025

IFT20 regulates lymphatic endothelial cell-cell junctions via endocytic trafficking of VE-cadherin

Intraflagellar transport (IFT) proteins are required for the assembly and function of primary cilia. They also regulate non-ciliary polarized vesicular traffic, such as T cell receptor recycling. We recently reported that lymphatic endothelial cells assemble primary cilia and express IFT proteins. Here, we report that IFT20 regulates vascular endothelial cadherin (VE-cadherin) localization at adherens junctions. IFT20 deletion caused discontinuous, button-like interendothelial junctions. This resulted in excessive lymphangiogenesis and impaired lymph drainage in mice. In vitro, VEGF-C treatment of IFT20 KD primary human dermal lymphatic endothelial cells caused accumulation of VE-cadherin in RAB5+ endosomes and enhanced and sustained VEGFR-3 signaling. Our findings are consistent with a model in which IFT20 promotes recycling of VE-cadherin to the adherens junction where it sequesters VEGFR-3 at the cell surface, thereby limiting pro-lymphangiogenic signaling. In the absence of IFT20, intercellular junctions are destabilized, pro-lymphangiogenic VEGFR-3 signaling is enhanced, and lymph transport is impaired by intracellular sequestration of VE-cadherin. This study elucidates the function of an IFT protein in lymphatic endothelial cells and provides mechanistic insight into the processes that regulate lymphatic endothelial cell-cell junctions and lymphangiogenic signaling.

cell biology↗

bioRxiv2023

Robust identification of perturbed cell types in single-cell RNA-seq data

Single-cell transcriptomics has emerged as a powerful tool for understanding how different cells contribute to disease progression by identifying cell types that change across diseases or conditions. However, detecting changing cell types is challenging due to individual-to-individual and cohort-to-cohort variability and naive approaches based on current computational tools lead to false positive findings. To address this, we propose a computational tool, scDist, based on a mixed-effects model that provides a statistically rigorous and computationally efficient approach for detecting transcriptomic differences. By accurately recapitulating known immune cell relationships and mitigating false positives induced by individual and cohort variation, we demonstrate that scDist outperforms current methods in both simulated and real datasets, even with limited sample sizes. Through the analysis of COVID-19 and immunotherapy datasets, scDist uncovers transcriptomic perturbations in dendritic cells, plasmacytoid dendritic cells, and FCER1G+NK cells, that provide new insights into disease mechanisms and treatment responses. As single-cell datasets continue to expand, our faster and statistically rigorous method offers a robust and versatile tool for a wide range of research and clinical applications, enabling the investigation of cellular perturbations with implications for human health and disease.

bioinformatics↗