Biology subjects

Torres-Ruiz, J.

Publications and source records attributed to Torres-Ruiz, J..

3 recordsLinked to original sources

bioRxiv2022

Transcriptomic profiling reveals distinct subsets of immune checkpoint inhibitor-induced myositis

ObjectivesInflammatory myopathy or myositis is a heterogeneous family of immune-mediated diseases including dermatomyositis (DM), antisynthetase syndrome (AS), immune-mediated necrotizing myopathy (IMNM), and inclusion body myositis (IBM). Immune checkpoint inhibitors (ICI) can also cause myositis (ICI-myositis). This study was designed to define gene expression patterns in muscle biopsies from patients with ICI-myositis. MethodsBulk RNA sequencing was performed on 200 muscle biopsies (35 ICI-myositis, 44 DM, 18 AS, 54 IMNM, 16 IBM, and 33 normal muscle biopsies) and single nuclei RNA sequencing was performed on 22 muscle biopsies (7 ICI-myositis, 4 DM, 3 AS, 6 IMNM, and 2 IBM). ResultsUnsupervised clustering defined three distinct transcriptomic subsets of ICI-myositis: ICI-DM, ICI-MYO1, and ICI-MYO2. ICI-DM included patients with DM and anti-TIF1{gamma} autoantibodies who, like DM patients, overexpressed type 1 interferon-inducible genes. ICI-MYO1 patients had highly inflammatory muscle biopsies and included all patients that developed co-existing myocarditis. ICI-MYO2 was composed of patients with predominant necrotizing pathology and low levels of muscle inflammation. The type 2 interferon pathway was activated both in ICI-DM and ICI-MYO1. Unlike the other types of myositis, all three subsets of ICI-myositis patients overexpressed genes involved in the IL6 pathway. ConclusionsWe identified three distinct types of ICI-myositis based on transcriptomic analyses. The IL6 pathway was overexpressed in all groups, the type I interferon pathway activation was specific for ICI-DM, the type 2 IFN pathway was overexpressed in both ICIDM and ICI-MYO1, and only ICI-MYO1 patients developed myocarditis.

immunology↗

bioRxiv2021

CCL28 modulates neutrophil responses and impacts the trajectory of mucosal infections

The chemokine CCL28 is highly expressed in mucosal tissues, but its role during infection is not well understood. Here we show that CCL28 promotes neutrophil accumulation to the gut of mice infected with Salmonella and to the lung of mice infected with Acinetobacter. Neutrophils isolated from the infected mucosa expressed the CCL28 receptors CCR3 and, to a lesser extent, CCR10, on their surface. The functional consequences of CCL28 deficiency were different between the two infections, as Ccl28-/- mice were highly susceptible to Salmonella gut infection, but highly resistant to otherwise lethal Acinetobacter lung infection. In vitro, unstimulated neutrophils harbored pre-formed intracellular CCR3 that was rapidly mobilized to the cell surface following phagocytosis or inflammatory stimuli. Moreover, CCL28 stimulation enhanced neutrophil antimicrobial activity, production of reactive oxygen species, and formation of extracellular traps, all processes that were largely dependent on CCR3. Consistent with the different outcomes in the two infection models, neutrophil stimulation with CCL28 boosted the killing of Salmonella but not of Acinetobacter. CCL28 thus plays a critical role in the immune response to mucosal pathogens by increasing neutrophil accumulation and activation, which can enhance pathogen clearance but also exacerbate disease depending on the mucosal site and the infectious agent.

immunology↗

bioRxiv2020

Modelling live fuel moisture content at leaf and canopy scale under extreme drought using SurEau-Ecos, a lumped plant hydraulic model

O_LIWater content in living vegetation (or live fuel moisture content, LFMC), is increasingly recognized as a key factor linked to vegetation mortality and wildfire ignition and spread. Most often, empirical indices are used as surrogates for direct LFMC measurements. C_LIO_LIIn this paper, we explore the functional and ecophysiological drivers of LFMC during drought at the leaf and canopy scale using the SurEau-Ecos model, and a three years dataset of leaf and canopy scale measurements on a mature Quercus ilex forest, including an extreme drought. The model is based on forest hydrology and plant hydraulics and allows to simulate temporal variations of water potential and content at a daily time step. At leaf level, it simulates the relationship between water potential and water content by separating the apoplasm and the symplasm. Symplasm water content is modeled using the pressure volume curve theory, and apoplasm water content is modelled using the xylem vulnerability to cavitation. Fuel moisture content was upscaled to the canopy level by accounting for foliage mortality estimated from drought induced cavitation. C_LIO_LIThe model was parameterized either with site-measured traits or using a calibration procedure, and compared with water potential and LFMC measured at leaf level, and NDVI variation measured at canopy level and taken as a surrogate for foliage mortality. C_LIO_LIAt leaf level, LFMC prediction using measured hydraulic traits could be improved by considering year-to-year osmotic adjustments. At canopy level, foliage mortality due to drought induced cavitation was a key driver of LFMC decline during the most extreme drought. C_LIO_LIA sensitivity analysis showed that parameters driving soil water balance (leaf area index, soil water capacity, and regulation of transpiration) and parameters determining pressure volume curves are key traits driving LFMC dynamics at leaf level. At the canopy level, parameters that drives hydraulic failure were the most sensitive and included, both soil water balance parameters and hydraulic traits (the leaf vulnerability to cavitation) were the main drivers of LFMC decline during extreme drought. C_LIO_LIWe also showed that under normal historic weather conditions, most variation of LFMC are linked to reversible symplasm dehydration, however under future, hotter and dryer conditions, most variations are due to the decline canopy of LFMC driven by foliage mortality. C_LI

ecology↗