Post-doctoral position in metagenomics of symbiotic communities of hydrothermal shrimp (M/F)

Job title:

Post-doctoral position in metagenomics of symbiotic communities of hydrothermal shrimp (M/F)

Company:

Ifremer

Job description

Description du poste et MissionsDeadline for applications: March 4th, 2025Within the UMR BEEP (Biology and Ecology of Deep Marine Environments), under the responsibility of the head of the LMEE laboratory (microbiology of extreme environments laboratory), she/he will contribute to the acquisition of knowledge to improve the understanding of the functional symbiotic colonization of two deep hydrothermal shrimp models. As part of the European project BioOcean5D (https://biocean5d.org/), the metagenomes of the symbiotic communities associated with the species Rimicaris exoculata and Rimicaris chacei at different juvenile stages will be studied. These shrimps host 3 symbiotic communities, one in the cephalothoracic cavity, one in the stomach and one in the digestive tract. If at the adult stage, these communities are characterized, R. exoculata being chemosynthetic and R. chacei mixotrophic (https://doi.org/10.1093/evolut/qpad217 ; https://doi.org/10.1186/s40168-022-01380-2 ; https://doi.org/10.1186/s40168-021-01045-6), knowledge is still lacking at the juvenile stages (https://doi.org/10.1002/ece3.70369). In collaboration with BEEP researchers and engineers, she/he will conduct bioinformatics analyzes of the metagenomes which have previously been obtained by Illumina sequencing.This project is also part of the LIFEDEEPER project ANR-22-POCE-0007.Main purposes

• Study the functioning of symbiotic communities of juvenile hydrothermal shrimp from the Mid-Atlantic Ridge using metagenomic approaches

Main Activities

• Analysis of sequencing data: characterization of the functional repertoire of symbiotic communities, gene annotation, comparative analyzes (inter-life stages, inter-species) via Ifremer’s Datarmor supercomputer
• Ensure traceability and reproducibility of bioinformatics analyses.
• Presentation of results, writing of publications

Relational fields

• Internally: staff of the UMR Biology and Ecology of Deep Marine Ecosystems (BEEP)
• Externally: staff from the SEBIMER department of Ifremer

Profil recherché

• Strong skills in bioinformatics analysis of (meta)genomic data (assembly, annotation of genes, design and implementation of scripts, pipelines, use of a computing cluster).
• Initial training: PhD in microbiology/molecular biology with advanced experience in microbial bioinformatics preferred, thesis obtained for a maximum of 3 years

Competences

• Knowledge of Python, Shell and R languages
• Best practices in bioinformatics
• Mastery of basic NGS analysis tools
• Fluency in written and spoken English.
• Knowledge of microbial symbioses appreciated
• Knowledge of microbial genomics appreciated
• Rank A publications

Personale qualities

• Aptitude for teamwork and interdisciplinary research
• Relational and communications qualities
• Autonomy (work organization)
• Scientific rigor and spirit of synthesis
• Writing skills

Informations utiles

• Localisation Plouzané – 29, France – zone de déplacement : internationale
• Contrat CDD – 18 mois
• Salaire Non défini
• Niveau de qualification Ingénieur/Cadre/Bac +5
• Expérience – 1 an, 1 à 7 ans
• Modalités de travail Temps complet
• Fonction Ingénierie – Chimie/Pharmacie/Bio.
• Secteur Secteur Energie/Environnement
• Télétravail Partiel

Working conditions

• 18 month contract
• Partial teleworking possible
• Anticipated start date: May 5th, 2025

Qui sommes nous ?Ifremer 1625 Route de Sainte Anne – 29280 Plouzané • 29280 Plouzané • FranceThe InstituteA pioneer in ocean science, IFREMER’s cutting-edge research is grounded in sustainable development and open science. Our vision is to advance science, expertise and innovation to :
– Protect and restore the ocean
– Sustainably use marine resources to benefit society
– Create and share ocean data, information & knowledge.With more than 1,500 personnel spread along the French coastline in more than 20 sites, the Institute explores the 3 great oceans : the Indian, Atlantic and Pacific oceans. A leader in ocean science, IFREMER is managing the French Oceanographic Fleet and its dedicated scientists create ground-breaking technology to push the boundaries of ocean exploration and knowledge, from the abyss to the atmosphere-ocean interface.Well-established in the international scientific community, our scientists, engineers and technicians are committed to advance knowledge about our planet’s last unexplored frontiers. They provide the science we need for informed decision-making and public policy and they transfer this knowledge and technology to businesses to fulfill public and private needs. Core to our mission is also to strengthen public awareness about the importance of understanding the ocean and its resources, and empowering future generations of leaders through education and outreach national campaigns.

Expected salary

Location

Plouzané, Finistère

Job date

Thu, 06 Feb 2025 23:50:06 GMT

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