*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(a)nancy.inra.fr <mailto:kohler@nancy.inra.fr>-Marc
BUEE, buee(a)nancy.inra.fr <mailto:buee@nancy.inra.fr>-Tél : +33 (0)3 83
39 40 72.
Francis MARTIN, fmartin(a)nancy.inra.fr <mailto:fmartin@nancy.inra.fr>.
Emmanuelle MORIN, emmanuelle.morin(a)nancy.inra.fr
<mailto:emmanuelle.morin@nancy.inra.fr>- Tél : +33 (0)3 83 39 41 33
If you wish to apply for this position, email your CV (no longer than
2 pages) and a 1-page cover letter.
Deadline for receiving applications: 1 October 2014.
--
Emmanuelle MORIN
UMR 1136 INRA/Université de Lorraine
F-54280 Champenoux
Tel : + 33 3 83 39 41 33
http://mycor.nancy.inra.fr
