A5083674827- Advanced Proteomics Techniques and Applications
- RNA and protein synthesis mechanisms
- Clostridium difficile and Clostridium perfringens research
- Bacterial Identification and Susceptibility Testing
- Metabolomics and Mass Spectrometry Studies
- Mitochondrial Function and Pathology
- Mass Spectrometry Techniques and Applications
- RNA modifications and cancer
- Peptidase Inhibition and Analysis
- Virology and Viral Diseases
- Cellular transport and secretion
- Cellular Mechanics and Interactions
- Bacterial Genetics and Biotechnology
- Erythrocyte Function and Pathophysiology
- interferon and immune responses
- Viral gastroenteritis research and epidemiology
- Endoplasmic Reticulum Stress and Disease
- Telomeres, Telomerase, and Senescence
- Epigenetics and DNA Methylation
- Market Dynamics and Volatility
- Bayesian Modeling and Causal Inference
- Bacteriophages and microbial interactions
- 14-3-3 protein interactions
- Immune cells in cancer
- ATP Synthase and ATPases Research
Institut Pasteur
2018-2025
Université Paris Cité
2021-2025
Centre National de la Recherche Scientifique
2016-2024
Génomique Bioinformatique et Applications
2020-2023
Protéomique, Réponse Inflammatoire et Spectrométrie de Masse
2022
Université Grenoble Alpes
2015-2020
Commissariat à l'Énergie Atomique et aux Énergies Alternatives
2015-2020
Inserm
2015-2020
CEA Grenoble
2015-2020
Institut de Recherches en Technologies et Sciences pour le Vivant
2015
DAPAR and ProStaR are software tools to perform the statistical analysis of label-free XIC-based quantitative discovery proteomics experiments. contains procedures filter, normalize, impute missing value, aggregate peptide intensities, null hypothesis significance tests select most likely differentially abundant proteins with a corresponding false rate. is graphical user interface that allows friendly access functionalities through web browser.DAPAR implemented in R language available on...
Abstract Cytokinesis requires the constriction of ESCRT-III filaments on side midbody, where abscission occurs. After ESCRT recruitment at it is not known how machinery localizes to site. To reveal actors involved in abscission, we obtained proteome intact, post-abscission midbodies (Flemmingsome) and identified 489 proteins enriched this organelle. Among these proteins, further characterized a plasma membrane-to-ESCRT module composed transmembrane proteoglycan syndecan-4, ALIX syntenin,...
Abstract The intestinal microbiota modulates host physiology and gene expression via mechanisms that are not fully understood. Here we examine whether epitranscriptomic marks affected by the gut microbiota. We use methylated RNA-immunoprecipitation sequencing (MeRIP-seq) to identify N6-methyladenosine (m 6 A) modifications in mRNA of mice carrying conventional, modified, or no find variations correlate with m A cecum, a lesser extent liver, affecting pathways related metabolism, inflammation...
In MS-based quantitative proteomics, the FDR control (i.e. limitation of number proteins that are wrongly claimed as differentially abundant between several conditions) is a major postanalysis step. It classically achieved thanks to specific statistical procedure computes adjusted p-values putative proteins. Unfortunately, such adjustment conservative only if well-calibrated; false discovery being spuriously underestimated otherwise. However, well-calibration property can be violated in some...
Salmonella is a human and animal pathogen that causes gastro-enteric diseases. The key to infection its entry into intestinal epithelial cells, where the bacterium resides within Salmonella-containing vacuole (SCV). also induces formation of empty macropinosomes, distinct from SCV, in vicinity entering bacteria. A few minutes after formation, SCV increases size through fusions with surrounding macropinosomes. membrane tubules emanate lead shrinkage. Here, we show these antipodal events are...
Tunnelling nanotubes (TNTs) connect distant cells and mediate cargo transfer for intercellular communication in physiological pathological contexts. How generate these actin-mediated protrusions to span lengths beyond those attainable by canonical filopodia remains unknown. Through a combination of micropatterning, microscopy, optical tweezer-based approaches, we demonstrate that TNTs formed through the outward extension actin achieve distances greater than mean length branched...
Abstract Genome-wide approaches have significantly advanced our knowledge of the repertoire RNA-binding proteins (RBPs) that associate with cellular polyadenylated mRNAs within eukaryotic cells. Recent studies focusing on RBP interactomes viral mRNAs, notably SARS-Cov-2, revealed both similarities and differences between profiles mRNAs. However, RBPome influenza virus remains unexplored. Herein, we identify RBPs mRNA encoding nucleoprotein (NP) an A virus. Focusing TDP-43, show it binds...
Abstract Motivation Quantitative mass spectrometry-based proteomics data are characterized by high rates of missing values, which may be two kinds: completely-at-random (MCAR) and not-at-random (MNAR). Despite numerous imputation methods available in the literature, none account for this duality, it would require to diagnose missingness mechanism behind each value. Results A multiple strategy is proposed combining MCAR-devoted MNAR-devoted algorithms. First, we propose an estimator...
Abstract Mitochondria are paramount to the metabolism and survival of cardiomyocytes. Here we show that Mitochondrial Fission Process 1 (MTFP1) is an inner mitochondrial membrane (IMM) protein dispensable for division yet essential cardiac structure function. Constitutive knockout cardiomyocyte MTFP1 in mice resulted a fatal, adult-onset dilated cardiomyopathy accompanied by extensive remodeling during transition heart failure. Prior onset disease, mitochondria displayed specific IMM...
Encystment is a common stress response of most protists, including free-living amoebae. Cyst formation protects the amoebae from eradication and can increase virulence bacteria they harbor. Here, we mapped global molecular changes that occur in facultatively pathogenic amoeba Acanthamoeba castellanii during early steps poorly understood process encystment. By performing transcriptomic, proteomic, phosphoproteomic experiments encystment, identified more than 150,000 previously undescribed...
Tgt is the enzyme modifying guanine (G) in tRNAs with GUN anticodon to queuosine (Q). tgt required for optimal growth of Vibrio cholerae presence sub-lethal aminoglycoside concentrations. We further explored here role Q34 efficiency codon decoding upon tobramycin exposure. characterized its impact on overall bacterial proteome, and elucidated molecular mechanisms underlying effects modification antibiotic translational stress response. Using reporters, we showed that impacts at tyrosine TAT...
Genetic feedback control represents a central paradigm in regulation of biological systems and their response to environmental change. Vector-borne pathogens have evolved complex developmental programs adapt very distinct host environments, but the relevance stage differentiation remains be elucidated. Here we address this open question trypanosomatid parasite Leishmania that shows constitutive gene transcription, thus providing unique model system assess post-transcriptional mechanisms...
The rodlet structure present on the Aspergillus fumigatus conidial surface hides conidia from immune recognition. In spite of essential biological role rodlets, molecular basis for their self-assembly and disaggregation is not known. Analysis soluble forms conidia-extracted recombinant RodA by NMR spectroscopy has indicated importance disulfide bonds identified two dynamic regions as likely candidates conformational change intermolecular interactions during conversion into amyloid structure....
Shigella flexneri invades host cells by entering within a bacteria-containing vacuole (BCV). In order to establish its niche in the cytosol, bacterium ruptures BCV. Contacts between S. BCV and infection-associated macropinosomes (IAMs) formed situ have been reported enhance disintegration. The mechanism underlying vacuolar escape remains however obscure. To decipher molecular priming communication IAMs BCV, we performed mass spectrometry-based analysis of magnetically purified from...
Insecticide resistance is a worldwide threat for vector control around the world, and Aedes aegypti, main of several arboviruses, particular concern. To better understand mechanisms resistance, four isofemale strains originally from French Guiana were isolated analysed using combined approaches. The activity detoxification enzymes involved in insecticide was assayed, mutations located at positions 1016 1534 sodium voltage-gated channel gene, which have been associated with pyrethroid aegypti...
Abstract Hepatic steatosis is the result of imbalanced nutrient delivery and metabolism in liver first hallmark Metabolic dysfunction-associated steatotic disease (MASLD). MASLD most common chronic involves accumulation excess lipids hepatocytes, inflammation, cancer. Mitochondria play central roles yet specific mitochondrial functions causally linked to remain unclear. Here, we identify Mitochondrial Fission Process 1 protein (MTFP1) as a key regulator metabolic activity liver. Deletion...
Abstract Extracellular vesicles (EVs) can participate in intercellular communication and pathogenesis. EVs contain many cargos, including proteins, the composition of differs between cell-types activation levels. Thus, plasma be used as a biomarker systemic response to infection and/or disease progression. In this study, we aimed at describing alterations protein content upon with human T-lymphotropic retrovirus type 1 (HTLV-1). HTLV-1 is etiological agent lymphoproliferative (ATL) series...
Cellular senescence is an irreversible growth arrest with a dynamic secretome, termed the senescence-associated secretory phenotype (SASP). Senescence cell-intrinsic barrier for reprogramming, whereas SASP facilitates cell fate conversion in non-senescent cells. However, mechanisms by which reprogramming-induced regulates plasticity are not well understood. Here, we investigate how heterogeneity of paracrine impacts reprogramming. We show that promotes vitro reprogramming stress-dependent...
In human cells, de novo purine nucleotide biosynthesis is known to be regulated through the formation of a metabolon called purinosome. Here, we employed bacterial two-hybrid approach characterize protein-protein interactions network among corresponding enzymes Escherichia coli. Our study revealed dense binary that connect most enzymes. Notably, PurK, an exclusive prokaryotic enzyme, appears as one central hubs this network. We further showed modifications in which disrupted several network,...
Bacteria frequently encounter low concentrations of antibiotics. Active antibiotics are commonly detected in soil and water at much below lethal concentration. Although sub-MICs do not kill bacteria, they can have a major impact on bacterial populations by contributing to the development antibiotic resistance through mutations originally sensitive bacteria or acquisition DNA from resistant bacteria. It was shown that as 100-fold MIC actually lead selection antibiotic-resistant cells. We seek...
Bacterial antibiotic resistance is a major threat to human health. A combination of antibiotics with metals among the proposed alternative treatments. Only one such successfully used in clinics; it associates metal bismuth treat infections by Helicobacter pylori. This bacterial pathogen colonizes stomach and associated gastric cancer, killing 800,000 individuals yearly. The effect H. pylori treatment not well understood particular for sublethal doses as those measured plasma treated...
Clostridioides difficile (CD) infections are defined by toxins A (TcdA) and B (TcdB) along with the binary toxin (CDT). The emergence of 'hypervirulent' (Hv) strain PR 027, 176 181, two decades ago, reshaped CD infection epidemiology in Europe. This study assessed MALDI-TOF mass spectrometry (MALDI-TOF MS) combined machine learning (ML) Deep Learning (DL) to identify toxigenic strains (producing TcdA, TcdB or without CDT) Hv strains. In total, 201 were analysed, comprising 151 (24 ToxA
Selecting proteins with significant differential abundance is the cornerstone of many relative quantitative proteomics experiments. To do so, a trade-off between p-value thresholding and fold-change can be performed because specific parameter, named fudge factor, classically noted s0 . We have observed that this factor routinely turned away from its original (and statistically valid) use, leading to important distortion in distribution p-values, jeopardizing protein analysis, as well...