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Research project: IPG
 
Integrated phenotype/genotype platform for the identification of hidden genetic targets
Project time: 01.12.10-30.11.13
Cluster coordinator: Stephan Hans, Evonik Industries AG, Halle/Westfalen
Project partners: (alphabetical order)
   Dr. Christopher Bauser, GATC Biotech GmbH
   Dr. Hans Peter Fischer, Genedata Bioinformatik GmbH
    Stephan Hans, Evonik Industries AG
   Dr. Jörn Kalinowski, Universität Bielefeld

      Overview subprojects


The importance of the genome information from industrially-relevant production organisms was recognized more than a decade ago [1]. After deciphering the whole-genome sequences of different wildtype strains the sequencing approaches were focused on related production strains. Pilot studies have shown that these production strains often differ by several hundred mutations from their parental strains. There is, however, no general method available today for a systematic elucidation and characterization of complex combinatorial genetic effects required for beneficial production phenotypes. The identification of the few relevant genomic changes and the separation of those from the unwanted or even detrimental mutations is extremely challenging.

To overcome these limitations, we propose to develop an Integrated Phenotyping-Genotyping (IPG) platform (Fig. 1). The main goal of this project is to use this IPG platform for producing and correlating the necessary array of data to identify complex genetic effects positively impacting production phenotypes. To accomplish this, the IPG will collect and correlate comprehensive phenotypic and genotypic characteristics from diverse strain collections. This data will be produced within this project, and will be used for a systematic, statistics-driven analysis to pinpoint complex production-relevant mutation patterns in a complex genetic background.

The main objectives are: i) integration of genotype- and phenotype information, ii) large-scale, cross-strain comparisons on genotype- and phenotype level, iii) systematic identification of "mutation hot spots" and iv) pinpointing innovative targets for de-bottlenecking today's industrial production strains.


References:

[1] Kalinowski J, et al. , J Biotechnol. 2003 Sep 4;104(1-3):5-25.