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Proc Natl Acad Sci U S A. 2018 Apr 3;115(14):3680-3685. doi: 10.1073/pnas.1717474115. Epub 2018 Mar 21.

Genetic mapping of species differences via in vitro crosses in mouse embryonic stem cells.

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Friedrich Miescher Laboratory of the Max Planck Society, 72076 Tübingen, Germany.
Max Planck Institute of Cell Biology and Genetics, 01307 Dresden, Germany.
Department of Reproduction and Development, Erasmus University Medical Center, 3015 CE Rotterdam, The Netherlands.
Department of Biomedical Molecular Biology, Ghent University, 9052 Ghent, Belgium.
Center for Inflammation Research, Vlaams Instituut voor Biotechnologie, 9052 Ghent, Belgium.
Department of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium;
Center for Plant Systems Biology, Vlaams Instituut voor Biotechnologie, 9052 Ghent, Belgium.
Friedrich Miescher Laboratory of the Max Planck Society, 72076 Tübingen, Germany;


Discovering the genetic changes underlying species differences is a central goal in evolutionary genetics. However, hybrid crosses between species in mammals often suffer from hybrid sterility, greatly complicating genetic mapping of trait variation across species. Here, we describe a simple, robust, and transgene-free technique to generate "in vitro crosses" in hybrid mouse embryonic stem (ES) cells by inducing random mitotic cross-overs with the drug ML216, which inhibits the DNA helicase Bloom syndrome (BLM). Starting with an interspecific F1 hybrid ES cell line between the Mus musculus laboratory mouse and Mus spretus (∼1.5 million years of divergence), we mapped the genetic basis of drug resistance to the antimetabolite tioguanine to a single region containing hypoxanthine-guanine phosphoribosyltransferase (Hprt) in as few as 21 d through "flow mapping" by coupling in vitro crosses with fluorescence-activated cell sorting (FACS). We also show how our platform can enable direct study of developmental variation by rederiving embryos with contribution from the recombinant ES cell lines. We demonstrate how in vitro crosses can overcome major bottlenecks in mouse complex trait genetics and address fundamental questions in evolutionary biology that are otherwise intractable through traditional breeding due to high cost, small litter sizes, and/or hybrid sterility. In doing so, we describe an experimental platform toward studying evolutionary systems biology in mouse and potentially in human and other mammals, including cross-species hybrids.


QTL mapping; evolution; genetics; interspecific hybrids; mitotic recombination

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