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                <term xml:lang="en">Zymoseptoria tritici</term>
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              <p>Zymoseptoria tritici (Zt) causes Septoria leaf blotch, one of the most important worldwide diseases of wheat. Yield losses can reach 50% in disease-conducive climates and epidemics occur regularly on bread wheat (Triticum aestivum). A set of 614 Z. tritici isolates was sampled from naturally infected fields of different French regions during two years, and genotyped using 12 microsatellite markers. The data were analyzed with population genetic statistics and population structure analyses. The genetic structure of Z. tritici in France is characterized by ahigh genetic diversity (95% of unique genotypes), regular recombination (all populations were in gametic equilibrium), and large gene flow. No significant genetic differentiation was found among the sampled Z. tritici geographic populations (North and Centre to South-West of Frence). To further investigate the extent of genetic structure in Z. tritici, we re-sequenced using Illumina technology the whole genome of 30 isolates from two geographically distant populations (sampled in the North and the South-West regions of France). The NGS data were used to identify more than 4000 microsatellite markers and to analyze their variation across the 30 isolates. In this study, we compared the resolution of these new markers spread across the genome with the 12 microsatellites previously used in detecting genetic patterns in Z. tritici.</p>
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