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Journal Article

User guide for mapping-by-sequencing in Arabidopsis

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Salomé,  PA
Department Molecular Biology, Max Planck Institute for Developmental Biology, Max Planck Society;

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Weigel,  D
Department Molecular Biology, Max Planck Institute for Developmental Biology, Max Planck Society;

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Citation

James, G., Patel, V., Nordstroem, K., Klasen, J., Salomé, P., Weigel, D., et al. (2013). User guide for mapping-by-sequencing in Arabidopsis. Genome Biology, 14(6): R61. doi:10.1186/gb-2013-14-6-r61.


Cite as: https://hdl.handle.net/21.11116/0000-000A-B3D1-F
Abstract
Mapping-by-sequencing combines genetic mapping with whole-genome sequencing in order to accelerate mutant identification. However, application of mapping-by-sequencing requires decisions on various practical settings on the experimental design that are not intuitively answered. Following an experimentally determined recombination landscape of Arabidopsis and next generation sequencing-specific biases, we simulated more than 400,000 mapping-by-sequencing experiments. This allowed us to evaluate a broad range of different types of experiments and to develop general rules for mapping-by-sequencing in Arabidopsis. Most importantly, this informs about the properties of different crossing scenarios, the number of recombinants and sequencing depth needed for successful mapping experiments.