Appel à candidatures 2025-2026 pour stages de Master 1-2 et ingénieurs

Multi-omics analyses of DNA methylation and gene expression to elucidate mechanisms of heat stress resistance in laying chickens

UMR 1313 GABI Génétique Animale et Biologie Intégrative, équipe GiBBS

Contacts : Tatiana Zerjal, Florence Jaffrezic, Marie Courbariaux 

• Objectifs : This study proposes to investigate liver and blood heat stress-induced DNA methylation changes that may influence regulatory regions leading to modification of gene expression. Four chicken experimental lines were chosen because they represent a unique range of genetic variation for characters known to have an important role in heat tolerance and feed efficiency. The aim of this project is, on one hand, to quantify the impact of heat on the methylation pattern in different genetic backgrounds, allowing us to test for genetics by environment (GxE) interactions. On the other hand, it will allow us to correlate methylation profiles with transcriptomic profiles obtained on the same samples, by applying a variety of integrative approaches. This study is part of the European project “GEroNIMO” (https://www.geronimo-h2020.eu/) and of the ANR project "ChickStress" (https://anr.fr/Projet-ANR-13-ADAP-0014).
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Comparing genomic evaluation approaches for crossbred animals in dairy cattle.

UMR 1313 GABI Génétique Animale et Biologie Intégrative, équipe GBOS

Contacts : Pascal Croiseau, Audrey Martin

• Objectifs : The aim of this internship is to compare these three approaches for genomic evaluation of crossbred animals. The student will implement the models using a dedicated software developed by the team, and evaluate their predictive ability using real dairy cattle datasets.
  In addition, a simulation study will be carried out to determine the number of crossbred animals required to significantly improve the evaluations. This study will provide opera-tional guidelines on when to transition from applying purebred marker effects (option 1) to crossbred-inclusive evaluation models (options 2 and 3).
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Genetic influence over microbiota composition and resistance to coccidiosis in laying hens

UMR 1313 GABI Génétique Animale et Biologie Intégrative, équipe GeMS

Contacts : Fanny Calenge, Marie-Hélène Pinard-van der Laan

• Objectifs : The recruited student will use the raw sequencing data to assess the taxonomic composition of the caecal content. She/He will compare the four animal groups for their microbiota composition in order to assess: the impact of the infection on the caecal microbiota composition (comparing infected/noninfected birds), and the effect of the genetic line on the microbiota composition (comparing Fayoumi/ PA12 birds). He/she will assess differences in alpha and beta diversity between groups, and identify differentially abundant taxons. The functional potential of the differentially abundant taxons will be assessed, which will help us answering our main question: is the difference in resistance to infection mediated by the microbiota? In the medium to long term, the answer to this question will help us designing innovative strategies based on genetic selection or microbiota modulation to improve resistance to Eimeria tenella in poultry flocks.
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Single-cell characterization of host-virus interactions using porcine edited organoids

UMR 1313 GABI Génétique Animale et Biologie Intégrative, équipe GeMS

Contacts : Elisabetta Giuffra,  Giorgia Egidy 

• Objectifs : The aim of your project will be to characterize the molecular mechanisms of host response at the single-cell level, using data from our single-cell study in progress. You will learn to carry out, analyse and interpret a single-cell RNA-seq experiment at the finest biological level. You will get accustomed to the advantages and limitations of stem cells and organoids for the study of host-pathogen interactions, and with the advanced genome editing tools in use. As a member of our research team you will benefit of the mentorship from experienced researchers in bioinformatics, animal cell biology, genomics, access to state-of-the-art resources and of a supportive and collaborative, internationally embedded environment.
• Consulter l'offre : version anglaise, (pdf)