A5052294246- Kruppel-like factors research
- Mass Spectrometry Techniques and Applications
- Mechanisms of cancer metastasis
- Advanced Proteomics Techniques and Applications
- Metabolomics and Mass Spectrometry Studies
- COVID-19 and Mental Health
- RNA Research and Splicing
- Prostate Cancer Treatment and Research
- vaccines and immunoinformatics approaches
- Cell Adhesion Molecules Research
- Systemic Sclerosis and Related Diseases
- Yeasts and Rust Fungi Studies
- Microtubule and mitosis dynamics
- Melanoma and MAPK Pathways
- Heat shock proteins research
- Protist diversity and phylogeny
- Cellular Mechanics and Interactions
- Ubiquitin and proteasome pathways
- Microfluidic and Capillary Electrophoresis Applications
- Molecular Biology Techniques and Applications
- RNA modifications and cancer
- Fungal Plant Pathogen Control
- Monoclonal and Polyclonal Antibodies Research
- Animal Virus Infections Studies
- Mitochondrial Function and Pathology
VIB-UGent Center for Medical Biotechnology
2018-2025
Ghent University
2018-2025
Ghent University Hospital
2025
University of Lisbon
2018-2019
Hospital Prof. Dr. Fernando Fonseca
2017
Institut Curie
2014-2015
Centre National de la Recherche Scientifique
2014-2015
Universidade Nova de Lisboa
2015
Rede de Química e Tecnologia
2015
Instituto Gulbenkian de Ciência
2012
Abstract Listeria monocytogenes is a foodborne intracellular bacterial pathogen leading to human listeriosis. Despite high mortality rate and increasing antibiotic resistance no clinically approved vaccine against available. Attenuated strains offer protection are tested as antitumor vectors, but would benefit from better knowledge on immunodominant vector antigens. To identify novel antigens, we screen for peptides presented the surface of infected cell lines by mass spectrometry-based...
The mitochondrial intramembrane rhomboid protease PARL has been implicated in diverse functions vitro, but its physiological role vivo remains unclear. Here we show that Parl ablation mouse causes a necrotizing encephalomyelopathy similar to Leigh syndrome, disease characterized by disrupted energy production. Mice with conditional deficiency the nervous system, not muscle, develop phenotype as germline KOs, demonstrating vital of neurological homeostasis. Genetic modification two major...
Prostate is the most frequent cancer in men. progression driven by androgen steroid hormones, and delayed deprivation therapy (ADT). Androgens control transcription stimulating receptor (AR) activity, yet also pre-mRNA splicing through less clear mechanisms. Here we find androgens regulate AR-mediated transcriptional of epithelial-specific regulator ESRP2. Both ESRP2 its close paralog ESRP1 are highly expressed primary prostate cancer. Androgen stimulation induces switches many endogenous...
MuRF1 (TRIM63) is a muscle-specific E3 ubiquitin ligase and component of the proteasome system. transcriptionally upregulated under conditions that cause muscle loss, in both rodents humans, recognized marker atrophy. In this study, we used vivo electroporation to determine whether overexpression alone can atrophy and, combination with proteomics, identify endogenous substrates skeletal muscle. Overexpression adult mice increases ubiquitination myofibrillar sarcoplasmic proteins, expression...
Data-independent acquisition (DIA) has become a well-established method for MS-based proteomics. However, the list of options to analyze this type data is quite extensive, and use spectral libraries an important factor in DIA analysis. More specifically silico predicted gaining more interest. By working with differential spike-in human standard proteins (UPS2) constant yeast tryptic digest background, we evaluated sensitivity, precision, accuracy analysis workflows compared established...
Summary Cilia and flagella are organelles essential for motility sensing of environmental stimuli. Depending on the cell type, cilia acquire a defined set functions and, accordingly, built with an appropriate length molecular composition. Several ciliary proteins display high degree conservation throughout evolution mutations in genes associated various diseases such as ciliopathies infertility. Here, we describe role highly conserved protein, Bug22, Drosophila. Previous studies unicellular...
Despite its growing popularity and use, bottom-up proteomics remains a complex analytical methodology. Its general workflow consists of three main steps: sample preparation, liquid chromatography coupled to tandem mass spectrometry (LC-MS/MS), computational data analysis. Quality assessment the different steps components this is instrumental identify technical flaws avoid loss precious measurement time material. However, extent losses along with preparation protocol, in particular, after...
Abstract In most fungi, sexual reproduction is bipolar; that is, two alternate sets of genes at a single mating-type (MAT) locus determine mating types. However, in the Basidiomycota, unique (tetrapolar) reproductive system emerged which identity governed by unlinked MAT loci, each controls independent mechanisms self/nonself recognition. Tetrapolar-to-bipolar transitions have occurred on multiple occasions resulting, for example, from linkage loci into inheritable unit. Nevertheless, owing...
Abstract Meningiomas are the most common benign brain tumors. Mutations of E3 ubiquitin ligase TRAF7 occur in 25% meningiomas and commonly cooccur with mutations KLF4, yet functional link between KLF4 remains unclear. By generating an vitro meningioma model derived from primary meningeal cells, we elucidated cooperative interactions that promote development. integrating TRAF7-driven ubiquitinome proteome alterations cells interactome, identified as a proteostatic regulator RAS-related small...
Quality control procedures play a pivotal role in ensuring the reliability and consistency of data generated mass spectrometry-based proteomics laboratories. However, lack standardized quality practices across laboratories poses challenges for comparability reproducibility. In response, we conducted harmonization study within Core Life alliance with aim establishing common framework, which facilitates comprehensive assessment identification potential sources performance drift. Through...
Analysis of the blood proteome allows identification proteins related to changes upon certain physiological conditions. The pathophysiology necrotic enteritis (NE) has been extensively studied. While intestinal have very well documented, data addressing NE-induced alterations in are scant, although these might merit diagnostics. In light recent technological advancements proteomics and pressing need for tools access gut health, current study employs mass-spectrometry (MS)-based identify...
Species of Leucosporidiales are a group psychrotolerant yeasts with biotechnological potential. In the present work, we studied phenotypic, genetic and sexual characteristics three species this genus (Leucosporidium scottii, Leucosporidiella creatinivora Le. yakutica) to clarify evolutionary relationship among these closely related taxa. From results obtained, it becomes clear that can interbreed. Although delimitation is possible for species, extent nucleotide substitutions phenotypic...
Extracellular matrix (ECM) elasticity is perceived by cells via focal adhesion structures, which transduce mechanical cues into chemical signalling to conform cell behavior. Although the contribution of ECM compliance control migration or division extensively studied, little reported regarding infectious processes. We study this phenomenon with extraintestinal Escherichia coli pathogen UTI89. show that UTI89 takes advantage, its CNF1 toxin, integrin mechanoactivation trigger invasion cells....
Androgen steroid hormones are key drivers of prostate cancer. Previous work has shown that androgens can drive the expression alternative mRNA isoforms as well transcriptional changes in cancer cells. Yet to what extent control and how these expressed differentially regulated tumours is unknown.
RNF213 is a large, poorly characterized interferon-induced protein. Mutations in are associated with predisposition for Moyamoya disease (MMD), rare cerebrovascular disorder. Recently, was found to have broad antimicrobial activity vitro and vivo, yet the molecular mechanisms behind this function remain unclear. Using mass spectrometry-based proteomics validation by real-time PCR we report here that knockdown of leads transcriptional upregulation MVP downregulation CYR61, line reported pro-...
Science & Society19 May 2021Open Access Quality standards in proteomics research facilities Common and quality procedures are essential for their users Cristina Chiva orcid.org/0000-0001-8150-6203 Centre de Regulació Genòmica, Barcelona Institute of Technology (BIST), Barcelona, Spain Univeristat Pompeu Fabra, Search more papers by this author Teresa Mendes Maia orcid.org/0000-0003-0038-9629 VIB Proteomics Core, VIB, Ghent, Belgium VIB-UGent Center Medical Biotechnology, Department...
With current trends in proteomics, especially regarding clinical and low input (to single cell) samples, it is increasingly important to both maximize the throughput of analysis maintain as much sensitivity possible. The new generation mass spectrometers (MS) are taking a huge leap sensitivity, allowing samples with shorter liquid chromatography (LC) methods while digging deep proteome. However, can be doubled by implementing dual column nano-LC-MS configuration. For this purpose, we used...
Vascular calcification (VC) is a complex process involving vascular smooth muscle cell (VSMC) osteogenic differentiation, inflammation, and extracellular vesicle (EV) communication networks. Gla rich protein (GRP) inhibitor involved in most of these processes. However, the molecular mechanism GRP VC specific characteristics, cargo, functionality calcifying EVs require further elucidation. Here, we use combination human ex vivo aortic fragments primary models to obtain new information on...
Abstract Data independent acquisition (DIA) has become a well-established method in LC-MS driven proteomics. Nonetheless, there are still lot of possibilities at the data analysis level. By benchmarking different DIA workflows using ground-truth sample, consisting differential spike-in UPS2 constant yeast background, we provide roadmap for shotgun samples based on whether sensitivity, precision or accuracy is essence. Three commonly used software tools (DIA-NN, EncyclopeDIA and Spectronaut...