Lucille Pourcel
A5052987669- Plant Gene Expression Analysis
- Biomedical Text Mining and Ontologies
- Photosynthetic Processes and Mechanisms
- Plant Molecular Biology Research
- Bioinformatics and Genomic Networks
- Genomics and Phylogenetic Studies
- Plant biochemistry and biosynthesis
- Plant Parasitism and Resistance
- Enzyme-mediated dye degradation
- Advanced Proteomics Techniques and Applications
- Phytochemicals and Antioxidant Activities
- Scientific Computing and Data Management
- Seed Germination and Physiology
- Plant nutrient uptake and metabolism
- Plant tissue culture and regeneration
- Computational Drug Discovery Methods
- Plant Stress Responses and Tolerance
- Enzyme Structure and Function
- Machine Learning in Bioinformatics
- Metabolism and Genetic Disorders
- Vitamin K Research Studies
- Peroxisome Proliferator-Activated Receptors
- Biochemical Acid Research Studies
- Folate and B Vitamins Research
- Cell Image Analysis Techniques
SIB Swiss Institute of Bioinformatics
2023-2025
European Bioinformatics Institute
2024
University of Padua
2023
University College London
2023
Stanford University
2023
Phoenix Bioinformatics
2023
University at Buffalo, State University of New York
2023
University of Southern California
2023
University of Geneva
2012-2020
University of Lausanne
2018-2020
Abstract The aim of the UniProt Knowledgebase is to provide users with a comprehensive, high-quality and freely accessible set protein sequences annotated functional information. In this publication we describe enhancements made our data processing pipeline website adapt an ever-increasing information content. number in UniProtKB has risen over 227 million are working towards including reference proteome for each taxonomic group. We continue extract detailed annotations from literature...
Abstract Phenotypic characterization of the Arabidopsis thaliana transparent testa12 (tt12) mutant encoding a membrane protein multidrug and toxic efflux transporter family, suggested that TT12 is involved in vacuolar accumulation proanthocyanidin precursors seed. Metabolite analysis tt12 seeds reveals an absence flavan-3-ols proanthocyanidins together with reduction major flavonol quercetin-3-O-rhamnoside. The promoter active cells synthesizing proanthocyanidins. Using translational fusions...
Abstract The Arabidopsis thaliana transparent testa10 (tt10) mutant exhibits a delay in developmentally determined browning of the seed coat, also called testa. Seed coat is caused by oxidation flavonoids, particularly proanthocyanidins, which are polymers flavan-3-ol subunits such as epicatechin and catechin. tt10 seeds accumulate more monomers soluble proanthocyanidins than wild-type seeds. Moreover, intact testa cells cannot trigger H2O2-independent presence catechin, contrast with cells....
Abstract Motivation To provide high quality, computationally tractable annotation of binding sites for biologically relevant (cognate) ligands in UniProtKB using the chemical ontology ChEBI (Chemical Entities Biological Interest), to better support efforts study and predict functionally interactions between protein sequences structures small molecule ligands. Results We structured data model cognate ligand site annotations performed a complete reannotation all stable unique identifiers from...
The aim of the UniProt Knowledgebase (UniProtKB; https://www.uniprot.org/) is to provide users with a comprehensive, high-quality and freely accessible set protein sequences annotated functional information. In this publication, we describe ongoing changes our production pipeline limit available in UniProtKB high-quality, non-redundant reference proteomes. We continue manually curate scientific literature add latest data use machine learning techniques. also encourage community curation...
Plants produce a very large number of specialized compounds that must be transported from their site synthesis to the sites storage or disposal. Anthocyanin accumulation has provided powerful system elucidate molecular and cellular mechanisms associated with intracellular trafficking phytochemicals. Benefiting unique fluorescent properties anthocyanins, we show here in Arabidopsis (Arabidopsis thaliana), one route for anthocyanin transport vacuole involves vesicle-like structures shared...
Pericarp Color1 (P1) encodes an R2R3-MYB transcription factor responsible for the accumulation of insecticidal flavones in maize (Zea mays) silks and red phlobaphene pigments pericarps other floral tissues, which makes P1 important visual marker. Using genome-wide expression analyses (RNA sequencing) plants with contrasting alleles combined chromatin immunoprecipitation coupled high-throughput sequencing, we show here that regulatory functions are much broader than activation genes...
Flavonols are important compounds for conditional male fertility in maize (Zea mays) and other crops, they also contribute to protecting plants from UV-B radiation. However, little continues be known on how grasses synthesize flavonols, flavonol biosynthesis is regulated. By homology with an Arabidopsis synthase (AtFLS1), we cloned a gene encoding protein (ZmFLS1) capable of converting the dihydrokaempferol (DHK) dihydroquercetin (DHQ) dihydroflavonols corresponding kaempferol (K) quercetin...
Anthocyanins are flavonoid pigments that accumulate in the large central vacuole of most plants. Inside vacuole, anthocyanins can be found uniformly distributed or as part sub-vacuolar pigment bodies, Anthocyanic Vacuolar Inclusions (AVIs). Using Arabidopsis seedlings grown under anthocyanin-inductive conditions a model to understand how AVIs formed, we show here accumulation strongly correlates with formation cyanidin 3-glucoside (C3G) and derivatives. mutants fail glycosylate...
Summary In addition to the classical functions of flavonoids in response biotic/abiotic stress conditions, these phenolic compounds have been implicated modulation various developmental processes. These findings suggest that are more integral components plant signaling machinery than traditionally recognized. To understand how flux through flavonoid pathway affects cellular processes, we used wild‐type and chalcone isomerase mutant ( transparent testa 5 , tt5 ) seedlings grown under...
Abstract Motivation The number of protein records in the UniProt Knowledgebase (UniProtKB: https://www.uniprot.org) continues to grow rapidly as a result genome sequencing and prediction protein-coding genes. Providing functional annotation for these proteins presents significant continuing challenge. Results In response this challenge, has developed method annotation, known UniRule, based on expertly curated rules, which integrates related systems (RuleBase, HAMAP, PIRSR, PIRNR) by members...
Thiamin (vitamin B1) is made by plants and microorganisms but an essential micronutrient in the human diet. All organisms require it as a cofactor its form thiamin pyrophosphate (TPP) for activity of key enzymes central metabolism. In humans, deficiency widespread particularly populations where polished rice major component Considerable progress has been on elucidation biosynthesis pathway within last few years enabling concrete strategies biofortification purposes to be devised, with...
Vitamin B6 is a cofactor for more than 140 essential enzymatic reactions and was recently proposed as potent antioxidant, playing role in the photoprotection of plants. De novo biosynthesis vitamin has been described relatively derived from simple sugar precursors well glutamine. In addition, can be taken up exogenous sources broad range organisms, including However, specific transporters have identified only yeast. Here we assess ability family Arabidopsis purine permeases (PUPs) to...
Abstract In plants, metabolic homeostasis—the driving force of growth and development—is achieved through the dynamic behavior a network enzymes, many which depend on coenzymes for activity. The circadian clock is established to influence coordination supply demand metabolites. Metabolic oscillations independent clock, particularly at subcellular level unexplored. Here, we reveal rhythm essential coenzyme thiamine diphosphate (TDP) in Arabidopsis nucleus. We show there temporal separation...
Abstract The UniProt REST API is a freely available, open-access resource that powers the UniProt.org website and gives users flexible programmatic interaction with protein knowledge data. It provides access to UniProtKB, UniRef, UniParc, Proteomes, GeneCentric, ARBA, UniRule, ID Mapping tool, along supporting data controlled vocabularies. Users can their favorite programming language generate example code snippets databases using documentation page...
Maintaining a metabolic steady state is essential for an organism's fitness and survival when confronted with environmental stress, imbalance can be reversed by exposing the organism to fasting. Here, we attempted apply this physiological principle mammalian cell cultures improve cellular consequently their ability express recombinant proteins. We showed that transient vitamin B5 deprivation, cofactor of central metabolism, quickly irreversibly affect growth division. A selection method was...
In this study, we assessed the importance of cytoskeleton organization in mammalian cells used to produce therapeutic proteins. Two cytoskeletal genes, Actin alpha cardiac muscle 1 (ACTC1) and a guanosine triphosphate GTPase-activating protein (TAGAP), were found be upregulated highly productive protein-expressing Chinese hamster ovary (CHO) selected by deprivation vitamin B5. We report here that overexpression ACTC1 was able improve significantly recombinant production, as well decrease...