post-doctoral CONTRACT IN bioinformatiCs
GEnomiCs
and mEtagEnomiCs of
FOREST SYMBIOTIC interactions
TITLE
Exploration
of forest
symbiotic fungi genomes and functional analysis of
metatranscriptome data.
RESEARCH CONTexT
Under its researches in
biology and ecology of the
forest interactions, the UMR IaM contribute to the functional
annotation of
fungi and tree (meta)genomic sequences. A series of research
programs are developed
within it based (1) on comparative analysis of fungal genomes
and transcriptomes
and (2) on the study of metagenomes and metatranscriptomes of
forest soils
(JGI projects: CSP #305 ‘Exploring
the
Genome Diversity of Mycorrhizal Fungi to Understand the
Evolution and
Functioning of Symbiosis in Woody Shrubs and Trees’,
CSP#978 ‘Mycorrhizal
Genomics Initiative: Exploring
the Symbiotic Transcriptomes’ et CSP#570 ‘Metatranscriptomics of Forest Soil Ecosystems’).
RESEARCH PROJECT
The research project is
part of the comparative
genomics and metagenomics programs developed in the UMR IaM
Ecogenomics of
interactions team. Its aim is to identify and characterize
genetic determinants
involved in symbiotic interactions between the mycorrhizal fungi
and the forest
trees using comparative analysis of genome, transcriptome and
metatranscriptome
data. Over the last few years, UMR IaM and JGI (Joint Genome
Institute) joint
efforts have allowed the assembly and the annotation of about
thirty symbiotic
fungi genomes. Bioinformatics analysis, carried in this project,
will be
focused particularly on lignocellulose degradation enzymes
(CAZymes and
FOLymes) of the fungal genomes to build a reference database and
to better
understand their regulation. These data will also help in the
annotation and
joint analysis of environmental eukaryotic metatranscripts
sequences. The in silico
analysis of metatranscriptomic
expression data will require the development of informatics
processes dedicated
to massive datasets, and the transposition of transcriptome
analysis tools and
programs to metatranscriptome data.
methodological
approaches
- Comparative
(meta)genomics of genes repertoires.
- In silico
analysis of 454 and Illumina (HiSeq et MiSeq) sequencing data.
- Quantification of fungal
genes expression (trimming,
mapping, normalization)
- Differential gene
expression and gene co-expression
network
- Graphical visualization
of data and basic statistical
analysis.
PROFILE
- PhD in Biology,
Informatics or equivalent
- Experience in Perl and
Python programing, object
oriented development, database management (MySQL, PostgreSQL)
- Good knowledge of UNIX
environment
- Fundamentals in biology
and biostatistics for data valorization.
- Good interpersonal
skills, team spirit and autonomy.
POSITION
- Short-term contract of
15 months (renewable one year)
- The position is at INRA
in Champenoux (France).
contacts
UMR
1136, Interactions
Arbres/Microorganismes (IaM).
Annegret
KOHLER, kohler@nancy.inra.fr - Marc BUEE, buee@nancy.inra.fr - Tél : +33 (0)3 83 39 40
72.
Francis
MARTIN, fmartin@nancy.inra.fr.
Emmanuelle
MORIN, emmanuelle.morin@nancy.inra.fr - Tél : +33 (0)3 83 39
41 33
-- Emmanuelle MORIN UMR 1136 INRA/Université de Lorraine F-54280 Champenoux Tel : + 33 3 83 39 41 33 http://mycor.nancy.inra.fr