Comparative genome hybridization demonstrates loss of chromosomes in Mycosphaerella graminicola isolates

S. Ben M'Barek, T.A.J. van der Lee, A.H.J. Wittenberg, H.J. Schouten, M.T. Souza, G.H.J. Kema

Research output: Chapter in Book/Report/Conference proceedingAbstract

Abstract

PR1.46: Comparative Genomic Hybridization (CGH) arrays using a high density whole genome tilling NimbleGen platform (http://www.nimblegen.com/) were employed to further understand the genome plasticity of Mycosphaerella graminicola, the causal agent of septoria tritici blotch of wheat. The availability of the finished genome of M. graminicola IPO323 (http://genome.jgi-psf.org/Mycgr1/Mycgr1.home), detailed genetic maps and karyotypes enables genome wide analysis for variation in DNA copy number and provides a new window to study chromosome polymorphism and translocations. In total, 387000 probes based on the IPO323 genome, were spotted on the array. These microarrays consist of 50 to 75–mer probes with a mean probe spacing of 118bp and a maximum stringency of 2 covering therefore the whole genome. We have analyzed the parents and progeny isolates of the M. graminicola mapping population IPO94269 and the sequenced isolate IPO323. Hybridization of M. graminicola IPO94269 displayed substantial aneuploidy against the IPO323 reference genome. Our results reveal widespread deletions between these two parental isolates and confirm the absence of two complete chromosomes in isolate IPO94269 previously demonstrated by karyotyping (Mehrabi et al. 2007) and genetic linkage analysis. Our data indicate CGH arrays can be used to detect aneuploidy, to predict the sites of chromosome breaks, and to identify recombination breakpoints. We currently exploit CGH to identify large genome differences such as deletions or translocations between isolates to understand genome plasticity and its relation with virulence, host specificity and speciation.
Original languageEnglish
Title of host publicationProceedings of the 9th European Conference on Fungal Genetics, Edinburgh, Scotland, 5-8 April 2008
PublisherECFG
Pages70
Publication statusPublished - 2008
Event9th European Conference on Fungal Genetics, Edinburgh, Scotland -
Duration: 5 Apr 20088 Apr 2008

Conference

Conference9th European Conference on Fungal Genetics, Edinburgh, Scotland
Period5/04/088/04/08

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