A new physical mapping approach refines the sex-determining gene positions on the Silene latifolia Y-chromosome

Yusuke Kazama*, Kotaro Ishii, Wataru Aonuma, Tokihiro Ikeda, Hiroki Kawamoto, Ayako Koizumi, DA Filatov, Margarita Chibalina, R Bergero, Tomoko Abe, Deborah Charlesworth, Shigeyuki Kawano

*Corresponding author for this work

Research output: Contribution to journalArticle

26 Citations (Scopus)

Abstract

Sex chromosomes are particularly interesting regions of the genome for both molecular genetics and evolutionary studies; yet, for most species, we lack basic information, such as the gene order along the chromosome. Because they lack recombination, Y-linked genes cannot be mapped genetically, leaving physical mapping as the only option for establishing the extent of synteny and homology with the X chromosome. Here, we developed a novel and general method for deletion mapping of non-recombining regions by solving “the travelling salesman problem” and evaluate its accuracy using simulated datasets. Unlike the existing radiation hybrid approach, this method allows us to combine deletion mutants from different experiments and sources. We applied our method to a set of newly generated deletion mutants in the dioecious plant Silene latifolia and refined the locations of the sex-determining loci on its Y chromosome map.
Original languageEnglish
Pages (from-to)1-10
Number of pages10
JournalScientific Reports
Volume6
Issue number1
DOIs
Publication statusPrint publication - 8 Jan 2016
Externally publishedYes

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    Kazama, Y., Ishii, K., Aonuma, W., Ikeda, T., Kawamoto, H., Koizumi, A., Filatov, DA., Chibalina, M., Bergero, R., Abe, T., Charlesworth, D., & Kawano , S. (2016). A new physical mapping approach refines the sex-determining gene positions on the Silene latifolia Y-chromosome. Scientific Reports, 6(1), 1-10. https://doi.org/10.1038/srep18917