A5072602067- Plant Reproductive Biology
- Plant Molecular Biology Research
- Genetic Mapping and Diversity in Plants and Animals
- Genetic and phenotypic traits in livestock
- Genomics and Phylogenetic Studies
- RNA and protein synthesis mechanisms
- Plant Physiology and Cultivation Studies
- Cancer-related molecular mechanisms research
- Molecular Biology Techniques and Applications
- RNA modifications and cancer
- Chromosomal and Genetic Variations
- Postharvest Quality and Shelf Life Management
- Gene expression and cancer classification
- RNA Research and Splicing
- Livestock and Poultry Management
- Horticultural and Viticultural Research
- Animal Genetics and Reproduction
- RNA regulation and disease
- Plant responses to elevated CO2
- Fermentation and Sensory Analysis
- Animal Nutrition and Physiology
- Plant tissue culture and regeneration
- Plant Pathogens and Fungal Diseases
- Light effects on plants
- Plant Stress Responses and Tolerance
Laboratoire de Recherche en Sciences Végétales
2021-2025
Genomics and Biotechnology of the Fruits Laboratory
2016-2025
Institut National Polytechnique de Toulouse
2014-2025
Université de Toulouse
2015-2025
Université Toulouse III - Paul Sabatier
2021-2025
Centre National de la Recherche Scientifique
2021-2025
Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement
2021
École Nationale Supérieure Agronomique de Toulouse
2014-2021
Mathématiques et Informatique Appliquées
2014-2017
Département Mathématiques et Informatique Appliquées
2014-2017
The BioMart Community Portal (www.biomart.org) is a community-driven effort to provide unified interface biomedical databases that are distributed worldwide. portal provides access numerous database projects supported by 30 scientific organizations. It includes over 800 different biological datasets spanning genomics, proteomics, model organisms, cancer data, ontology information and more. All resources available through the independently administered funded their host data federation...
The regular decrease of female fertility over time is a major concern in modern dairy cattle industry. Only half this explained by indirect response to selection on milk production, suggesting the existence other factors such as embryonic lethal genetic defects. Genomic regions harboring recessive deleterious mutations were detected three breeds identifying frequent haplotypes (>1%) showing deficit homozygotes among Illumina Bovine 50k Beadchip haplotyping data from French genomic database...
The TomExpress platform was developed to provide the tomato research community with a browser and integrated web tools for public RNA-Seq data visualization mining. To avoid major biases that can result from use of different mapping statistical processing methods, raw sequence available in databases were mapped de novo on unique reference genome post-processed using same pipeline accurate parameters. Following calculation number counts per gene each sample, communal global normalization...
The advent of large-scale gene expression technologies has helped to reveal in eukaryotic cells, the existence thousands non-coding transcripts, whose function and significance remain mostly poorly understood. Among these long RNAs (lncRNAs) are least well-studied but emerging as key regulators diverse cellular processes. In present study, we performed a survey bovine Longissimus thoraci lincRNAs (long intergenic not overlapping protein-coding transcripts). To our knowledge, this represents...
Background De novo transcriptome assembly of short reads is now a common step in expression analysis organisms lacking reference genome sequence. Several software packages are available to perform this task. Even if their results good quality it still possible improve them several ways including redundancy reduction or error correction. Trinity and Oases two commonly used de assemblers. The contig sets they produce quality. Still, compaction (number contigs needed represent the...
Despite massive research efforts, the molecular etiology of bovine polledness and developmental pathways involved in horn ontogenesis are still poorly understood. In a recent article, we provided evidence for existence at least two different alleles Polled locus identified candidate mutations each them. None these was located known coding or regulatory regions, thus adding to complexity understanding basis polledness. We confirm previous results here exhaustively identify causative mutation...
High-throughput sequencing technologies have offered in recent years new opportunities to study genome variations. These studies mostly focused on single nucleotide polymorphisms, small insertions or deletions and copy number variants. Other structural variants, such as large deletions, tandem duplications, translocations, inversions are less well-studied, despite that some an important impact phenotypes. In the present study, we performed a large-scale survey of variants cattle. We report...
Tomato is a widely cultivated crop, which can grow in many environments. However, temperature above 30°C impairs its reproduction, subsequently impacting fruit yield. We assessed the impact of high-temperature stress (HS) two tomato experimental populations, multi-parental advanced generation intercross (MAGIC) population and core-collection (CC) small-fruited accessions. Both populations were evaluated for 11 traits related to yield components, phenology quality optimal HS conditions....
All-flesh tomato cultivars are devoid of locular gel and exhibit enhanced firmness improved postharvest storage. Here, we show that SlMBP3 is a master regulator tissue in fruit deletion at the gene locus underpins trait. Intriguingly, varieties lack deleterious phenotypes reported previously for under-expressing lines which preclude any potential commercial use. We resolve causal factor this phenotypic divergence through discovery natural mutation SlAGL11 locus, close homolog SlMBP3....
Endoreduplication, during which cells increase their DNA content through successive rounds of full genome replication without cell division, is the major source endopolyploidy in higher plants. Endoreduplication plays pivotal roles plant growth and development associated with activation specific transcriptional programmes that are characteristic each type, thereby defining identity. In plants, endoreduplication found numerous organs types, especially agronomically valuable ones, such as...
The transition from flower to fruit, naturally triggered by pollination and known as fruit set, is instrumental for plant reproduction, seed formation, crop yield. Notably, this developmental process can also proceed in the absence of fertilization, although it remains unclear whether pollination-dependent pollination-independent sets undergo similar transcriptomic reprogramming. Genome-wide profiling flower-to-fruit transition, either pollination-induced or auxin treatment, shows that both...
As part of normal development most eukaryotic organisms, ranging from insects and mammals to plants, display variations in nuclear ploidy levels resulting somatic endopolyploidy. Endoreduplication is the major source endopolyploidy higher plants. a remarkable characteristic fleshy pericarp tissue developing tomato fruits, where it establishes highly integrated cellular system that acts as morphogenetic factor supporting cell growth. However, functional significance endoreduplication not...
Fruit formation comprises a series of developmental transitions among which the fruit set process is essential in determining crop yield. Yet, our understanding epigenetic landscape remodelling associated with flower-to-fruit transition remains poor. We investigated and transcriptomic reprogramming underlying pollination-dependent auxin-induced tomato (Solanum lycopersicum) using combined genomewide profiling, global ChIP-sequencing whole genomic DNA bisulfite sequencing (WGBS). Variation...
Abstract Ripening is the last stage of developmental program in fleshy fruits. During this phase, fruits become edible and acquire their unique sensory qualities post-harvest potential. Although our knowledge mechanisms that regulate fruit ripening has improved considerably over past decades, processes trigger transition to remain poorly deciphered. While transcriptomic profiling tomato (Solanum lycopersicum L.) date mainly focused on changes occurring pericarp tissues between Mature Green...
Abstract Background Genetic information based on molecular markers has increasingly being used in cattle breeding improvement programmes, as a mean to improve conventionally phenotypic selection. Advances genetics have led the identification of several genetic associated with genes affecting economic traits. Until recently, causative variants involved phenotypes interest remained difficult task. The advent novel sequencing technologies now offers new opportunity for such variants. Despite...
Ethylene modulates plant developmental processes including flower development. Previous studies have suggested ethylene participates in pollen tube (PT) elongation, and both production perception seem critical at the time of fertilization. The full gene set regulated by during PT growth is unknown. To study this, we used various EThylene Receptor (ETR) tomato (Solanum lycopersicum) mutants: etr3-ko, a loss-of-function (LOF) mutant; NR (NEVER RIPE), gain-of-function (GOF) mutant. etr3-ko PTs...
In the present work, effects of enriching tomatoes with selenium were studied in terms physiological, metabolic, and molecular processes last stages fruit development, particularly during ripening. A concentration 10 mg L–1 sodium selenate nanoparticles was used spray treatments on whole plants. No significant enrichment detected ethylene production or color changes ripening fruit. However, had an influence both primary secondary metabolic thus biochemical composition ripe tomatoes. Selenium...
Haplotype-resolved genome assemblies were produced for Chasselas and Ugni Blanc, two heterozygous Vitis vinifera cultivars by combining high-fidelity long-read sequencing high‐throughput chromosome conformation capture (Hi-C). The telomere-to-telomere full coverage of the chromosomes allowed us to assemble separately haplo-genomes both revealed structural variations between haplotypes a given cultivar. deletions/insertions, inversions, translocations, duplications provide insight into...
Free fatty acid receptors (FFAR) belong to a family of five G-protein coupled that are involved in the regulation lipid metabolism, so their loss function increases risk obesity. The aim this study was determine expansion genes encoding paralogs FFAR2 chicken, considered as model organism for developmental biology and biomedical research. By estimating gene copy number using quantitative polymerase chain reaction, genomic DNA resequencing, RNA sequencing data, we showed existence 23 ± 1.5...
Abstract Grapevine naturally endures stresses like heat, drought, and hypoxia. A recent study showed very low oxygen levels inside grape berries, linked to ethanol content. Other studies have established the link between tolerance various stresses: heat stress, high salinity. The causes of such a are not well understood. In our study, three-week-old Gamay calli, Vitis vinifera , were characterised for their endogenous concentration. Subsequently, transcriptomic these cells was conducted, 6...
Transcriptome analysis based on a de novo assembly of next generation RNA sequences is now performed routinely in many laboratories. The generated results, including contig sequences, quantification figures, functional annotations and variation discovery outputs are usually bulky quite diverse. This article presents user oriented storage visualisation environment permitting to explore the data top-down manner, going from general graphical views all possible details. software package biomart,...
RNA editing results in a post-transcriptional nucleotide change the sequence that creates an alternative not present DNA sequence. This leads to diversification of transcription products with potential functional consequences. Two substitutions are mainly described animals, from adenosine inosine (A-to-I) and cytidine uridine (C-to-U). phenomenon is more details mammals, notably since availability next generation sequencing technologies allowing whole genome screening RNA-DNA differences....