The French National Research Institute for Agriculture, Food, and the Environment (INRAE) is a public research establishment. It is a community of 12,000 people with more than 200 research units and 42 experimental units located throughout France. The institute is among the world leaders in agricultural and food sciences, in plant and animal sciences, and is 11th in the world in ecology and environment. INRAE’s main goal is to be a key player in the transitions necessary to address major global challenges. In the face of the increase in population, climate change, scarcity of resources and decline in biodiversity, the institute develops solutions for multiperformance agriculture, high quality food and sustainable management of resources and ecosystems.
Work environment, missions and activities
You will be welcomed in the Genetics, Physiology and Livestock Systems Laboratory (GenPhySE) in the Molecular Genetics and Epigenetics team (GenEpi, https://genphyse.toulouse.inra.fr/groups/genepi?page=2) located at the INRAE Toulouse-Occitania campus. You will work as part of the ANR PIPETTE and FEDER SeqOccIN projects.
These projects will have (i) scientific outputs via the characterization of the first imprinting map in the pig species and (ii) technological outputs via the evaluation of 2 epi-genotyping methods targeted to imprinted genes. In addition to shedding new light on the evolution of parental imprinting mechanisms, your research will provide a generic approach to this original molecular process for the study of birth weight variability in piglets.
Within the framework of these projects, multi-omics data (transcriptomic, genomic and epigenomic) have been produced, via long-read sequencing technologies (ONT and PacBio) or targeted region sequencing (Illumina capture), for individuals from reciprocal crosses. By analyzing this large dataset produced from an original experimental design, you will characterize, for the first time at the genome scale, the molecular signatures of parental imprinting genes in pigs.
- You will be led to:
· Use appropriate bioinformatics tools to analyze the different transcriptomic, genomic and epigenomic sequencing data from several sequencing technologies.
· Identify, via classical statistical analyses, genes showing parental imprinting in different tissues by leveraging genetic, expression and cross-over information.
· Characterize the molecular signature of the identified genes by determining the parental origin of the expressed and/or methylated alleles and thus compare inter-tissue and even inter-species variability.
· Engage in an open science approach with genericity and availability of scripts and code necessary for the analyses.
· Write and publish articles in peer-reviewed journals.
- You will join the GenEpi (Genetics and Epigenetics) team focuses on the molecular genetics dissection of Mendelian and complex traits in domestic animals, using state-of-the-art genome-wide approaches. Researches are mainly conducted in swine, rabbit, and poultry which present the common specificity to be used in crosses. To do so, we produce multi-omics datasets (genetic, genomic, epigenomic, transcriptomic) that we analyze, together with phenotypic datasets, using models adapted to the questions addressed. You will be integrated in an optimal work environment via access to the Toulouse technological infrastructures grouped within the GIS GENOTOUL (https://www.genotoul.fr/), bioinformatics (http://bioinfo.genotoul.fr/), genomics (https://get.genotoul.fr/), statistics (https://www.genotoul.fr/portfolio_page/biostatistiques/).
Training and skills
- A Ph.D. in genomics/genetics, epigenomics
- Strong background in biology.
- Proficiency in bioinformatics, programming for data analysis (R or Python).
- Proficiency in spoken and written English
- Experience with handling -omics datasets from new sequencing technologies.
- Research publications in international peer-reviewed journals.
- Ability to identify and solve problems creatively, to implement alternative solutions (initiative and creativity)
- Willingness to collaborate and interact with a multidisciplinary team of scientists (team spirit)
INRAE's life quality
By joining our teams, you benefit from (depending on the type of contract and its duration):
- up to 30 days of annual leave + 15 days "Reduction of Working Time" (for a full time);
- parenting support: CESU childcare, leisure services;
- skills development systems: training, career advise;
- social support: advice and listening, social assistance and loans;
- holiday and leisure services: holiday vouchers, accommodation at preferential rates;
- sports and cultural activities;
- collective catering.